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Conserved domains on  [gi|295870887|gb|ADG49382|]
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CG1618, partial [Drosophila melanogaster]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 94-235 1.66e-101

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd19504:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 177  Bit Score: 292.09  E-value: 1.66e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  94 GIGGLDKEFNSIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGES 173
Cdd:cd19504    1 GIGGLDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGES 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295870887 174 EANVRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19504   81 EANIRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDG 142
 
Name Accession Description Interval E-value
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 94-235 1.66e-101

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: 292.09  E-value: 1.66e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  94 GIGGLDKEFNSIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGES 173
Cdd:cd19504    1 GIGGLDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGES 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295870887 174 EANVRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19504   81 EANIRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDG 142
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 95-235 4.35e-36

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 129.74  E-value: 4.35e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFasrVFP---PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArePKI-VNGPQILDKYV 170
Cdd:COG1222   80 IGGLDEQIEEI-REAV---ELPlknPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGA--PFIrVRGSELVSKYI 153

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 171 GESEANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDG 235
Cdd:COG1222  154 GEGARNVREVFELAREKAPS--------IIFIDEIDAIAARRTD-DGTSGEVQRTVNQLLAELDG 209
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 131-235 8.09e-30

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: 108.06  E-value: 8.09e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQILDKYVGESEANVRRLFAEAEEeekrlgpnSGLHIIIFDEIDAICK 210
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGA-PFIEISGSELVSKYVGESEKRLRELFEAAKK--------LAPCVIFIDEIDALAG 71

                          90       100
                  ....*....|....*....|....*
gi 295870887  211 QRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:pfam00004  72 SRGS--GGDSESRRVVNQLLTELDG 94
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 95-235 1.40e-28

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: 113.08  E-value: 1.40e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887   95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESE 174
Cdd:TIGR01243 180 IGGLKEAKEKI-REMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI-NGPEIMSKYYGESE 257

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 295870887  175 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDG 235
Cdd:TIGR01243 258 ERLREIFKEAEEN----APS----IIFIDEIDAIAPKREEVTGE--VEKRVVAQLLTLMDG 308
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 95-235 2.12e-20

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 88.35  E-value: 2.12e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 174
Cdd:PRK03992 133 IGGLEEQIREV-REAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV-GSELVQKFIGEGA 210

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 175 ANVRRLFAEAEEEEkrlgPNsglhiIIF-DEIDAICKQRgSVAGNSG---VHDTVVnQLLTKIDG 235
Cdd:PRK03992 211 RLVRELFELAREKA----PS-----IIFiDEIDAIAAKR-TDSGTSGdreVQRTLM-QLLAEMDG 264
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 129-230 6.65e-08

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: 50.45  E-value: 6.65e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887   129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIV----------------NGPQILDKYVGESEANVRRLFAEAEEEEKRlg 192
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGVIyidgedileevldqllLIIVGGKKASGSGELRLRLALALARKLKPD-- 80

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 295870887   193 pnsglhIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLL 230
Cdd:smart00382  81 ------VLILDEITSLLDAEQEALLLLLEELRLLLLLK 112
 
Name Accession Description Interval E-value
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 94-235 1.66e-101

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: 292.09  E-value: 1.66e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  94 GIGGLDKEFNSIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGES 173
Cdd:cd19504    1 GIGGLDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGES 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295870887 174 EANVRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19504   81 EANIRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDG 142
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 94-235 1.51e-37

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: 128.95  E-value: 1.51e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  94 GIGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKY 169
Cdd:cd19503    1 DIGGLDEQIASL-KELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAV-----ANEAGAnflsISGPSIVSKY 74

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 295870887 170 VGESEANVRRLFAEAEEeekrLGPNsglhIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19503   75 LGESEKNLREIFEEARS----HAPS----IIFIDEIDALAPKREE--DQREVERRVVAQLLTLMDG 130
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 95-235 4.35e-36

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 129.74  E-value: 4.35e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFasrVFP---PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArePKI-VNGPQILDKYV 170
Cdd:COG1222   80 IGGLDEQIEEI-REAV---ELPlknPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGA--PFIrVRGSELVSKYI 153

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 171 GESEANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDG 235
Cdd:COG1222  154 GEGARNVREVFELAREKAPS--------IIFIDEIDAIAARRTD-DGTSGEVQRTVNQLLAELDG 209
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 104-235 7.76e-34

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: 119.31  E-value: 7.76e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 104 SIFRRAFASRVFPPelVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQILDKYVGESEANVRRLFAE 183
Cdd:cd19481    4 SLREAVEAPRRGSR--LRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGL-PLIVVKLSSLLSKYVGESEKNLRKIFER 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 295870887 184 AEeeekRLGPnsglHIIIFDEIDAICKQRGSVaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19481   81 AR----RLAP----CILFIDEIDAIGRKRDSS-GESGELRRVLNQLLTELDG 123
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 117-235 1.74e-33

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: 118.37  E-value: 1.74e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAEAeeeeKRLGPNsg 196
Cdd:cd19529   16 PEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFIS-VKGPELLSKWVGESEKAIREIFRKA----RQVAPC-- 88

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 295870887 197 lhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19529   89 --VIFFDEIDSIAPRRGT-TGDSGVTERVVNQLLTELDG 124
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 117-235 2.75e-33

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: 117.77  E-value: 2.75e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAEeeekrlg 192
Cdd:cd19511   16 PDAFKRLGIRPPKGVLLYGPPGCGKTLLAKAL-----ASEAGLnfisVKGPELFSKYVGESERAVREIFQKAR------- 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 295870887 193 pNSGLHIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19511   84 -QAAPCIIFFDEIDSLAPRRGQ-SDSSGVTDRVVSQLLTELDG 124
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 95-235 8.06e-33

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: 122.71  E-value: 8.06e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIFRRAFASRVFPpELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArePKI-VNGPQILDKYVGES 173
Cdd:COG0464  159 LGGLEEVKEELRELVALPLKRP-ELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGL--PLIeVDLSDLVSKYVGET 235

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295870887 174 EANVRRLFAEAEEEEKrlgpnsglHIIIFDEIDAICKQRGSVagNSGVHDTVVNQLLTKIDG 235
Cdd:COG0464  236 EKNLREVFDKARGLAP--------CVLFIDEADALAGKRGEV--GDGVGRRVVNTLLTEMEE 287
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 114-235 5.07e-31

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: 112.22  E-value: 5.07e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 114 VFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAEAEEeekrlgp 193
Cdd:cd19528   13 VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFIS-VKGPELLTMWFGESEANVRDIFDKARA------- 84

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 295870887 194 nSGLHIIIFDEIDAICKQRG-SVAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19528   85 -AAPCVLFFDELDSIAKARGgNIGDAGGAADRVINQILTEMDG 126
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 95-235 2.39e-30

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: 110.60  E-value: 2.39e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREpKIVNGPQILDKYVGESE 174
Cdd:cd19519    2 IGGCRKQLAQI-REMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFF-FLINGPEIMSKLAGESE 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 295870887 175 ANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDG 235
Cdd:cd19519   80 SNLRKAFEEAEKNAPA--------IIFIDEIDAIAPKREKTHGE--VERRIVSQLLTLMDG 130
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 131-235 8.09e-30

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: 108.06  E-value: 8.09e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQILDKYVGESEANVRRLFAEAEEeekrlgpnSGLHIIIFDEIDAICK 210
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGA-PFIEISGSELVSKYVGESEKRLRELFEAAKK--------LAPCVIFIDEIDALAG 71

                          90       100
                  ....*....|....*....|....*
gi 295870887  211 QRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:pfam00004  72 SRGS--GGDSESRRVVNQLLTELDG 94
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 95-235 1.40e-28

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: 113.08  E-value: 1.40e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887   95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESE 174
Cdd:TIGR01243 180 IGGLKEAKEKI-REMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI-NGPEIMSKYYGESE 257

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 295870887  175 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDG 235
Cdd:TIGR01243 258 ERLREIFKEAEEN----APS----IIFIDEIDAIAPKREEVTGE--VEKRVVAQLLTLMDG 308
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 117-235 7.17e-28

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: 103.66  E-value: 7.17e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgpnsg 196
Cdd:cd19526   16 PKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFIS-VKGPELLNKYIGASEQNVRDLFSRAQSAKP------- 87

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 295870887 197 lHIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19526   88 -CILFFDEFDSIAPKRGH--DSTGVTDRVVNQLLTQLDG 123
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 40-235 7.73e-27

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: 108.07  E-value: 7.73e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887   40 KDTAMRNVRfgRILGNTVVQFEKAENSSLNLQG--------KSKGKVVRQSII--------NPDWDfgkmGIGGLDkEFN 103
Cdd:TIGR01243 390 KEAAMAALR--RFIREGKINFEAEEIPAEVLKElkvtmkdfMEALKMVEPSAIrevlvevpNVRWS----DIGGLE-EVK 462

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  104 SIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAE 183
Cdd:TIGR01243 463 QELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIA-VRGPEILSKWVGESEKAIREIFRK 541

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 295870887  184 AEEeekrlgpnSGLHIIIFDEIDAICKQRGSVAGNSgVHDTVVNQLLTKIDG 235
Cdd:TIGR01243 542 ARQ--------AAPAIIFFDEIDAIAPARGARFDTS-VTDRIVNQLLTEMDG 584
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 95-235 2.70e-26

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: 100.10  E-value: 2.70e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 174
Cdd:cd19502    5 IGGLDEQIREI-REVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVV-GSELVQKYIGEGA 82

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 295870887 175 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQR--GSVAGNSGVHDTVVnQLLTKIDG 235
Cdd:cd19502   83 RLVRELFEMAREK----APS----IIFIDEIDAIGAKRfdSGTGGDREVQRTML-ELLNQLDG 136
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 117-235 4.93e-26

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: 99.12  E-value: 4.93e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVeQLGCKHVKGILLYGPPGTGKTLMARQIGT--MLNAREpkiVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgpn 194
Cdd:cd19527   16 PELF-SSGLRKRSGILLYGPPGTGKTLLAKAIATecSLNFLS---VKGPELINMYIGESEANVREVFQKARDAKP----- 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 295870887 195 sglHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19527   87 ---CVIFFDELDSLAPSRGNSGDSGGVMDRVVSQLLAELDG 124
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 117-235 8.64e-25

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: 96.02  E-value: 8.64e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAEeeekrlg 192
Cdd:cd19530   19 PDIYKALGIDLPTGVLLYGPPGCGKTLLAKAV-----ANESGAnfisVKGPELLNKYVGESERAVRQVFQRAR------- 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 295870887 193 pNSGLHIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19530   87 -ASAPCVIFFDEVDALVPKRGD--GGSWASERVVNQLLTEMDG 126
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
118-235 2.11e-22

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 91.87  E-value: 2.11e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 118 ELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPK----IVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgp 193
Cdd:COG1223   25 ENLRKFGLWPPRKILFYGPPGTGKTMLAEAL-----AGELKlpllTVRLDSLIGSYLGETARNLRKLFDFARRAPC---- 95

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 295870887 194 nsglhIIIFDEIDAICKQRGSVAGNSGVHDtVVNQLLTKIDG 235
Cdd:COG1223   96 -----VIFFDEFDAIAKDRGDQNDVGEVKR-VVNALLQELDG 131
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 117-235 1.39e-21

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: 87.67  E-value: 1.39e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTmlNAREPKI-VNGPQILDKYVGESEANVRRLFAEAeeeeKRLGPNs 195
Cdd:cd19501   26 PEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG--EAGVPFFsISGSDFVEMFVGVGASRVRDLFEQA----KKNAPC- 98

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 295870887 196 glhIIIFDEIDAICKQRGsvAGNSGVHDTV---VNQLLTKIDG 235
Cdd:cd19501   99 ---IVFIDEIDAVGRKRG--AGLGGGHDEReqtLNQLLVEMDG 136
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 95-235 4.40e-21

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: 86.41  E-value: 4.40e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIFRRAFASRVFPpELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIV----NGPQILDKYV 170
Cdd:cd19517    2 IGGLSHYINQLKEMVFFPLLYP-EVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSffmrKGADCLSKWV 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 171 GESEANVRRLFaeaeEEEKRLGPNsglhIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19517   81 GEAERQLRLLF----EEAYRMQPS----IIFFDEIDGLAPVRSS--KQEQIHASIVSTLLALMDG 135
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 95-235 6.96e-21

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: 85.92  E-value: 6.96e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYV 170
Cdd:cd19518    2 IGGMDSTLKEL-CELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAI-----AGELKVpflkISATEIVSGVS 75

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 171 GESEANVRRLFAEAeeeeKRLGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDG 235
Cdd:cd19518   76 GESEEKIRELFDQA----ISNAPC----IVFIDEIDAITPKRESAQRE--MERRIVSQLLTCMDE 130
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 95-235 2.12e-20

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 88.35  E-value: 2.12e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 174
Cdd:PRK03992 133 IGGLEEQIREV-REAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV-GSELVQKFIGEGA 210

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 175 ANVRRLFAEAEEEEkrlgPNsglhiIIF-DEIDAICKQRgSVAGNSG---VHDTVVnQLLTKIDG 235
Cdd:PRK03992 211 RLVRELFELAREKA----PS-----IIFiDEIDAIAAKR-TDSGTSGdreVQRTLM-QLLAEMDG 264
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 117-235 2.78e-20

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: 83.94  E-value: 2.78e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVeQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAEEeekrLGPNsg 196
Cdd:cd19509   22 PDLF-PGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSI-SASSLVSKWVGESEKIVRALFALARE----LQPS-- 93

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 295870887 197 lhIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19509   94 --IIFIDEIDSLLSERGS--GEHEASRRVKTEFLVQMDG 128
ftsH CHL00176
cell division protein; Validated
 95-235 5.04e-20

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 88.18  E-value: 5.04e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLD---KEFNSIfrrafASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTmlNAREPKI-VNGPQILDKYV 170
Cdd:CHL00176 185 IAGIEeakEEFEEV-----VSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG--EAEVPFFsISGSEFVEMFV 257

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 295870887 171 GESEANVRRLFAEAEEeekrlgpNSGLhIIIFDEIDAICKQRGS-VAGNSGVHDTVVNQLLTKIDG 235
Cdd:CHL00176 258 GVGAARVRDLFKKAKE-------NSPC-IVFIDEIDAVGRQRGAgIGGGNDEREQTLNQLLTEMDG 315
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 95-235 3.00e-18

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 82.90  E-value: 3.00e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 174
Cdd:PTZ00361 185 IGGLEQQIQEI-KEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVV-GSELIQKYLGDGP 262

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 295870887 175 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQR--GSVAGNSGVHDTVVnQLLTKIDG 235
Cdd:PTZ00361 263 KLVRELFRVAEEN----APS----IVFIDEIDAIGTKRydATSGGEKEIQRTML-ELLNQLDG 316
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
117-235 4.29e-17

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 79.69  E-value: 4.29e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 117 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFaeaeEEEKRLG 192
Cdd:PRK10733 174 PSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAI-----AGEAKVpfftISGSDFVEMFVGVGASRVRDMF----EQAKKAA 244

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 295870887 193 PNsglhIIIFDEIDAICKQRGsvAGNSGVHD---TVVNQLLTKIDG 235
Cdd:PRK10733 245 PC----IIFIDEIDAVGRQRG--AGLGGGHDereQTLNQMLVEMDG 284
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
122-235 2.14e-16

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 77.38  E-value: 2.14e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 122 QLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAeeeeKRLGPnsgl 197
Cdd:COG0465  169 RLGAKIPKGVLLVGPPGTGKTLLAKAV-----AGEAGVpffsISGSDFVEMFVGVGASRVRDLFEQA----KKNAP---- 235

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 295870887 198 hIIIF-DEIDAICKQRGsvAGNSGVHD----TvVNQLLTKIDG 235
Cdd:COG0465  236 -CIIFiDEIDAVGRQRG--AGLGGGHDereqT-LNQLLVEMDG 274
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 129-235 2.21e-15

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: 71.17  E-value: 2.21e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIG-----TMLNarepkiVNGPQILDKYVGESEANVRRLFaeaeEEEKRLGPNSglhiIIFD 203
Cdd:cd19522   34 KGVLMVGPPGTGKTLLAKAVAtecgtTFFN------VSSSTLTSKYRGESEKLVRLLF----EMARFYAPTT----IFID 99

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 295870887 204 EIDAICKQRGSvagnSGVHDT---VVNQLLTKIDG 235
Cdd:cd19522  100 EIDSICSRRGT----SEEHEAsrrVKSELLVQMDG 130
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 95-235 2.87e-15

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 74.03  E-value: 2.87e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 174
Cdd:PTZ00454 147 IGGLDIQKQEI-REAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVV-GSEFVQKYLGEGP 224

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295870887 175 ANVRRLFaeaeeeekRLGPNSGLHIIIFDEIDAICKQR-GSVAGNSGVHDTVVNQLLTKIDG 235
Cdd:PTZ00454 225 RMVRDVF--------RLARENAPSIIFIDEVDSIATKRfDAQTGADREVQRILLELLNQMDG 278
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 129-235 9.39e-14

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: 66.40  E-value: 9.39e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNAREPKI--VNGPQILDKYVGESEANVRRLFAEAEEEEKRLGPnsglhIIIFDEID 206
Cdd:cd00009   20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFlyLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPG-----VLFIDEID 94

                         90       100
                 ....*....|....*....|....*....
gi 295870887 207 AIckqrgsvagNSGVHDTVVNQLLTKIDG 235
Cdd:cd00009   95 SL---------SRGAQNALLRVLETLNDL 114
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 129-235 1.18e-13

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: 66.42  E-value: 1.18e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAI 208
Cdd:cd19521   41 SGILLYGPPGTGKSYLAKAVATEANSTFFSV-SSSDLVSKWMGESEKLVKQLFAMARENKPS--------IIFIDEVDSL 111

                         90       100
                 ....*....|....*....|....*..
gi 295870887 209 CKQRGSvaGNSGVHDTVVNQLLTKIDG 235
Cdd:cd19521  112 CGTRGE--GESEASRRIKTELLVQMNG 136
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 129-235 1.44e-12

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: 63.85  E-value: 1.44e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAeeeekRLGPNSglhIIIFDEIDAI 208
Cdd:cd19525   56 KGILLFGPPGTGKTLIGKCIASQSGATFFSI-SASSLTSKWVGEGEKMVRALFSVA-----RCKQPA---VIFIDEIDSL 126

                         90       100       110
                 ....*....|....*....|....*....|
gi 295870887 209 CKQRGsvagnSGVHDT---VVNQLLTKIDG 235
Cdd:cd19525  127 LSQRG-----EGEHESsrrIKTEFLVQLDG 151
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 95-235 3.21e-12

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: 62.44  E-value: 3.21e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLDKEFNSIFRRAfasrVFP---PELVEQ---LGCKhvKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGpQILDK 168
Cdd:cd19520    2 IGGLDEVITELKELV----ILPlqrPELFDNsrlLQPP--KGVLLYGPPGCGKTMLAKATAKEAGARFINLQVS-SLTDK 74

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 169 YVGESEANVRRLFAEAeeeeKRLGPNsglhIIIFDEIDAICKQRgsvagNSGVHD---TVVNQLLTKIDG 235
Cdd:cd19520   75 WYGESQKLVAAVFSLA----SKLQPS----IIFIDEIDSFLRQR-----SSTDHEataMMKAEFMSLWDG 131
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 129-214 2.87e-11

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: 59.86  E-value: 2.87e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAEEeekrLGPNsglhIIIFDEIDAI 208
Cdd:cd19524   34 RGLLLFGPPGNGKTMLAKAVAAESNATFFNI-SAASLTSKYVGEGEKLVRALFAVARE----LQPS----IIFIDEVDSL 104


                 ....*.
gi 295870887 209 CKQRGS 214
Cdd:cd19524  105 LSERSE 110
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 95-231 1.51e-10

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: 57.76  E-value: 1.51e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  95 IGGLD--KEFNSIFRRAFASRVFppelveQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGpQILDKYVGE 172
Cdd:cd19507    2 VGGLDnlKDWLKKRKAAFSKQAS------AYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMG-RLFGGLVGE 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 295870887 173 SEANVRRLFAEAEEeekrLGPNsglhIIIFDEIDAiCKQRGSVAGNSGVHDTVVNQLLT 231
Cdd:cd19507   75 SESRLRQMIQTAEA----IAPC----VLWIDEIEK-GFSNADSKGDSGTSSRVLGTFLT 124
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 131-234 2.47e-08

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: 52.45  E-value: 2.47e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 131 ILLYGPPGTGKT----LMARQIGTMLNAREPKI----VNGPQILDKYVGESEANVRRLFAEAEE--EEKrlgpnSGLHII 200
Cdd:cd19508   55 VLLHGPPGTGKTslckALAQKLSIRLSSRYRYGqlieINSHSLFSKWFSESGKLVTKMFQKIQEliDDK-----DALVFV 129

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 295870887 201 IFDEIDAICKQRGSVAGNSGVHDT--VVNQLLTKID 234
Cdd:cd19508  130 LIDEVESLAAARSASSSGTEPSDAirVVNAVLTQID 165
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 129-230 6.65e-08

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: 50.45  E-value: 6.65e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887   129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIV----------------NGPQILDKYVGESEANVRRLFAEAEEEEKRlg 192
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGVIyidgedileevldqllLIIVGGKKASGSGELRLRLALALARKLKPD-- 80

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 295870887   193 pnsglhIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLL 230
Cdd:smart00382  81 ------VLILDEITSLLDAEQEALLLLLEELRLLLLLK 112
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 131-233 7.07e-06

ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX domain 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: 410905 [Multi-domain]  Cd Length: 251  Bit Score: 45.67  E-value: 7.07e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 131 ILLYGPPGTGKTLMARQIGTMLNArePKIVNGPQILDK--YVGESEANV-RRLFAEAEEEEKRlgPNSGlhIIIFDEIDA 207
Cdd:cd19497   53 ILLIGPTGSGKTLLAQTLAKILDV--PFAIADATTLTEagYVGEDVENIlLKLLQAADYDVER--AQRG--IVYIDEIDK 126

                         90       100
                 ....*....|....*....|....*.
gi 295870887 208 ICKQRGSVAGNSGVHDTVVNQLLTKI 233
Cdd:cd19497  127 IARKSENPSITRDVSGEGVQQALLKI 152
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 129-235 1.32e-05

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: 44.10  E-value: 1.32e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAeeeekRLGPNSglhIIIFDEIDAI 208
Cdd:cd19523   34 RSILLFGPRGTGKTLLGRCLASQLGATFLRL-RGSTLVAKWAGEGEKILQASFLAA-----RCRQPS---VLFISDLDAL 104

                         90       100
                 ....*....|....*....|....*..
gi 295870887 209 CKQRgsVAGNSGVhDTVVNQLLTKIDG 235
Cdd:cd19523  105 LSSQ--DDEASPV-GRLQVELLAQLDG 128
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 131-234 4.40e-05

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: 44.07  E-value: 4.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNA----REPKI--VNGPQILDKYVGESEANVRRLFaeaeeeEKRLGpnsglHIIIFDE 204
Cdd:TIGR03922 315 MLFAGPPGTGKTTIARVVAKIYCGlgvlRKPLVreVSRADLIGQYIGESEAKTNEII------DSALG-----GVLFLDE 383

                          90       100       110
                  ....*....|....*....|....*....|
gi 295870887  205 IDAICKQRGSVAGNSGVhdTVVNQLLTKID 234
Cdd:TIGR03922 384 AYTLVETGYGQKDPFGL--EAIDTLLARME 411
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 103-205 7.23e-05

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 43.12  E-value: 7.23e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 103 NSIFRRAFASRVFPPelveqlgckhvkgILLYGPPGTGKT----LMARQIGT---MLNArepkivngpqildkyVGESEA 175
Cdd:COG2256   37 GKPLRRAIEAGRLSS-------------MILWGPPGTGKTtlarLIANATDAefvALSA---------------VTSGVK 88

                         90       100       110
                 ....*....|....*....|....*....|.
gi 295870887 176 NVRRLFAEAEEEEKrlgpnSGLHIIIF-DEI 205
Cdd:COG2256   89 DIREVIEEARERRA-----YGRRTILFvDEI 114
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 130-206 8.99e-05

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


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 41.12  E-value: 8.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  130 GILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPqildKYVGESEANVRRLFAEaEEEEKRLGP-----NSGlHIIIFDE 204
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAALSNRPVFYVQLT----RDTTEEDLFGRRNIDP-GGASWVDGPlvraaREG-EIAVLDE 74


                  ..
gi 295870887  205 ID 206
Cdd:pfam07728  75 IN 76
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 103-205 9.96e-05

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 42.76  E-value: 9.96e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 103 NSIFRRAFASRVFPPelveqlgckhvkgILLYGPPGTGKT----LMARQIGT---MLNArepkivngpqildkyVGESEA 175
Cdd:PRK13342  24 GKPLRRMIEAGRLSS-------------MILWGPPGTGKTtlarIIAGATDApfeALSA---------------VTSGVK 75

                         90       100       110
                 ....*....|....*....|....*....|.
gi 295870887 176 NVRRLFAEAEEEEkrlgpNSGLHIIIF-DEI 205
Cdd:PRK13342  76 DLREVIEEARQRR-----SAGRRTILFiDEI 101
TIGR02928 TIGR02928
orc1/cdc6 family replication initiation protein; Members of this protein family are found ...
 131-210 1.24e-04

orc1/cdc6 family replication initiation protein; Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274354 [Multi-domain]  Cd Length: 365  Bit Score: 42.23  E-value: 1.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNA----REPKI----VNgPQILDKY----------VGESEANV-----------RRLF 181
Cdd:TIGR02928  43 VFIYGKTGTGKTAVTKYVMKELEEaaedRDVRVvtvyVN-CQILDTLyqvlvelanqLRGSGEEVpttglstsevfRRLY 121

                          90       100
                  ....*....|....*....|....*....
gi 295870887  182 AEAEEEEKRLgpnsglhIIIFDEIDAICK 210
Cdd:TIGR02928 122 KELNERGDSL-------IIVLDEIDYLVG 143
ycf46 CHL00195
Ycf46; Provisional
 48-231 1.37e-04

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 42.31  E-value: 1.37e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  48 RFGRILGNTVVQFEKAENSSLNLQGKSKGKVVRQSIINPDWDFGKM--GIGGLDKEFNSIFRRafaSRVFPpELVEQLGC 125
Cdd:CHL00195 181 RIRRVLSKIIATYKTIDENSIPLILEEKKQIISQTEILEFYSVNEKisDIGGLDNLKDWLKKR---STSFS-KQASNYGL 256

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 126 KHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGpQILDKYVGESEANVRRLFAEAEEeekrLGPNsglhIIIFDEI 205
Cdd:CHL00195 257 PTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVG-KLFGGIVGESESRMRQMIRIAEA----LSPC----ILWIDEI 327

                        170       180
                 ....*....|....*....|....*.
gi 295870887 206 DAiCKQRGSVAGNSGVHDTVVNQLLT 231
Cdd:CHL00195 328 DK-AFSNSESKGDSGTTNRVLATFIT 352
AAA_22 pfam13401
AAA domain;
131-208 1.94e-04

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 40.02  E-value: 1.94e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNAREPKIV-------NGPQILDKYV-------GESEANVRRLFAEAEEEEKRLGpnsG 196
Cdd:pfam13401   8 LVLTGESGTGKTTLLRRLLEQLPEVRDSVVfvdlpsgTSPKDLLRALlralglpLSGRLSKEELLAALQQLLLALA---V 84

                          90
                  ....*....|..
gi 295870887  197 LHIIIFDEIDAI 208
Cdd:pfam13401  85 AVVLIIDEAQHL 96
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
131-230 2.24e-04

Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 41.76  E-value: 2.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 131 ILLYGPPGTGKTLMARQIGTMLNAREPKivNGPQILDKYVGESEAN-----VRRLFAEAEEEE----------------- 188
Cdd:COG1474   54 VLIYGPTGTGKTAVAKYVLEELEEEAEE--RGVDVRVVYVNCRQAStryrvLSRILEELGSGEdipstglstdelfdrly 131

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 295870887 189 KRLGPNSGLHIIIFDEIDAICKQRGsvagnsgvhDTVVNQLL 230
Cdd:COG1474  132 EALDERDGVLVVVLDEIDYLVDDEG---------DDLLYQLL 164
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
131-165 2.72e-04

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 41.27  E-value: 2.72e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 295870887 131 ILLYGPPGTGKTLMARQIGTMLNARePKIVNGPQI 165
Cdd:PRK00080  54 VLLYGPPGLGKTTLANIIANEMGVN-IRITSGPAL 87
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 131-210 3.07e-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: 40.26  E-value: 3.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNAREPKIVNG-------PQILDKYVGESEANVRrlfaeAEE-----EEKRLGPNSglh 198
Cdd:pfam07724   6 FLFLGPTGVGKTELAKALAELLFGDERALIRIdmseymeEHSVSRLIGAPPGYVG-----YEEggqltEAVRRKPYS--- 77

                          90
                  ....*....|..
gi 295870887  199 IIIFDEIDAICK 210
Cdd:pfam07724  78 IVLIDEIEKAHP 89
GPN2 cd17871
GPN-loop GTPase 2; GPN-loop GTPase 2 (GPN2) is a small GTPase required for proper localization ...
 130-197 4.71e-04

GPN-loop GTPase 2; GPN-loop GTPase 2 (GPN2) is a small GTPase required for proper localization of RNA polymerase II and III (RNAPII and RNAPIII). It forms heterodimers with GPN1 or GPN3.


Pssm-ID: 349780  Cd Length: 196  Bit Score: 39.83  E-value: 4.71e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 295870887 130 GILLYGPPGTGKTLMARQIGTMLNA--REPKIVNgpqiLD------KYvgESEANVRRLFaEAEE--EEKRLGPNSGL 197
Cdd:cd17871    2 GQVVIGPPGSGKTTYCKGMQQFLSAlgRKVAVVN----LDpaneflPY--PCDVDIRELI-TVEDvmEELKLGPNGGL 72
PRK04195 PRK04195
replication factor C large subunit; Provisional
 129-208 7.13e-04

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 40.29  E-value: 7.13e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIG-TM------LNAREpkiVNGPQILDKYVGESeANVRRLFaeaeeeekrlgpNSGLHIII 201
Cdd:PRK04195  40 KALLLYGPPGVGKTSLAHALAnDYgwevieLNASD---QRTADVIERVAGEA-ATSGSLF------------GARRKLIL 103


                 ....*..
gi 295870887 202 FDEIDAI 208
Cdd:PRK04195 104 LDEVDGI 110
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 129-148 8.36e-04

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: 38.66  E-value: 8.36e-04
                         10        20
                 ....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQI 148
Cdd:cd19512   23 RNILFYGPPGTGKTLFAKKL 42
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 131-152 1.47e-03

Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 39.25  E-value: 1.47e-03
                         10        20
                 ....*....|....*....|..
gi 295870887 131 ILLYGPPGTGKTLMARQIGTML 152
Cdd:COG0606  214 LLMIGPPGSGKTMLARRLPGIL 235
PRK08116 PRK08116
hypothetical protein; Validated
 130-168 1.61e-03

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 38.85  E-value: 1.61e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 295870887 130 GILLYGPPGTGKTLMARQIG-TMLNAREP-KIVNGPQILDK 168
Cdd:PRK08116 116 GLLLWGSVGTGKTYLAACIAnELIEKGVPvIFVNFPQLLNR 156
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 131-152 1.84e-03

Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 38.29  E-value: 1.84e-03
                          10        20
                  ....*....|....*....|..
gi 295870887  131 ILLYGPPGTGKTLMARQIGTML 152
Cdd:pfam01078  25 LLMIGPPGSGKTMLAKRLPGIL 46
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 131-172 1.93e-03

RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.


Pssm-ID: 459992  Cd Length: 102  Bit Score: 36.81  E-value: 1.93e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNAREPKIVN-------GPQILDKYVGE 172
Cdd:pfam00910   1 IWLYGPPGCGKSTLAKYLARALLKKLGLPKDsvysrnpDDDFWDGYTGQ 49
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 131-165 2.48e-03

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: 38.44  E-value: 2.48e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQI 165
Cdd:TIGR00635  33 LLLYGPPGLGKTTLAHIIANEMGV-NLKITSGPAL 66
PRK13341 PRK13341
AAA family ATPase;
132-205 3.40e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 38.11  E-value: 3.40e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295870887 132 LLYGPPGTGKTLMARQIGTMLNAREpkivngpqildKYVGESEANVRRLFAEAEEEEKRLGpNSGLHIIIF-DEI 205
Cdd:PRK13341  56 ILYGPPGVGKTTLARIIANHTRAHF-----------SSLNAVLAGVKDLRAEVDRAKERLE-RHGKRTILFiDEV 118
PRK11331 PRK11331
5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
 129-172 3.44e-03

5-methylcytosine-specific restriction enzyme subunit McrB; Provisional


Pssm-ID: 183088 [Multi-domain]  Cd Length: 459  Bit Score: 38.14  E-value: 3.44e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNA-REPKIVNGPQILDKYVGE 172
Cdd:PRK11331 195 KNIILQGPPGVGKTFVARRLAYLLTGeKAPQRVNMVQFHQSYSYE 239
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 129-148 3.60e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 38.21  E-value: 3.60e-03
                         10        20
                 ....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQI 148
Cdd:COG1401  222 KNVILAGPPGTGKTYLARRL 241
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 126-155 3.99e-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: 37.45  E-value: 3.99e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 295870887 126 KHVkgiLLYGPPGTGKTLMARQIGTMLNAR 155
Cdd:COG0714   32 GHL---LLEGVPGVGKTTLAKALARALGLP 58
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 131-165 4.84e-03

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: 36.32  E-value: 4.84e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 295870887  131 ILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQI 165
Cdd:pfam05496  36 VLLYGPPGLGKTTLANIIANEMGV-NIRITSGPAI 69
ATP_bind_1 pfam03029
Conserved hypothetical ATP binding protein; Members of this family are found in a range of ...
 135-197 4.89e-03

Conserved hypothetical ATP binding protein; Members of this family are found in a range of archaea and eukaryotes and have hypothesized ATP binding activity.


Pssm-ID: 397252 [Multi-domain]  Cd Length: 238  Bit Score: 36.97  E-value: 4.89e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 295870887  135 GPPGTGKTLMARQIG--TMLNAREPKIVNGPQILDKYVGESEANVRRLFAEAEE-EEKRLGPNSGL 197
Cdd:pfam03029   3 GPAGSGKTTFVGALSeiLPLRGRPVYVVNLDPAAENLPYPADIDIRELITVADVmEDYGLGPNGAL 68
clpX PRK05342
ATP-dependent Clp protease ATP-binding subunit ClpX;
131-210 6.28e-03

ATP-dependent Clp protease ATP-binding subunit ClpX;


Pssm-ID: 235422 [Multi-domain]  Cd Length: 412  Bit Score: 37.06  E-value: 6.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 131 ILLYGPPGTGKTLMARqigTMlnARepkIVNGP-QILD-------KYVGES-EANVRRLFAEA----EEEEKrlGpnsgl 197
Cdd:PRK05342 111 ILLIGPTGSGKTLLAQ---TL--AR---ILDVPfAIADattlteaGYVGEDvENILLKLLQAAdydvEKAQR--G----- 175

                         90
                 ....*....|....
gi 295870887 198 hiIIF-DEIDAICK 210
Cdd:PRK05342 176 --IVYiDEIDKIAR 187
ClpX COG1219
ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein ...
 131-153 6.82e-03

ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440832 [Multi-domain]  Cd Length: 409  Bit Score: 36.95  E-value: 6.82e-03
                         10        20
                 ....*....|....*....|...
gi 295870887 131 ILLYGPPGTGKTLMARQIGTMLN 153
Cdd:COG1219  112 ILLIGPTGSGKTLLAQTLARILD 134
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
126-208 6.87e-03

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 36.88  E-value: 6.87e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 126 KHVKGILLYGPPGTGKTLMARQIGTMLNAREPK--IVNGPQILDKYVGESEANVRRLFAEAEEEE------KRLGPNSGL 197
Cdd:COG0470   16 RLPHALLLHGPPGIGKTTLALALARDLLCENPEggKACGQCHSRLMAAGNHPDLLELNPEEKSDQigidqiRELGEFLSL 95

                         90
                 ....*....|....*...
gi 295870887 198 H-------IIIFDEIDAI 208
Cdd:COG0470   96 TpleggrkVVIIDEADAM 113
cdc6 PRK00411
ORC1-type DNA replication protein;
131-214 7.21e-03

ORC1-type DNA replication protein;


Pssm-ID: 234751 [Multi-domain]  Cd Length: 394  Bit Score: 37.13  E-value: 7.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 131 ILLYGPPGTGKTLMARQIGTMLNAREPKI----VNGP----------QILDKYVGESEANV----RRLFAEA----EEEE 188
Cdd:PRK00411  58 VLIYGPPGTGKTTTVKKVFEELEEIAVKVvyvyINCQidrtryaifsEIARQLFGHPPPSSglsfDELFDKIaeylDERD 137

                         90       100
                 ....*....|....*....|....*.
gi 295870887 189 KRLgpnsglhIIIFDEIDAICKQRGS 214
Cdd:PRK00411 138 RVL-------IVALDDINYLFEKEGN 156
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
129-156 8.56e-03

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 36.87  E-value: 8.56e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 295870887 129 KGILLYGPPGTGKTL----MARQIG-----TMLNARE 156
Cdd:COG1224   65 KGILIVGPPGTGKTAlavaIARELGedtpfVAISGSE 101
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 129-218 8.76e-03

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU 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: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 36.20  E-value: 8.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887 129 KGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGESEANVRRLFAEAeeeekrlgpnsglhIIIFDEIDAI 208
Cdd:cd19498   47 KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRDVESIIRDLVEG--------------IVFIDEIDKI 112

                         90
                 ....*....|
gi 295870887 209 CKQRGSVAGN 218
Cdd:cd19498  113 AKRGGSSGPD 122
AAA_24 pfam13479
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
 131-220 9.52e-03

AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.


Pssm-ID: 433243  Cd Length: 199  Bit Score: 36.15  E-value: 9.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295870887  131 ILLYGPPGTGKTLMARQIGT--MLNaREP--KIVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgpnSGLHIIIFDEID 206
Cdd:pfam13479   5 ILIYGPSGIGKTTFAKTLPKplFLD-TEKgsKALDGDRFPDIVIRDSWQDFLDAIDELTAAEL-----ADYKTIVIDTVD 78

                          90       100
                  ....*....|....*....|..
gi 295870887  207 A--------ICKQRGSVAGNSG 220
Cdd:pfam13479  79 WlerlclayICKQNGKGSSIED 100
 
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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