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Conserved domains on  [gi|255684912|gb|ACU27945|]
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At1g03560-like protein, partial [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000585)

pentatricopeptide repeat (PPR)-containing protein may form anti-parallel alpha helices and bind single-stranded RNA in a sequence-specific and modular manner

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03077 super family cl33629
Protein ECB2; Provisional
 11-192 1.84e-17

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 79.51  E-value: 1.84e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  11 KPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFD-GLAINSMFYSS 89
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  90 LIDGLGKAGRVDEAERLFEEMSekgCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEGCDqtvYTYTILLSGMFKEH 169
Cdd:PLN03077 631 VVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNS---VGYYILLCNLYADA 704

                        170       180
                 ....*....|....*....|....
gi 255684912 170 -RNEEALKLWDMMIDKGITPTAAC 192
Cdd:PLN03077 705 gKWDEVARVRKTMRENGLTVDPGC 728
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 11-192 1.84e-17

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 79.51  E-value: 1.84e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  11 KPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFD-GLAINSMFYSS 89
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  90 LIDGLGKAGRVDEAERLFEEMSekgCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEGCDqtvYTYTILLSGMFKEH 169
Cdd:PLN03077 631 VVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNS---VGYYILLCNLYADA 704

                        170       180
                 ....*....|....*....|....
gi 255684912 170 -RNEEALKLWDMMIDKGITPTAAC 192
Cdd:PLN03077 705 gKWDEVARVRKTMRENGLTVDPGC 728
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 12-61 1.49e-16

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 70.08  E-value: 1.49e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 255684912   12 PNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCK 61
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 1-184 1.89e-08

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 52.81  E-value: 1.89e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   1 VFENMIRKGSKpNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEgfKPDVVTYsvvvnglckngRVEEALDYFhtcrfdgl 80
Cdd:COG2956   30 LLEEALELDPE-TVEAHLALGNLYRRRGEYDRAIRIHQKLLER--DPDRAEA-----------LLELAQDYL-------- 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  81 ainsmfysslidglgKAGRVDEAERLFEEMSEKGcTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEGcdQTVYTYTI 160
Cdd:COG2956   88 ---------------KAGLLDRAEELLEKLLELD-PDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGP--ENAHAYCE 149

                        170       180
                 ....*....|....*....|....
gi 255684912 161 LLSGMFKEHRNEEALKLWDMMIDK 184
Cdd:COG2956  150 LAELYLEQGDYDEAIEALEKALKL 173
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 87-119 7.66e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 46.68  E-value: 7.66e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 255684912   87 YSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDS 119
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 11-192 1.84e-17

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 79.51  E-value: 1.84e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  11 KPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFD-GLAINSMFYSS 89
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  90 LIDGLGKAGRVDEAERLFEEMSekgCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEGCDqtvYTYTILLSGMFKEH 169
Cdd:PLN03077 631 VVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNS---VGYYILLCNLYADA 704

                        170       180
                 ....*....|....*....|....
gi 255684912 170 -RNEEALKLWDMMIDKGITPTAAC 192
Cdd:PLN03077 705 gKWDEVARVRKTMRENGLTVDPGC 728
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 9-188 5.77e-17

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 77.99  E-value: 5.77e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    9 GSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGLAINSMFYS 88
Cdd:PLN03218  467 GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFN 546

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   89 SLIDGLGKAGRVDEAERLFEEM-SE-KGCTRDSYCYNALIDAFTKHRKVDEAIALFKrMEEEEGCDQTVYTYTILLSGMF 166
Cdd:PLN03218  547 ALISACGQSGAVDRAFDVLAEMkAEtHPIDPDHITVGALMKACANAGQVDRAKEVYQ-MIHEYNIKGTPEVYTIAVNSCS 625

                         170       180
                  ....*....|....*....|..
gi 255684912  167 KEHRNEEALKLWDMMIDKGITP 188
Cdd:PLN03218  626 QKGDWDFALSIYDDMKKKGVKP 647
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 12-61 1.49e-16

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 70.08  E-value: 1.49e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 255684912   12 PNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCK 61
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 6-191 3.07e-15

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 72.96  E-value: 3.07e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   6 IRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMideGFKpDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGLAINSM 85
Cdd:PLN03077 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM---ETK-DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEI 390

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  86 FYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEgcdqtVYTYTILLSGM 165
Cdd:PLN03077 391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKD-----VISWTSIIAGL 465

                        170       180       190
                 ....*....|....*....|....*....|
gi 255684912 166 FKEHRNEEALKLWDMMIDK----GITPTAA 191
Cdd:PLN03077 466 RLNNRCFEALIFFRQMLLTlkpnSVTLIAA 495
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 12-193 4.26e-15

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 72.60  E-value: 4.26e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   12 PNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGLAINSMFYSSLI 91
Cdd:PLN03218  435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI 514

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   92 DGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRME-EEEGCDQTVYTYTILLSGMFKEHR 170
Cdd:PLN03218  515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaETHPIDPDHITVGALMKACANAGQ 594

                         170       180
                  ....*....|....*....|...
gi 255684912  171 NEEALKLWDMMIDKGITPTAACF 193
Cdd:PLN03218  595 VDRAKEVYQMIHEYNIKGTPEVY 617
PLN03077 PLN03077
Protein ECB2; Provisional
 6-193 2.68e-14

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 70.26  E-value: 2.68e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   6 IRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEgfkpDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDgLAINSM 85
Cdd:PLN03077 416 ERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSV 490

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  86 FYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKrmeeeeGCDQTVYTYTILLSGM 165
Cdd:PLN03077 491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN------SHEKDVVSWNILLTGY 564

                        170       180
                 ....*....|....*....|....*...
gi 255684912 166 FKEHRNEEALKLWDMMIDKGITPTAACF 193
Cdd:PLN03077 565 VAHGKGSMAVELFNRMVESGVNPDEVTF 592
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 6-193 1.42e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 68.36  E-value: 1.42e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   6 IRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEgfkpDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGLAINSM 85
Cdd:PLN03081 251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF 326

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  86 FYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEeegcdQTVYTYTILLSGM 165
Cdd:PLN03081 327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-----KNLISWNALIAGY 401

                        170       180
                 ....*....|....*....|....*...
gi 255684912 166 FKEHRNEEALKLWDMMIDKGITPTAACF 193
Cdd:PLN03081 402 GNHGRGTKAVEMFERMIAEGVAPNHVTF 429
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 4-189 2.01e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 67.98  E-value: 2.01e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    4 NMIRK-GSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGLAI 82
Cdd:PLN03218  603 QMIHEyNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   83 NSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEGCDQTVyTYTILL 162
Cdd:PLN03218  683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI-TYSILL 761

                         170       180
                  ....*....|....*....|....*..
gi 255684912  163 SGMFKEHRNEEALKLWDMMIDKGITPT 189
Cdd:PLN03218  762 VASERKDDADVGLDLLSQAKEDGIKPN 788
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 5-188 4.07e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 66.82  E-value: 4.07e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    5 MIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEG--FKPDVVTYSVVVNGLCKNGRVEEALDYF---------- 72
Cdd:PLN03218  533 MRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEVYqmiheynikg 612

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   73 ---------HTC----------------RFDGLAINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALID 127
Cdd:PLN03218  613 tpevytiavNSCsqkgdwdfalsiyddmKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 255684912  128 AFTKHRKVDEAIALFKRMeEEEGCDQTVYTYTILLSGMFKEHRNEEALKLWDMMIDKGITP 188
Cdd:PLN03218  693 ACSNAKNWKKALELYEDI-KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 1-192 5.22e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 66.43  E-value: 5.22e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   1 VFENMIRKgskpNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHT-CRFDG 79
Cdd:PLN03081 382 VFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSmSENHR 457

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  80 LAINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRdsyCYNALIDAFTKHRKVDEAIALFKR---MEEEEgcdqtVY 156
Cdd:PLN03081 458 IKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVN---MWAALLTACRIHKNLELGRLAAEKlygMGPEK-----LN 529

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 255684912 157 TYTILLSGMFKEHRNEEALKLWDMMIDKGITPTAAC 192
Cdd:PLN03081 530 NYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPAC 565
PLN03077 PLN03077
Protein ECB2; Provisional
 1-170 2.11e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 64.87  E-value: 2.11e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   1 VFENMirkgSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVN---GLCKNGRVEEAldYFHTCRF 77
Cdd:PLN03077 143 VFGKM----PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRtcgGIPDLARGREV--HAHVVRF 216

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  78 dGLAINSMFYSSLIDGLGKAGRVDEAERLFEEMSekgcTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEgCDQTVYT 157
Cdd:PLN03077 217 -GFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELS-VDPDLMT 290

                        170
                 ....*....|....*
gi 255684912 158 YT--ILLSGMFKEHR 170
Cdd:PLN03077 291 ITsvISACELLGDER 305
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-147 2.76e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 64.51  E-value: 2.76e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    1 VFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGL 80
Cdd:PLN03218  494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETH 573

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 255684912   81 AI--NSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEE 147
Cdd:PLN03218  574 PIdpDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 83-131 4.28e-12

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 58.14  E-value: 4.28e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 255684912   83 NSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTK 131
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 117-167 4.86e-12

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 58.14  E-value: 4.86e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 255684912  117 RDSYCYNALIDAFTKHRKVDEAIALFKRMeEEEGCDQTVYTYTILLSGMFK 167
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEM-KKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 1-188 5.48e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 57.94  E-value: 5.48e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   1 VFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIdegfKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGL 80
Cdd:PLN03077 209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSV 284

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  81 AINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEgcdqtVYTYTI 160
Cdd:PLN03077 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKD-----AVSWTA 359

                        170       180
                 ....*....|....*....|....*...
gi 255684912 161 LLSGMFKEHRNEEALKLWDMMIDKGITP 188
Cdd:PLN03077 360 MISGYEKNGLPDKALETYALMEQDNVSP 387
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-148 1.25e-09

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 56.81  E-value: 1.25e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    1 VFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGL 80
Cdd:PLN03218  636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL 715

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 255684912   81 AINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEE 148
Cdd:PLN03218  716 RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED 783
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 1-190 4.89e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 54.88  E-value: 4.89e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   1 VFENMIRKgskpNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVV---------------------NGL 59
Cdd:PLN03081 281 VFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIrifsrlallehakqahaglirTGF 356

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  60 --------------CKNGRVEEALDYfhtcrFDGLAI-NSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNA 124
Cdd:PLN03081 357 pldivantalvdlySKWGRMEDARNV-----FDRMPRkNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLA 431

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 255684912 125 LIDAFTKHRKVDEAIALFKRMEEEEGCDQTVYTYTILLSGMFKEHRNEEALKlwdMMIDKGITPTA 190
Cdd:PLN03081 432 VLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA---MIRRAPFKPTV 494
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 43-73 1.20e-08

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 48.88  E-value: 1.20e-08
                          10        20        30
                  ....*....|....*....|....*....|.
gi 255684912   43 EGFKPDVVTYSVVVNGLCKNGRVEEALDYFH 73
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 1-184 1.89e-08

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 52.81  E-value: 1.89e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   1 VFENMIRKGSKpNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEgfKPDVVTYsvvvnglckngRVEEALDYFhtcrfdgl 80
Cdd:COG2956   30 LLEEALELDPE-TVEAHLALGNLYRRRGEYDRAIRIHQKLLER--DPDRAEA-----------LLELAQDYL-------- 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  81 ainsmfysslidglgKAGRVDEAERLFEEMSEKGcTRDSYCYNALIDAFTKHRKVDEAIALFKRMEEEEGcdQTVYTYTI 160
Cdd:COG2956   88 ---------------KAGLLDRAEELLEKLLELD-PDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGP--ENAHAYCE 149

                        170       180
                 ....*....|....*....|....
gi 255684912 161 LLSGMFKEHRNEEALKLWDMMIDK 184
Cdd:COG2956  150 LAELYLEQGDYDEAIEALEKALKL 173
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 1-62 2.46e-08

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 48.89  E-value: 2.46e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 255684912    1 VFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKN 62
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 14-186 3.86e-08

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 52.18  E-value: 3.86e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  14 VAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFhtcrfDGLAINSMF-YSSLID 92
Cdd:PLN03081 123 ASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLF-----DEMPERNLAsWGTIIG 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  93 GLGKAGRVDEAERLFEEMSEK-----------------------------------GCTRDSYCYNALIDAFTKHRKVDE 137
Cdd:PLN03081 198 GLVDAGNYREAFALFREMWEDgsdaeprtfvvmlrasaglgsaragqqlhccvlktGVVGDTFVSCALIDMYSKCGDIED 277

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 255684912 138 AIALFKRMEEeegcdQTVYTYTILLSGMFKEHRNEEALKLWDMMIDKGI 186
Cdd:PLN03081 278 ARCVFDGMPE-----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV 321
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 78-111 3.87e-08

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 47.34  E-value: 3.87e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 255684912   78 DGLAINSMFYSSLIDGLGKAGRVDEAERLFEEMS 111
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 87-119 7.66e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 46.68  E-value: 7.66e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 255684912   87 YSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDS 119
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 16-49 1.51e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 45.91  E-value: 1.51e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 255684912   16 IYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDV 49
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 87-115 1.58e-07

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 45.53  E-value: 1.58e-07
                          10        20
                  ....*....|....*....|....*....
gi 255684912   87 YSSLIDGLGKAGRVDEAERLFEEMSEKGC 115
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 113-146 2.01e-07

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 45.41  E-value: 2.01e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 255684912  113 KGCTRDSYCYNALIDAFTKHRKVDEAIALFKRME 146
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 8-40 2.42e-07

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 45.41  E-value: 2.42e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 255684912    8 KGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRM 40
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 154-193 5.05e-07

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 44.66  E-value: 5.05e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 255684912  154 TVYTYTILLSGMFKEHRNEEALKLWDMMIDKGITPTAACF 193
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTY 41
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 24-144 1.58e-06

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 45.57  E-value: 1.58e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  24 YAKSGSVEDAIRLLHRMIDEgFKPDVVTYSVVVNGLCKNGRVEEALDYFHtcrfDGLAI---NSMFYSSLIDGLGKAGRV 100
Cdd:COG4783   14 LLLAGDYDEAEALLEKALEL-DPDNPEAFALLGEILLQLGDLDEAIVLLH----EALELdpdEPEARLNLGLALLKAGDY 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 255684912 101 DEAERLFEEMSEKGcTRDSYCYNALIDAFTKHRKVDEAIALFKR 144
Cdd:COG4783   89 DEALALLEKALKLD-PEHPEAYLRLARAYRALGRPDEAIAALEK 131
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 16-45 9.75e-06

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 40.91  E-value: 9.75e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 255684912   16 IYTVLIDGYAKSGSVEDAIRLLHRMIDEGF 45
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-91 1.02e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 45.25  E-value: 1.02e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    1 VFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGL 80
Cdd:PLN03218  706 LYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGI 785

                          90
                  ....*....|.
gi 255684912   81 AINSMFYSSLI 91
Cdd:PLN03218  786 KPNLVMCRCIT 796
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 1-108 1.16e-05

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 44.31  E-value: 1.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912    1 VFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGRVEEALDYFHTCRFDGL 80
Cdd:pfam17177  77 VFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGV 156

                          90       100
                  ....*....|....*....|....*...
gi 255684912   81 AINSMFYSSLIDGLGKAGRVDEAERLFE 108
Cdd:pfam17177 157 ELEEPELAALLKVSAKAGRADKVYAYLH 184
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 120-148 1.49e-05

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 40.53  E-value: 1.49e-05
                          10        20
                  ....*....|....*....|....*....
gi 255684912  120 YCYNALIDAFTKHRKVDEAIALFKRMEEE 148
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 120-148 1.70e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.13  E-value: 1.70e-05
                          10        20
                  ....*....|....*....|....*....
gi 255684912  120 YCYNALIDAFTKHRKVDEAIALFKRMEEE 148
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKER 29
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 105-163 3.20e-05

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.42  E-value: 3.20e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 255684912  105 RLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKRMeEEEGCDQTVYTYTILLS 163
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERM-KKKGIKPTLDTYNAILG 58
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 72-131 2.30e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 38.11  E-value: 2.30e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912   72 FHTCRFDGLAINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTK 131
Cdd:pfam13812   3 LREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 156-190 3.36e-04

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 36.66  E-value: 3.36e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 255684912  156 YTYTILLSGMFKEHRNEEALKLWDMMIDKGITPTA 190
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 149-181 3.78e-04

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 36.55  E-value: 3.78e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 255684912  149 EGCDQTVYTYTILLSGMFKEHRNEEALKLWDMM 181
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 50-73 4.06e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.29  E-value: 4.06e-04
                          10        20
                  ....*....|....*....|....
gi 255684912   50 VTYSVVVNGLCKNGRVEEALDYFH 73
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFK 24
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
24-179 4.52e-04

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 39.60  E-value: 4.52e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  24 YAKSGSVEDAIRLLHRMIDegFKPD-VVTYSVVVNGLCKNGRVEEALDYFHTCrfdgLAINSMFYSSLIdGLGKA----G 98
Cdd:COG0457   18 YRRLGRYEEAIEDYEKALE--LDPDdAEALYNLGLAYLRLGRYEEALADYEQA----LELDPDDAEALN-NLGLAlqalG 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  99 RVDEAERLFEEmSEKGCTRDSYCYNALIDAFTKHRKVDEAIALFKR-MEEEEGCDQTVYTYTILLsgmFKEHRNEEALKL 177
Cdd:COG0457   91 RYEEALEDYDK-ALELDPDDAEALYNLGLALLELGRYDEAIEAYERaLELDPDDADALYNLGIAL---EKLGRYEEALEL 166


                 ..
gi 255684912 178 WD 179
Cdd:COG0457  167 LE 168
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 13-125 4.61e-04

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 40.36  E-value: 4.61e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  13 NVAIYTVLIDGYAKSGSVEDAIRLLHRMIDegFKPD-VVTYSVVVNGLCKNGRVEEALDYFHTCrfdgLAI---NSMFYS 88
Cdd:COG3914  111 NAEALFNLGNLLLALGRLEEALAALRRALA--LNPDfAEAYLNLGEALRRLGRLEEAIAALRRA----LELdpdNAEALN 184

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 255684912  89 SLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNAL 125
Cdd:COG3914  185 NLGNALQDLGRLEEAIAAYRRALELDPDNADAHSNLL 221
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 50-73 5.72e-04

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 36.28  E-value: 5.72e-04
                          10        20
                  ....*....|....*....|....
gi 255684912   50 VTYSVVVNGLCKNGRVEEALDYFH 73
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFK 24
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 156-186 6.70e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 35.90  E-value: 6.70e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 255684912  156 YTYTILLSGMFKEHRNEEALKLWDMMIDKGI 186
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 1-26 1.05e-03

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 35.80  E-value: 1.05e-03
                          10        20
                  ....*....|....*....|....*.
gi 255684912    1 VFENMIRKGSKPNVAIYTVLIDGYAK 26
Cdd:pfam13041  25 LFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 58-193 2.00e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 38.29  E-value: 2.00e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  58 GLCKNGRVEEALDYFHTCRFDGLAINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDE 137
Cdd:PLN03077  60 ALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVH 139

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 255684912 138 AIALFKRMEEEEgcdqtVYTYTILLSGMFKEHRNEEALKLWDMMIDKGITPTAACF 193
Cdd:PLN03077 140 AWYVFGKMPERD-----LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTF 190
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 63-185 6.27e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 36.77  E-value: 6.27e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255684912  63 GRVEEALDYFHTCRFDG-LAINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYNALIDAFTKHRKVDEAIAL 141
Cdd:PLN03081 101 GRHREALELFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRL 180

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 255684912 142 FKRMEEEEGcdqtvYTYTILLSGMFKEHRNEEALKLWDMMIDKG 185
Cdd:PLN03081 181 FDEMPERNL-----ASWGTIIGGLVDAGNYREAFALFREMWEDG 219
TPR_16 pfam13432
Tetratricopeptide repeat; This family is found predominantly at the C-terminus of ...
 90-148 8.33e-03

Tetratricopeptide repeat; This family is found predominantly at the C-terminus of transglutaminase enzyme core regions.


Pssm-ID: 433202 [Multi-domain]  Cd Length: 68  Bit Score: 33.85  E-value: 8.33e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 255684912   90 LIDGLGKAGRVDEAERLFEEMSEKGCT--RDSYCYNALIDAFTKHRKVDEAIALFKRMEEE 148
Cdd:pfam13432   3 LARAALRAGDYDDAAAALEAALARFPEspDAAAALLLLGLAALRQGRLAEAAAAYRAALRA 63
 
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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