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Conserved domains on  [gi|61657895|ref|NP_082053|]
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peroxisomal ATPase PEX1 isoform 2 [Mus musculus]

Protein Classification

PEX-2N and RecA-like_PEX1_r2 domain-containing protein( domain architecture ID 13760314)

protein containing domains PEX-2N, PEX-1N, and RecA-like_PEX1_r2

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 556-1021 2.35e-105

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


The actual alignment was detected with superfamily member TIGR01243:

Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 349.98  E-value: 2.35e-105
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    556 LLITGGKGSGKSTFAKAICKEAqdtlDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAglpsvP 635
Cdd:TIGR01243  215 VLLYGPPGTGKTLLAKAVANEA----GAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIA-----P 285

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    636 EQEHSPEAVQSQRLAHALN--DMIKEfvsTGSLVALIATSQlQQSLHPSLVSAQgihTFQCVQHLQPPNPEQRCEILHSV 713
Cdd:TIGR01243  286 KREEVTGEVEKRVVAQLLTlmDGLKG---RGRVIVIGATNR-PDALDPALRRPG---RFDREIVIRVPDKRARKEILKVH 358

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    714 VKNKLGCDisnfpDLDLQCIAKDTEAFVARDFTVLVDRA-------------IHSSLSRQHSSSREDLTLTTSDFQKALR 780
Cdd:TIGR01243  359 TRNMPLAE-----DVDLDKLAEVTHGFVGADLAALAKEAamaalrrfiregkINFEAEEIPAEVLKELKVTMKDFMEALK 433

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    781 GFLPASLRNVNLHKPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESG 860
Cdd:TIGR01243  434 MVEPSAIREVLVEVP-NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESG 512

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    861 MNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHD-NTGVTDRVVNQLLTQLDGVEGLQGVY 939
Cdd:TIGR01243  513 ANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARfDTSVTDRIVNQLLTEMDGIQELSNVV 592

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    940 VLAATSRPDLIDPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEA 1019
Cdd:TIGR01243  593 VIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAA 672


                   ..
gi 61657895   1020 LQ 1021
Cdd:TIGR01243  673 LR 674
PEX-2N pfam09263
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a Cdc48 domain 2-like ...
 17-98 1.07e-43

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a Cdc48 domain 2-like fold, with a beta-alpha-beta(3) arrangement. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


:

Pssm-ID: 462730  Cd Length: 83  Bit Score: 152.91  E-value: 1.07e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     17 VTVAFTNARDCFLHLPRRLVAQLHLLQNQAIEVASDH-QPTYLSWVEGRHFNDQSENVAEINRQVGQKLGLSSGDQVFLR 95
Cdd:pfam09263    1 VTVVFNNAKNCFLHLPSKLVSQLSLQENQALELSWGHgQPVFLSWTEGRHSSDQDENVVELNRQLGEKLGLKDGEQVFLR 80


                   ...
gi 61657895     96 PCS 98
Cdd:pfam09263   81 PCS 83
PEX-1N pfam09262
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi ...
 104-179 6.98e-31

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


:

Pssm-ID: 462729  Cd Length: 77  Bit Score: 116.06  E-value: 6.98e-31
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 61657895    104 QQVEVEPLSADDWEILELHAISLEQHLLDQIRIVFPKAVVPIWVDQQTYIFIQIVTLMPA-APYGRLETNTKLLIQP 179
Cdd:pfam09262    1 TTVEVEPLTSDDWEILELHAEFLEDNLLSQVRVVSPGQILPVWVSGTTVARFRVTSIEPAnSPFARLSPDTEVIVAP 77
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 556-1021 2.35e-105

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 349.98  E-value: 2.35e-105
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    556 LLITGGKGSGKSTFAKAICKEAqdtlDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAglpsvP 635
Cdd:TIGR01243  215 VLLYGPPGTGKTLLAKAVANEA----GAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIA-----P 285

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    636 EQEHSPEAVQSQRLAHALN--DMIKEfvsTGSLVALIATSQlQQSLHPSLVSAQgihTFQCVQHLQPPNPEQRCEILHSV 713
Cdd:TIGR01243  286 KREEVTGEVEKRVVAQLLTlmDGLKG---RGRVIVIGATNR-PDALDPALRRPG---RFDREIVIRVPDKRARKEILKVH 358

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    714 VKNKLGCDisnfpDLDLQCIAKDTEAFVARDFTVLVDRA-------------IHSSLSRQHSSSREDLTLTTSDFQKALR 780
Cdd:TIGR01243  359 TRNMPLAE-----DVDLDKLAEVTHGFVGADLAALAKEAamaalrrfiregkINFEAEEIPAEVLKELKVTMKDFMEALK 433

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    781 GFLPASLRNVNLHKPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESG 860
Cdd:TIGR01243  434 MVEPSAIREVLVEVP-NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESG 512

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    861 MNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHD-NTGVTDRVVNQLLTQLDGVEGLQGVY 939
Cdd:TIGR01243  513 ANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARfDTSVTDRIVNQLLTEMDGIQELSNVV 592

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    940 VLAATSRPDLIDPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEA 1019
Cdd:TIGR01243  593 VIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAA 672


                   ..
gi 61657895   1020 LQ 1021
Cdd:TIGR01243  673 LR 674
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 809-966 5.06e-105

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 327.85  E-value: 5.06e-105
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19526    1 VKKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYC 966
Cdd:cd19526   81 RAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLVYC 158
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 733-1021 2.46e-94

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 305.78  E-value: 2.46e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  733 IAKDTEAFVARDFTVLVDRAIHSSLSRQHSSSREDLTLTTSDFQKALRGFLPASLRNVNLHKPRDLGWDKIGGLHEVRQI 812
Cdd:COG1222   10 NIKALLALIDALQERLGVELALLLQPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEE 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  813 LMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQA 892
Cdd:COG1222   90 IREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELARE 169

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  893 AKPCILFFDEFESIAPRRGHDNT-GVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYCPPPDQ 971
Cdd:COG1222  170 KAPSIIFIDEIDAIAARRTDDGTsGEVQRTVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDE 249

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 61657895  972 VSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEALQ 1021
Cdd:COG1222  250 EAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIR 299
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 793-1011 2.02e-68

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 235.50  E-value: 2.02e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   793 HKPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELL 872
Cdd:PRK03992  124 ESP-NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELV 202

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   873 SKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGvTDRVVN----QLLTQLDGVEGLQGVYVLAATSRPD 948
Cdd:PRK03992  203 QKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTS-GDREVQrtlmQLLAEMDGFDPRGNVKIIAATNRID 281

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 61657895   949 LIDPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKAL 1011
Cdd:PRK03992  282 ILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAI 344
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 838-967 1.47e-50

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 174.32  E-value: 1.47e-50
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGV 917
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 61657895    918 TDRVVNQLLTQLDGVEGLQG-VYVLAATSRPDLIDPALLrpGRLDKCVYCP 967
Cdd:pfam00004   81 SRRVVNQLLTELDGFTSSNSkVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
PEX-2N pfam09263
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a Cdc48 domain 2-like ...
 17-98 1.07e-43

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a Cdc48 domain 2-like fold, with a beta-alpha-beta(3) arrangement. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


Pssm-ID: 462730  Cd Length: 83  Bit Score: 152.91  E-value: 1.07e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     17 VTVAFTNARDCFLHLPRRLVAQLHLLQNQAIEVASDH-QPTYLSWVEGRHFNDQSENVAEINRQVGQKLGLSSGDQVFLR 95
Cdd:pfam09263    1 VTVVFNNAKNCFLHLPSKLVSQLSLQENQALELSWGHgQPVFLSWTEGRHSSDQDENVVELNRQLGEKLGLKDGEQVFLR 80


                   ...
gi 61657895     96 PCS 98
Cdd:pfam09263   81 PCS 83
PEX-1N pfam09262
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi ...
 104-179 6.98e-31

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


Pssm-ID: 462729  Cd Length: 77  Bit Score: 116.06  E-value: 6.98e-31
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 61657895    104 QQVEVEPLSADDWEILELHAISLEQHLLDQIRIVFPKAVVPIWVDQQTYIFIQIVTLMPA-APYGRLETNTKLLIQP 179
Cdd:pfam09262    1 TTVEVEPLTSDDWEILELHAEFLEDNLLSQVRVVSPGQILPVWVSGTTVARFRVTSIEPAnSPFARLSPDTEVIVAP 77
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 838-970 4.63e-14

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 70.87  E-value: 4.63e-14
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     838 ILLYGPPGTGKTLLAGVVARESGMN---FISIKGPELLS--------------KYIGASEQAVRDVFIRAQAAKPCILFF 900
Cdd:smart00382    5 ILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEevldqllliivggkKASGSGELRLRLALALARKLKPDVLIL 84

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     901 DEFESIaprrgHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPgRLDKCVYCPPPD 970
Cdd:smart00382   85 DEITSL-----LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 556-1021 2.35e-105

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 349.98  E-value: 2.35e-105
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    556 LLITGGKGSGKSTFAKAICKEAqdtlDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAglpsvP 635
Cdd:TIGR01243  215 VLLYGPPGTGKTLLAKAVANEA----GAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIA-----P 285

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    636 EQEHSPEAVQSQRLAHALN--DMIKEfvsTGSLVALIATSQlQQSLHPSLVSAQgihTFQCVQHLQPPNPEQRCEILHSV 713
Cdd:TIGR01243  286 KREEVTGEVEKRVVAQLLTlmDGLKG---RGRVIVIGATNR-PDALDPALRRPG---RFDREIVIRVPDKRARKEILKVH 358

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    714 VKNKLGCDisnfpDLDLQCIAKDTEAFVARDFTVLVDRA-------------IHSSLSRQHSSSREDLTLTTSDFQKALR 780
Cdd:TIGR01243  359 TRNMPLAE-----DVDLDKLAEVTHGFVGADLAALAKEAamaalrrfiregkINFEAEEIPAEVLKELKVTMKDFMEALK 433

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    781 GFLPASLRNVNLHKPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESG 860
Cdd:TIGR01243  434 MVEPSAIREVLVEVP-NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESG 512

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    861 MNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHD-NTGVTDRVVNQLLTQLDGVEGLQGVY 939
Cdd:TIGR01243  513 ANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARfDTSVTDRIVNQLLTEMDGIQELSNVV 592

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    940 VLAATSRPDLIDPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEA 1019
Cdd:TIGR01243  593 VIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAA 672


                   ..
gi 61657895   1020 LQ 1021
Cdd:TIGR01243  673 LR 674
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 809-966 5.06e-105

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 327.85  E-value: 5.06e-105
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19526    1 VKKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYC 966
Cdd:cd19526   81 RAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLVYC 158
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 733-1021 2.46e-94

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 305.78  E-value: 2.46e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  733 IAKDTEAFVARDFTVLVDRAIHSSLSRQHSSSREDLTLTTSDFQKALRGFLPASLRNVNLHKPRDLGWDKIGGLHEVRQI 812
Cdd:COG1222   10 NIKALLALIDALQERLGVELALLLQPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEE 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  813 LMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQA 892
Cdd:COG1222   90 IREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELARE 169

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  893 AKPCILFFDEFESIAPRRGHDNT-GVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYCPPPDQ 971
Cdd:COG1222  170 KAPSIIFIDEIDAIAARRTDDGTsGEVQRTVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDE 249

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 61657895  972 VSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEALQ 1021
Cdd:COG1222  250 EAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIR 299
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 809-966 1.13e-82

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 266.84  E-value: 1.13e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19511    1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRGHDN-TGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYC 966
Cdd:cd19511   81 KARQAAPCIIFFDEIDSLAPRRGQSDsSGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDKLIYV 159
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 742-1020 5.79e-80

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 268.70  E-value: 5.79e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  742 ARDFTVLVDRAIHSSLSRQHSSSREDLTLTTSDFQKALRGFLPASLRNVNLHKPRDLGWDKIGGLHEVRQILMDTIQLPA 821
Cdd:COG0464   98 LLLLLLLLLLLLLLLDLERALLELLRESAEALALAAPLVTYEDIGGLEEELLELREAILDDLGGLEEVKEELRELVALPL 177

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  822 KYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFD 901
Cdd:COG0464  178 KRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLFID 257

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  902 EFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGlqGVYVLAATSRPDLIDPALLRpgRLDKCVYCPPPDQVSRLEILTVL 981
Cdd:COG0464  258 EADALAGKRGEVGDGVGRRVVNTLLTEMEELRS--DVVVIAATNRPDLLDPALLR--RFDEIIFFPLPDAEERLEIFRIH 333

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 61657895  982 SKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEAL 1020
Cdd:COG0464  334 LRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQAL 372
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 809-965 2.47e-72

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 237.78  E-value: 2.47e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19529    1 VKQELKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFR 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRGHD-NTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVY 965
Cdd:cd19529   81 KARQVAPCVIFFDEIDSIAPRRGTTgDSGVTERVVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAGRFDRLIY 158
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 806-965 8.04e-72

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 236.23  E-value: 8.04e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  806 LHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRD 885
Cdd:cd19530    1 LDHVREELTMSILRPIKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  886 VFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVY 965
Cdd:cd19530   81 VFQRARASAPCVIFFDEVDALVPKRGDGGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDIIDPAMLRPGRLDKTLY 160
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 783-1028 7.66e-69

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 246.74  E-value: 7.66e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    783 LPASLRNVNLHKPRDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMN 862
Cdd:TIGR01243  160 REKPVREEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY 239

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    863 FISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLA 942
Cdd:TIGR01243  240 FISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIG 319

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    943 ATSRPDLIDPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEALQg 1022
Cdd:TIGR01243  320 ATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALR- 398


                   ....*.
gi 61657895   1023 RLLPSG 1028
Cdd:TIGR01243  399 RFIREG 404
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 793-1011 2.02e-68

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 235.50  E-value: 2.02e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   793 HKPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELL 872
Cdd:PRK03992  124 ESP-NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELV 202

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   873 SKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGvTDRVVN----QLLTQLDGVEGLQGVYVLAATSRPD 948
Cdd:PRK03992  203 QKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTS-GDREVQrtlmQLLAEMDGFDPRGNVKIIAATNRID 281

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 61657895   949 LIDPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKAL 1011
Cdd:PRK03992  282 ILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAI 344
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 802-965 5.34e-67

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 222.94  E-value: 5.34e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  802 KIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQ 881
Cdd:cd19503    1 DIGGLDEQIASLKELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  882 AVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLD 961
Cdd:cd19503   81 NLREIFEEARSHAPSIIFIDEIDALAPKREEDQREVERRVVAQLLTLMDGMSSRGKVVVIAATNRPDAIDPALRRPGRFD 160


                 ....
gi 61657895  962 KCVY 965
Cdd:cd19503  161 REVE 164
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 809-965 5.71e-66

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 219.69  E-value: 5.71e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFAnLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19527    1 VKKEILDTIQLPLEHPELFS-SGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQ 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRGH--DNTGVTDRVVNQLLTQLDGVE-GLQGVYVLAATSRPDLIDPALLRPGRLDKCVY 965
Cdd:cd19527   80 KARDAKPCVIFFDELDSLAPSRGNsgDSGGVMDRVVSQLLAELDGMSsSGQDVFVIGATNRPDLLDPALLRPGRFDKLLY 159
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 809-965 2.19e-64

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 215.45  E-value: 2.19e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19528    1 VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFD 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRG---HDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVY 965
Cdd:cd19528   81 KARAAAPCVLFFDELDSIAKARGgniGDAGGAADRVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLDQLIY 160
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 800-962 1.51e-56

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 193.32  E-value: 1.51e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  800 WDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGAS 879
Cdd:cd19502    2 YEDIGGLDEQIREIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEG 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  880 EQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGvTDRVVN----QLLTQLDGVEGLQGVYVLAATSRPDLIDPALL 955
Cdd:cd19502   82 ARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTG-GDREVQrtmlELLNQLDGFDPRGNIKVIMATNRPDILDPALL 160


                 ....*..
gi 61657895  956 RPGRLDK 962
Cdd:cd19502  161 RPGRFDR 167
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 803-962 3.39e-56

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 192.27  E-value: 3.39e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19519    2 IGGCRKQLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDK 962
Cdd:cd19519   82 LRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDR 161
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 801-1019 1.51e-54

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 198.66  E-value: 1.51e-54
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    801 DKIGGLHEVRQILMDTIQLpAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASE 880
Cdd:TIGR01241   55 KDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGA 133

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    881 QAVRDVFIRAQAAKPCILFFDEFESIAPRRG------HDntgVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPAL 954
Cdd:TIGR01241  134 SRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGaglgggND---EREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPAL 210

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 61657895    955 LRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEA 1019
Cdd:TIGR01241  211 LRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLA 275
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 809-966 9.65e-53

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 181.71  E-value: 9.65e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  809 VRQILMDTIQLPAKYPELFAnLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFI 888
Cdd:cd19481    1 LKASLREAVEAPRRGSRLRR-YGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFE 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 61657895  889 RAQAAKPCILFFDEFESIAPRRG-HDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYC 966
Cdd:cd19481   80 RARRLAPCILFIDEIDAIGRKRDsSGESGELRRVLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 838-967 1.47e-50

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 174.32  E-value: 1.47e-50
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGV 917
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 61657895    918 TDRVVNQLLTQLDGVEGLQG-VYVLAATSRPDLIDPALLrpGRLDKCVYCP 967
Cdd:pfam00004   81 SRRVVNQLLTELDGFTSSNSkVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 794-1021 2.55e-50

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 183.43  E-value: 2.55e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   794 KPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLS 873
Cdd:PTZ00454  139 KP-DVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ 217

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   874 KYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGV---TDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLI 950
Cdd:PTZ00454  218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGAdreVQRILLELLNQMDGFDQTTNVKVIMATNRADTL 297

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 61657895   951 DPALLRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEALQ 1021
Cdd:PTZ00454  298 DPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVR 368
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
806-1012 3.62e-50

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 187.94  E-value: 3.62e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  806 LHEVRQILMDtiqlPAKYPELFANLPirqrTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKY--IGASEqaV 883
Cdd:COG0465  154 LQEIVDFLKD----PEKFTRLGAKIP----KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFvgVGASR--V 223

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  884 RDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTD---RVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRL 960
Cdd:COG0465  224 RDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGHDereQTLNQLLVEMDGFEGNEGVIVIAATNRPDVLDPALLRPGRF 303

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 61657895  961 DKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALL 1012
Cdd:COG0465  304 DRQVVVDLPDVKGREAILKVHARKKPLAPDVDLEVIARRTPGFSGADLANLV 355
ftsH CHL00176
cell division protein; Validated
 801-1017 4.39e-49

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 186.02  E-value: 4.39e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   801 DKIGGLHEVRQILMDTIQLpAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASE 880
Cdd:CHL00176  183 RDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGA 261

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   881 QAVRDVFIRAQAAKPCILFFDEFESIAPRRGhdnTGV------TDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPAL 954
Cdd:CHL00176  262 ARVRDLFKKAKENSPCIVFIDEIDAVGRQRG---AGIgggndeREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAAL 338

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 61657895   955 LRPGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQL 1017
Cdd:CHL00176  339 LRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAI 401
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 797-990 5.88e-49

proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. [Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 200312 [Multi-domain]  Cd Length: 512  Bit Score: 182.60  E-value: 5.88e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    797 DLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVA-------RESGMN---FISI 866
Cdd:TIGR03689  178 DVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVAnslaariGAEGGGksyFLNI 257

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    867 KGPELLSKYIGASEQAVRDVFIRAQAA----KPCILFFDEFESIAPRRGhdnTGVTD----RVVNQLLTQLDGVEGLQGV 938
Cdd:TIGR03689  258 KGPELLNKYVGETERQIRLIFQRAREKasegRPVIVFFDEMDSLFRTRG---SGVSSdvetTVVPQLLAEIDGVESLDNV 334

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 61657895    939 YVLAATSRPDLIDPALLRPGRLDKCVYCPPPDQVSRLEILT-VLSKSLALADD 990
Cdd:TIGR03689  335 IVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFAkYLTDDLPLPED 387
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 803-965 7.11e-48

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 168.56  E-value: 7.11e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLpAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19501    6 VAGCEEAKEELKEVVEF-LKNPEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASR 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTD---RVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGR 959
Cdd:cd19501   85 VRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGGGHDereQTLNQLLVEMDGFESNTGVIVIAATNRPDVLDPALLRPGR 164


                 ....*.
gi 61657895  960 LDKCVY 965
Cdd:cd19501  165 FDRQVY 170
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 800-1023 2.30e-47

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 176.11  E-value: 2.30e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   800 WDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGAS 879
Cdd:PTZ00361  182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDG 261

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   880 EQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVT---DRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLR 956
Cdd:PTZ00361  262 PKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEkeiQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIR 341

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 61657895   957 PGRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEALQGR 1023
Cdd:PTZ00361  342 PGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRER 408
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
813-1022 1.51e-46

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 178.30  E-value: 1.51e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   813 LMDTIQLPAKYPELFANLPirqrTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQA 892
Cdd:PRK10733  167 LVEYLREPSRFQKLGGKIP----KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKK 242

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   893 AKPCILFFDEFESIAPRRG------HDNTgvtDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYC 966
Cdd:PRK10733  243 AAPCIIFIDEIDAVGRQRGaglgggHDER---EQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVV 319

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 61657895   967 PPPDQVSRLEILTVLSKSLALADDVDLQHVASVTDSFTGADLKALLYNAQLEALQG 1022
Cdd:PRK10733  320 GLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG 375
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 803-965 6.43e-45

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 159.83  E-value: 6.43e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRtGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19509    1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPR-GILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEG--LQGVYVLAATSRPDLIDPALLRpgRL 960
Cdd:cd19509   80 VRALFALARELQPSIIFIDEIDSLLSERGSGEHEASRRVKTEFLVQMDGVLNkpEDRVLVLGATNRPWELDEAFLR--RF 157


                 ....*
gi 61657895  961 DKCVY 965
Cdd:cd19509  158 EKRIY 162
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
835-1020 1.24e-44

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 161.98  E-value: 1.24e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  835 RTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAqAAKPCILFFDEFESIAPRRGHDN 914
Cdd:COG1223   35 PRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGETARNLRKLFDFA-RRAPCVIFFDEFDAIAKDRGDQN 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  915 -TGVTDRVVNQLLTQLDGVEGlqGVYVLAATSRPDLIDPALLRpgRLDKCVYCPPPDQVSRLEILTVLSKSLALADDVDL 993
Cdd:COG1223  114 dVGEVKRVVNALLQELDGLPS--GSVVIAATNHPELLDSALWR--RFDEVIEFPLPDKEERKEILELNLKKFPLPFELDL 189

                        170       180
                 ....*....|....*....|....*..
gi 61657895  994 QHVASVTDSFTGADLKALLYNAQLEAL 1020
Cdd:COG1223  190 KKLAKKLEGLSGADIEKVLKTALKKAI 216
PEX-2N pfam09263
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a Cdc48 domain 2-like ...
 17-98 1.07e-43

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a Cdc48 domain 2-like fold, with a beta-alpha-beta(3) arrangement. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


Pssm-ID: 462730  Cd Length: 83  Bit Score: 152.91  E-value: 1.07e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     17 VTVAFTNARDCFLHLPRRLVAQLHLLQNQAIEVASDH-QPTYLSWVEGRHFNDQSENVAEINRQVGQKLGLSSGDQVFLR 95
Cdd:pfam09263    1 VTVVFNNAKNCFLHLPSKLVSQLSLQENQALELSWGHgQPVFLSWTEGRHSSDQDENVVELNRQLGEKLGLKDGEQVFLR 80


                   ...
gi 61657895     96 PCS 98
Cdd:pfam09263   81 PCS 83
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 803-962 8.51e-42

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 151.02  E-value: 8.51e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19518    2 IGGMDSTLKELCELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEEK 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGL----QGVYVLAATSRPDLIDPALLRPG 958
Cdd:cd19518   82 IRELFDQAISNAPCIVFIDEIDAITPKRESAQREMERRIVSQLLTCMDELNNEktagGPVLVIGATNRPDSLDPALRRAG 161


                 ....
gi 61657895  959 RLDK 962
Cdd:cd19518  162 RFDR 165
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 824-961 8.21e-40

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 145.71  E-value: 8.21e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  824 PELFANLPIRQRTGILLYGPPGTGKTLLAGVV-----ARESGMnfisIKGPELLSKYIGASEQAVRDVFIRAQAA-KPC- 896
Cdd:cd19504   24 PEIVEQLGCKHVKGILLYGPPGTGKTLMARQIgkmlnAREPKI----VNGPEILNKYVGESEANIRKLFADAEEEqRRLg 99

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 61657895  897 ------ILFFDEFESIAPRRGH--DNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLD 961
Cdd:cd19504  100 ansglhIIIFDEIDAICKQRGSmaGSTGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDLIDEALLRPGRLE 172
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 803-962 8.32e-39

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 142.65  E-value: 8.32e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESG-----MNFISIKGPELLSKYIG 877
Cdd:cd19517    2 IGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSkggqkVSFFMRKGADCLSKWVG 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  878 ASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRP 957
Cdd:cd19517   82 EAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPALRRP 161


                 ....*
gi 61657895  958 GRLDK 962
Cdd:cd19517  162 GRFDR 166
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 803-960 4.05e-37

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 137.56  E-value: 4.05e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRT-GILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQ 881
Cdd:cd19520    2 IGGLDEVITELKELVILPLQRPELFDNSRLLQPPkGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQK 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  882 AVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGV--EGLQGVYVLAATSRPDLIDPALLR--P 957
Cdd:cd19520   82 LVAAVFSLASKLQPSIIFIDEIDSFLRQRSSTDHEATAMMKAEFMSLWDGLstDGNCRVIVMGATNRPQDLDEAILRrmP 161


                 ...
gi 61657895  958 GRL 960
Cdd:cd19520  162 KRF 164
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 794-965 3.61e-35

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 131.91  E-value: 3.61e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  794 KPrDLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRtGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLS 873
Cdd:cd19521    1 KP-NVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWS-GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  874 KYIGASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGV-EGLQGVYVLAATSRPDLIDP 952
Cdd:cd19521   79 KWMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVgNDSQGVLVLGATNIPWQLDS 158

                        170
                 ....*....|...
gi 61657895  953 ALLRpgRLDKCVY 965
Cdd:cd19521  159 AIRR--RFEKRIY 169
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 803-965 7.18e-34

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 128.18  E-value: 7.18e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPiRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19522    2 IADLEEAKKLLEEAVVLPMWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEKL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRG-HDNTGVTDRVVNQLLTQLDGVEGLQG-------VYVLAATSRPDLIDPAL 954
Cdd:cd19522   81 VRLLFEMARFYAPTTIFIDEIDSICSRRGtSEEHEASRRVKSELLVQMDGVGGASEnddpskmVMVLAATNFPWDIDEAL 160

                        170
                 ....*....|.
gi 61657895  955 LRpgRLDKCVY 965
Cdd:cd19522  161 RR--RLEKRIY 169
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 803-965 8.63e-32

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 122.27  E-value: 8.63e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRtGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19524    2 IAGQDLAKQALQEMVILPSLRPELFTGLRAPAR-GLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQG--VYVLAATSRPDLIDPALLRpgRL 960
Cdd:cd19524   81 VRALFAVARELQPSIIFIDEVDSLLSERSEGEHEASRRLKTEFLIEFDGVQSNGDdrVLVMGATNRPQELDDAVLR--RF 158


                 ....*
gi 61657895  961 DKCVY 965
Cdd:cd19524  159 TKRVY 163
PEX-1N pfam09262
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi ...
 104-179 6.98e-31

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


Pssm-ID: 462729  Cd Length: 77  Bit Score: 116.06  E-value: 6.98e-31
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 61657895    104 QQVEVEPLSADDWEILELHAISLEQHLLDQIRIVFPKAVVPIWVDQQTYIFIQIVTLMPA-APYGRLETNTKLLIQP 179
Cdd:pfam09262    1 TTVEVEPLTSDDWEILELHAEFLEDNLLSQVRVVSPGQILPVWVSGTTVARFRVTSIEPAnSPFARLSPDTEVIVAP 77
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 797-965 1.07e-30

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 119.71  E-value: 1.07e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  797 DLGWDKIGGLHEVRQILMDTIQLPAKYPELFANLPIRQRtGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYI 876
Cdd:cd19525   18 PINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLRGPPK-GILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWV 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  877 GASEQAVRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGL--QGVYVLAATSRPDLIDPAL 954
Cdd:cd19525   97 GEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESSRRIKTEFLVQLDGATTSseDRILVVGATNRPQEIDEAA 176

                        170
                 ....*....|.
gi 61657895  955 LRpgRLDKCVY 965
Cdd:cd19525  177 RR--RLVKRLY 185
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 830-968 2.08e-25

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 103.38  E-value: 2.08e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  830 LPIRQRTGILLYGPPGTGKTLLAGVVARES---GMNFISIKGPELLSKYIGASEQ---AVRDVFIRAQAAKPCILFFDEF 903
Cdd:cd00009   14 LELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFghfLVRLLFELAEKAKPGVLFIDEI 93

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 61657895  904 ESIAPRrghdntgVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYCPP 968
Cdd:cd00009   94 DSLSRG-------AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 803-956 3.81e-21

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 91.48  E-value: 3.81e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMDTIQLPAKYPELFANLPIRQRTgILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQA 882
Cdd:cd19523    2 IAGLGALKAAIKEEVLWPLLRPDAFSGLLRLPRS-ILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKI 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 61657895  883 VRDVFIRAQAAKPCILFFDEFESIAPRRGHDNTGVTdRVVNQLLTQLDGV--EGLQGVYVLAATSRPDLIDPALLR 956
Cdd:cd19523   81 LQASFLAARCRQPSVLFISDLDALLSSQDDEASPVG-RLQVELLAQLDGVlgSGEDGVLVVCTTSKPEEIDESLRR 155
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 803-961 7.42e-17

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 79.33  E-value: 7.42e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  803 IGGLHEVRQILMdtIQLPAKYPELFA-NLPIRQrtGILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQ 881
Cdd:cd19507    2 VGGLDNLKDWLK--KRKAAFSKQASAyGLPTPK--GLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESES 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  882 AVRDVFIRAQAAKPCILFFDEFES-IAPRRGHDNTGVTDRVVNQLLTQLDgvEGLQGVYVLAATSRPDLIDPALLRPGRL 960
Cdd:cd19507   78 RLRQMIQTAEAIAPCVLWIDEIEKgFSNADSKGDSGTSSRVLGTFLTWLQ--EKKKPVFVVATANNVQSLPPELLRKGRF 155


                 .
gi 61657895  961 D 961
Cdd:cd19507  156 D 156
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 556-685 9.66e-16

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 74.94  E-value: 9.66e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    556 LLITGGKGSGKSTFAKAICKEaqdtLDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAGlpsvp 635
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKE----LGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAG----- 71

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 61657895    636 eQEHSPEAVQSQRLAHALNDMIKEFVSTGSLVALIATSQLQQSLHPSLVS 685
Cdd:pfam00004   72 -SRGSGGDSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALLG 120
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 838-970 4.63e-14

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 70.87  E-value: 4.63e-14
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     838 ILLYGPPGTGKTLLAGVVARESGMN---FISIKGPELLS--------------KYIGASEQAVRDVFIRAQAAKPCILFF 900
Cdd:smart00382    5 ILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEevldqllliivggkKASGSGELRLRLALALARKLKPDVLIL 84

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     901 DEFESIaprrgHDNTGVTDRVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPgRLDKCVYCPPPD 970
Cdd:smart00382   85 DEITSL-----LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
ycf46 CHL00195
Ycf46; Provisional
 837-1009 9.86e-14

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 75.44  E-value: 9.86e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   837 GILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSKYIGASEQAVRDVFIRAQAAKPCILFFDEFE-SIAPRRGHDNT 915
Cdd:CHL00195  261 GLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDkAFSNSESKGDS 340

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895   916 GVTDRVVNQLLTQLDgvEGLQGVYVLAATSRPDLIDPALLRPGRLDKCVYCPPPDQVSRLEILTV-LSKSLALA-DDVDL 993
Cdd:CHL00195  341 GTTNRVLATFITWLS--EKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIhLQKFRPKSwKKYDI 418

                         170
                  ....*....|....*.
gi 61657895   994 QHVASVTDSFTGADLK 1009
Cdd:CHL00195  419 KKLSKLSNKFSGAEIE 434
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 527-780 1.40e-12

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 71.10  E-value: 1.40e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  527 AMEHITHSLLGRPLSRQLMALVAGLRngaLLITGGKGSGKSTFAKAICKEaqdtLDARVETVDCKALRGKRLESIQKALE 606
Cdd:COG0464  168 ELRELVALPLKRPELREEYGLPPPRG---LLLYGPPGTGKTLLARALAGE----LGLPLIEVDLSDLVSKYVGETEKNLR 240

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  607 VAFSEAAWRQPSVILLDDLDLIAGLPSVPEQEHSPEAVQS--QRLAHALNDMIkefvstgslvaLIATSQLQQSLHPSLV 684
Cdd:COG0464  241 EVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRRVVNTllTEMEELRSDVV-----------VIAATNRPDLLDPALL 309

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  685 SaqgihTFQCVQHLQPPNPEQRCEILHSVVKnKLGCDisnfPDLDLQCIAKDTEAFVARDFTVLVDRAIhsslsrQHSSS 764
Cdd:COG0464  310 R-----RFDEIIFFPLPDAEERLEIFRIHLR-KRPLD----EDVDLEELAEATEGLSGADIRNVVRRAA------LQALR 373

                        250
                 ....*....|....*.
gi 61657895  765 REDLTLTTSDFQKALR 780
Cdd:COG0464  374 LGREPVTTEDLLEALE 389
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 838-954 4.18e-11

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 63.62  E-value: 4.18e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  838 ILLYGPPGTGKTLLAGVVA-----RESGMN----FISIKGPELLSKYIGASEQAVRDVF--IRAQAAKPCILFF---DEF 903
Cdd:cd19508   55 VLLHGPPGTGKTSLCKALAqklsiRLSSRYrygqLIEINSHSLFSKWFSESGKLVTKMFqkIQELIDDKDALVFvliDEV 134

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 61657895  904 ESIAPRRGHDNTGV--TD--RVVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPAL 954
Cdd:cd19508  135 ESLAAARSASSSGTepSDaiRVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAF 189
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 813-965 3.30e-10

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 59.67  E-value: 3.30e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  813 LMDTIQLPAKYPELFANLPIRQRTGILLYGPPGTGKTLLAGVVARESGMNFISIKgpelLSKYIGASEQavRDVFIRAQA 892
Cdd:cd19510    1 IIDDLKDFIKNEDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDICDLN----LSEVVLTDDR--LNHLLNTAP 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  893 AKPCILFFD---EFES-----IAPRRGHDNTGVTdrvVNQLLTQLDGVEGLQGVYVLAATSRPDLIDPALLRPGRLDKCV 964
Cdd:cd19510   75 KQSIILLEDidaAFESrehnkKNPSAYGGLSRVT---FSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDMKI 151


                 .
gi 61657895  965 Y 965
Cdd:cd19510  152 Y 152
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 556-683 1.18e-09

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 58.46  E-value: 1.18e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  556 LLITGGKGSGKSTFAKAICKEAqdtlDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAglpsvP 635
Cdd:cd19503   37 VLLHGPPGTGKTLLARAVANEA----GANFLSISGPSIVSKYLGESEKNLREIFEEARSHAPSIIFIDEIDALA-----P 107

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 61657895  636 EQEHSPEAVQSQRLAHALNDMiKEFVSTGSLVALIATSQLqQSLHPSL 683
Cdd:cd19503  108 KREEDQREVERRVVAQLLTLM-DGMSSRGKVVVIAATNRP-DAIDPAL 153
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 542-673 2.47e-08

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 54.46  E-value: 2.47e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  542 RQLMALVAGLRNGALLITGGKGSGKSTFAKAICKEAQDTlDARVETVDCKALRGKRLESIQK---ALEVAFSEAAWRQPS 618
Cdd:cd00009    8 EALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP-GAPFLYLNASDLLEGLVVAELFghfLVRLLFELAEKAKPG 86

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 61657895  619 VILLDDLDLIaglpsvpeqehsPEAVQsQRLAHALNDMIKEFVSTGSLVALIATS 673
Cdd:cd00009   87 VLFIDEIDSL------------SRGAQ-NALLRVLETLNDLRIDRENVRVIGATN 128
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 540-685 2.83e-08

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 54.21  E-value: 2.83e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  540 LSRQLMALVAGLRNGALLItGGKGSGKSTFAKAICKEaqdtLDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSV 619
Cdd:cd19481   14 RGSRLRRYGLGLPKGILLY-GPPGTGKTLLAKALAGE----LGLPLIVVKLSSLLSKYVGESEKNLRKIFERARRLAPCI 88

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 61657895  620 ILLDDLDLIAGlpsvpEQEHSPEAVQSQRLAHALNDMIKEFVSTGSLVaLIATSQLQQSLHPSLVS 685
Cdd:cd19481   89 LFIDEIDAIGR-----KRDSSGESGELRRVLNQLLTELDGVNSRSKVL-VIAATNRPDLLDPALLR 148
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 838-902 1.07e-07

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 55.83  E-value: 1.07e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 61657895  838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGpeLLSkyiGASEqaVRDVFIRAQAA----KPCILFFDE 902
Cdd:COG2256   52 MILWGPPGTGKTTLARLIANATDAEFVALSA--VTS---GVKD--IREVIEEARERraygRRTILFVDE 113
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 552-702 2.65e-07

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 51.22  E-value: 2.65e-07
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     552 RNGALLITGGKGSGKSTFAKAICKEAQDTlDARVETVDCKALRGKRLESIQ--------------KALEVAFSEAAWRQP 617
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPP-GGGVIYIDGEDILEEVLDQLLliivggkkasgsgeLRLRLALALARKLKP 79

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895     618 SVILLDDLDLIAglpsvpeqehspEAVQSQRLAHALNDMIKEFVSTGSLVALIATSQLQQSLHPSLVsaqgIHTFQCVQH 697
Cdd:smart00382   80 DVLILDEITSLL------------DAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALL----RRRFDRRIV 143


                    ....*
gi 61657895     698 LQPPN 702
Cdd:smart00382  144 LLLIL 148
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 838-902 3.86e-07

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 53.94  E-value: 3.86e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 61657895   838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPEllskyigASEQAVRDVFIRAQAA----KPCILFFDE 902
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGATDAPFEALSAVT-------SGVKDLREVIEEARQRrsagRRTILFIDE 100
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 990-1021 8.02e-07

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 46.76  E-value: 8.02e-07
                           10        20        30
                   ....*....|....*....|....*....|..
gi 61657895    990 DVDLQHVASVTDSFTGADLKALLYNAQLEALQ 1021
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALAALR 32
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
838-871 1.38e-06

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 51.67  E-value: 1.38e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 61657895   838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPEL 871
Cdd:PRK00080   54 VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAL 87
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 838-964 1.68e-06

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 49.06  E-value: 1.68e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPELLSkyIGASE-QAVRDVFIRAQAA-KPCILFFDEFESIAPRRGHDNT 915
Cdd:cd19512   25 ILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAP--MGREGvTAIHKVFDWANTSrRGLLLFVDEADAFLRKRSTEKI 102

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 61657895  916 GVTDR-VVNQLLTQLdGVEGLQGVYVLaATSRPDLIDPALlrPGRLDKCV 964
Cdd:cd19512  103 SEDLRaALNAFLYRT-GEQSNKFMLVL-ASNQPEQFDWAI--NDRIDEMV 148
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 838-871 2.32e-06

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 48.65  E-value: 2.32e-06
                           10        20        30
                   ....*....|....*....|....*....|....
gi 61657895    838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPEL 871
Cdd:pfam05496   36 VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAI 69
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
837-884 2.94e-06

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 51.12  E-value: 2.94e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 61657895  837 GILLYGPPGTGKTLLAGVVARESGMN--FISIKGPELLSKYIGASE---QAVR 884
Cdd:COG1224   66 GILIVGPPGTGKTALAVAIARELGEDtpFVAISGSEIYSAELKKTEflmQALR 118
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 838-869 5.63e-06

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 50.08  E-value: 5.63e-06
                         10        20        30
                 ....*....|....*....|....*....|..
gi 61657895  838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGP 869
Cdd:COG2255   57 VLLYGPPGLGKTTLAHIIANEMGVNIRITSGP 88
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 830-930 6.67e-06

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 50.23  E-value: 6.67e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    830 LPIRQRTG-ILLYGPPGTGKTLLAGVVARE-SGM------NFISIKGPELLSKYIGASEQAVRDVFIRAQAAkpcILFFD 901
Cdd:TIGR03922  306 LPVAQTSNhMLFAGPPGTGKTTIARVVAKIyCGLgvlrkpLVREVSRADLIGQYIGESEAKTNEIIDSALGG---VLFLD 382

                           90       100
                   ....*....|....*....|....*....
gi 61657895    902 EFESIAPRRGHDNTGVTDRVVNQLLTQLD 930
Cdd:TIGR03922  383 EAYTLVETGYGQKDPFGLEAIDTLLARME 411
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 555-640 3.52e-05

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 45.42  E-value: 3.52e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  555 ALLITGGKGSGKSTFAKAICKEAQDTLdarvETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAGLPSV 634
Cdd:cd19509   34 GILLYGPPGTGKTLLARAVASESGSTF----FSISASSLVSKWVGESEKIVRALFALARELQPSIIFIDEIDSLLSERGS 109


                 ....*.
gi 61657895  635 PEQEHS 640
Cdd:cd19509  110 GEHEAS 115
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 556-785 5.43e-05

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 47.59  E-value: 5.43e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    556 LLITGGKGSGKSTFAKAICKEAQdtldARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAGLPSVP 635
Cdd:TIGR01243  490 VLLFGPPGTGKTLLAKAVATESG----ANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGAR 565

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    636 EQEHSPEAVQSQRLAHAlnDMIKEFvstgSLVALIATSQLQQSLHPSLVSAQgihTFQCVQHLQPPNPEQRCEILHSVVK 715
Cdd:TIGR01243  566 FDTSVTDRIVNQLLTEM--DGIQEL----SNVVVIAATNRPDILDPALLRPG---RFDRLILVPPPDEEARKEIFKIHTR 636

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    716 NKLGCDisnfpDLDLQCIAKDTEAFVARDFTVLVDRAIHSSLSRQHSSSRE------------DLTLTTSDFQKALRGFL 783
Cdd:TIGR01243  637 SMPLAE-----DVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKeklevgeeeflkDLKVEMRHFLEALKKVK 711


                   ..
gi 61657895    784 PA 785
Cdd:TIGR01243  712 PS 713
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 837-884 8.46e-05

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 46.15  E-value: 8.46e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 61657895    837 GILLYGPPGTGKTLLAGVVARESG--MNFISIKGPELLSKYIGASE---QAVR 884
Cdd:pfam06068   52 AVLIAGPPGTGKTALAIAISKELGedTPFTSISGSEVYSLEMKKTEaltQAFR 104
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 838-871 1.33e-04

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 45.37  E-value: 1.33e-04
                           10        20        30
                   ....*....|....*....|....*....|....
gi 61657895    838 ILLYGPPGTGKTLLAGVVARESGMNFISIKGPEL 871
Cdd:TIGR00635   33 LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPAL 66
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 547-640 1.98e-04

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 43.30  E-value: 1.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  547 LVAGLRNGA--LLITGGKGSGKSTFAKAICKEAQDTLdarvETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDD 624
Cdd:cd19524   25 LFTGLRAPArgLLLFGPPGNGKTMLAKAVAAESNATF----FNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDE 100

                         90
                 ....*....|....*.
gi 61657895  625 LDLIAGLPSVPEQEHS 640
Cdd:cd19524  101 VDSLLSERSEGEHEAS 116
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 838-908 4.33e-04

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 42.18  E-value: 4.33e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    838 ILLYGPPGTGKTLLAGVVARESGM---NFISIKGPELLSK------------YIGASE-----QAVRDVFiraqaakPCI 897
Cdd:pfam07724    6 FLFLGPTGVGKTELAKALAELLFGderALIRIDMSEYMEEhsvsrligappgYVGYEEggqltEAVRRKP-------YSI 78

                           90
                   ....*....|.
gi 61657895    898 LFFDEFESIAP 908
Cdd:pfam07724   79 VLIDEIEKAHP 89
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 556-626 1.13e-03

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 41.26  E-value: 1.13e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 61657895  556 LLITGGKGSGKSTFAKAICKEAQdtldARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLD 626
Cdd:cd19520   38 VLLYGPPGCGKTMLAKATAKEAG----ARFINLQVSSLTDKWYGESQKLVAAVFSLASKLQPSIIFIDEID 104
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 519-650 1.28e-03

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 41.02  E-value: 1.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  519 GVSALGASAMEHITHSLLGRPLSRQLMALVAglrngALLITGGKGSGKSTFAKAICKEaqdtLDARVETVDCKALRGKRL 598
Cdd:cd19523    4 GLGALKAAIKEEVLWPLLRPDAFSGLLRLPR-----SILLFGPRGTGKTLLGRCLASQ----LGATFLRLRGSTLVAKWA 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 61657895  599 ESIQKALEVAFSEAAWRQPSVILLDDLDLIagLPSVPEQEHSPEAVQSQRLA 650
Cdd:cd19523   75 GEGEKILQASFLAARCRQPSVLFISDLDAL--LSSQDDEASPVGRLQVELLA 124
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
832-858 1.34e-03

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 41.69  E-value: 1.34e-03
                         10        20
                 ....*....|....*....|....*..
gi 61657895  832 IRQRTGILLYGPPGTGKTLLAGVVARE 858
Cdd:COG1484   96 IERGENLILLGPPGTGKTHLAIALGHE 122
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 555-640 1.59e-03

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 40.62  E-value: 1.59e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  555 ALLITGGKGSGKSTFAKAICKEAQDTLdarvETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAGLPSV 634
Cdd:cd19521   42 GILLYGPPGTGKSYLAKAVATEANSTF----FSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGE 117


                 ....*.
gi 61657895  635 PEQEHS 640
Cdd:cd19521  118 GESEAS 123
AAA_16 pfam13191
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 825-941 1.75e-03

AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 433025 [Multi-domain]  Cd Length: 167  Bit Score: 40.56  E-value: 1.75e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895    825 ELFANLPIRQRTGILLYGPPGTGKTLLAGVVAR---ESGMNFISIKGPELLSkYIGASEQAVRDVFIRA----QAAKPCI 897
Cdd:pfam13191   14 DALDRVRSGRPPSVLLTGEAGTGKTTLLRELLRaleRDGGYFLRGKCDENLP-YSPLLEALTREGLLRQlldeLESSLLE 92

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....
gi 61657895    898 LFFDEFESIAPRRGHDNTGVTDRVVNQLLTQLDGVEGLQGVYVL 941
Cdd:pfam13191   93 AWRAALLEALAPVPELPGDLAERLLDLLLRLLDLLARGERPLVL 136
PRK08116 PRK08116
hypothetical protein; Validated
 833-858 3.99e-03

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 40.77  E-value: 3.99e-03
                          10        20
                  ....*....|....*....|....*.
gi 61657895   833 RQRTGILLYGPPGTGKTLLAGVVARE 858
Cdd:PRK08116  112 KENVGLLLWGSVGTGKTYLAACIANE 137
PRK13341 PRK13341
AAA family ATPase;
839-902 4.11e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 41.58  E-value: 4.11e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 61657895   839 LLYGPPGTGKTLLAGVVARESGMNFISIKGpeLLSkyiGASEqaVRDVFIRAQA-----AKPCILFFDE 902
Cdd:PRK13341   56 ILYGPPGVGKTTLARIIANHTRAHFSSLNA--VLA---GVKD--LRAEVDRAKErlerhGKRTILFIDE 117
NACHT COG5635
Predicted NTPase, NACHT family domain [Signal transduction mechanisms];
556-711 4.63e-03

Predicted NTPase, NACHT family domain [Signal transduction mechanisms];


Pssm-ID: 444362 [Multi-domain]  Cd Length: 935  Bit Score: 41.33  E-value: 4.63e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  556 LLITGGKGSGKSTFAKAICKE-AQDTLDARVET---VDCKALRGKR--LESIQKALEVAFSE-----AAWRQ--PSVILL 622
Cdd:COG5635  183 LLILGEPGSGKTTLLRYLALElAERYLDAEDPIpilIELRDLAEEAslEDLLAEALEKRGGEpedalERLLRngRLLLLL 262

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  623 DDLDLIaglpsvpeqehsPEAVQSQRLAHAlndmIKEFVSTGSLVALIATSqlqqslHPSLVSAQGIHTFQCVQhLQPPN 702
Cdd:COG5635  263 DGLDEV------------PDEADRDEVLNQ----LRRFLERYPKARVIITS------RPEGYDSSELEGFEVLE-LAPLS 319


                 ....*....
gi 61657895  703 PEQRCEILH 711
Cdd:COG5635  320 DEQIEEFLK 328
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 831-904 4.73e-03

Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410907 [Multi-domain]  Cd Length: 178  Bit Score: 39.47  E-value: 4.73e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  831 PIRQRTGILLYGPPGTGKTLLAGVVARE---SGMNFISIKGPELLSK------------YIGASEqavRDVFIRAQAAKP 895
Cdd:cd19499   37 PNRPIGSFLFLGPTGVGKTELAKALAELlfgDEDNLIRIDMSEYMEKhsvsrligappgYVGYTE---GGQLTEAVRRKP 113

                         90
                 ....*....|
gi 61657895  896 -CILFFDEFE 904
Cdd:cd19499  114 ySVVLLDEIE 123
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 556-683 4.86e-03

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 39.34  E-value: 4.86e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  556 LLITGGKGSGKSTFAKAICKEAqdtlDARVETVDCKALRGKRLESIQKALEVAFSEAAWRQPSVILLDDLDLIAglpsvP 635
Cdd:cd19519   37 ILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDEIDAIA-----P 107

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 61657895  636 EQEHSPEAVQSQRLAHALNDMikEFVSTGSLVALIATSQLQQSLHPSL 683
Cdd:cd19519  108 KREKTHGEVERRIVSQLLTLM--DGLKQRAHVIVMAATNRPNSIDPAL 153
PRK04195 PRK04195
replication factor C large subunit; Provisional
 838-863 5.21e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 41.06  E-value: 5.21e-03
                          10        20
                  ....*....|....*....|....*.
gi 61657895   838 ILLYGPPGTGKTLLAGVVAREsgMNF 863
Cdd:PRK04195   42 LLLYGPPGVGKTSLAHALAND--YGW 65
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 838-902 5.67e-03

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 40.15  E-value: 5.67e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 61657895  838 ILLYGPPGTGKTLLAGVVARESGMNFISIKG-PELL-SKYIGAS---EQAVRDVFIR----AQaakpcILFFDE 902
Cdd:COG0714   34 LLLEGVPGVGKTTLAKALARALGLPFIRIQFtPDLLpSDILGTYiydQQTGEFEFRPgplfAN-----VLLADE 102
DnaA COG0593
Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];
556-712 6.91e-03

Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];


Pssm-ID: 440358 [Multi-domain]  Cd Length: 303  Bit Score: 40.17  E-value: 6.91e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  556 LLITGGKGSGKSTFAKAICKEAQDTL-DARVETVDC--------KALRGKRLESIQKALevafseaawRQPSVILLDDLD 626
Cdd:COG0593   37 LFLYGGVGLGKTHLLHAIGNEALENNpGARVVYLTAeeftndfiNAIRNNTIEEFKEKY---------RSVDVLLIDDIQ 107

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  627 LIAGLPSVpeQEhspeavqsqRLAHALNdmikEFVSTGSlvALIATS-----QLqQSLHPSLVS--AQGIHTfqcvqHLQ 699
Cdd:COG0593  108 FLAGKEAT--QE---------EFFHTFN----ALREAGK--QIVLTSdrppkEL-PGLEERLRSrlEWGLVV-----DIQ 164

                        170
                 ....*....|...
gi 61657895  700 PPNPEQRCEILHS 712
Cdd:COG0593  165 PPDLETRIAILRK 177
CobU cd00544
Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU); CobU is a ...
 557-625 7.15e-03

Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU); CobU is a bacterial bifunctional cobalbumin biosynthesis enzyme which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity and is a key participant in the final stages of cobalamin biosynthesis where it is involved in nucleotide loop assembly. CobU is a homotrimer which functions both as a kinase and as a nucleotidyl transferase. It phosphorylates of adenosylcobinamide to form adenosylcobinamide phosphate (using a variety of nucleotides as the phosphate donor) and then adds GMP to adenosylcobinamide phosphate to form adenosylcobinamide-GDP, specifically using GTP.


Pssm-ID: 410861  Cd Length: 166  Bit Score: 38.67  E-value: 7.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61657895  557 LITGGKGSGKSTFA-KAICKEAQD--------TLDA----RVETvdCKALRGKRLESIQKALEVAFSEAAWRQPSVILLD 623
Cdd:cd00544    2 LVTGGARSGKSRFAeRLALQSGKDvvyvataeAFDDemaeRIER--HRKRRPAGWQTVEEPLDLAEALRALPKGSVVLLD 79


                 ..
gi 61657895  624 DL 625
Cdd:cd00544   80 CL 81
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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