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Conserved domains on  [gi|802611034|ref|XP_012074270|]
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putative pentatricopeptide repeat-containing protein At5g06400, mitochondrial isoform X1 [Jatropha curcas]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000098)

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
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 689-1031 2.14e-25

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 113.82  E-value: 2.14e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  689 TTETYNMAMKIAGRGKDFKHMRSLFYEMRRKGclITPDT--WSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYL 766
Cdd:PLN03218  436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAG--LKADCklYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  767 IIClCGRKGrKVDEAIKIFEEMIRAEYIPDREVVETYLCCLCESGKLleaRRSIDSLCKVGF-TVPL-----SYSLHIRA 840
Cdd:PLN03218  514 IDG-CARAG-QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV---DRAFDVLAEMKAeTHPIdpdhiTVGALMKA 588

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  841 LCRAGRLEEALslldEVggeRATLDQY-------AYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVHFFK 913
Cdd:PLN03218  589 CANAGQVDRAK----EV---YQMIHEYnikgtpeVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  914 EKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRL 993
Cdd:PLN03218  662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEV 741

                         330       340       350
                  ....*....|....*....|....*....|....*...
gi 802611034  994 ISEMLDAGIIPSTINFRTVFYGLNREGKYDLARTVLQQ 1031
Cdd:PLN03218  742 LSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQ 779
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 188-517 3.40e-18

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 90.32  E-value: 3.40e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  188 AFRFFNWVKMKdgfchTTKIYNSLLYIAGEAKEFK---VVDDLVEE--MENLCKMdirtWTILISQLRKVkliGKALLFF 262
Cdd:PLN03218  425 AFRFAKLIRNP-----TLSTFNMLMSVCASSQDIDgalRVLRLVQEagLKADCKL----YTTLISTCAKS---GKVDAMF 492

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  263 E---KMKKSGFEPDEKIYKIMVHLLCEGGKGEIALELYKEMIQRDMKLDLSSYKVLLNSmakLGDVGAVNLIAD---DMI 336
Cdd:PLN03218  493 EvfhEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA---CGQSGAVDRAFDvlaEMK 569

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  337 RVSQISEPD-VLVCMLKSFCV----AGRIRE--------------------------------ALALIRDLKSKEISIDY 379
Cdd:PLN03218  570 AETHPIDPDhITVGALMKACAnagqVDRAKEvyqmiheynikgtpevytiavnscsqkgdwdfALSIYDDMKKKGVKPDE 649

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  380 EYFEILVKGLCRAGRIADAMEIIEIMKKRNF-VDAKVYGIIINGYLRRKELSKALELFQCMKESGCQPTTSTYTELMQHL 458
Cdd:PLN03218  650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIkLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL 729

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 802611034  459 FNLNQYKKGLELYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAFNTMEAEGINPT 517
Cdd:PLN03218  730 CEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 689-1031 2.14e-25

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 113.82  E-value: 2.14e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  689 TTETYNMAMKIAGRGKDFKHMRSLFYEMRRKGclITPDT--WSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYL 766
Cdd:PLN03218  436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAG--LKADCklYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  767 IIClCGRKGrKVDEAIKIFEEMIRAEYIPDREVVETYLCCLCESGKLleaRRSIDSLCKVGF-TVPL-----SYSLHIRA 840
Cdd:PLN03218  514 IDG-CARAG-QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV---DRAFDVLAEMKAeTHPIdpdhiTVGALMKA 588

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  841 LCRAGRLEEALslldEVggeRATLDQY-------AYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVHFFK 913
Cdd:PLN03218  589 CANAGQVDRAK----EV---YQMIHEYnikgtpeVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  914 EKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRL 993
Cdd:PLN03218  662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEV 741

                         330       340       350
                  ....*....|....*....|....*....|....*...
gi 802611034  994 ISEMLDAGIIPSTINFRTVFYGLNREGKYDLARTVLQQ 1031
Cdd:PLN03218  742 LSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQ 779
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 188-517 3.40e-18

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 90.32  E-value: 3.40e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  188 AFRFFNWVKMKdgfchTTKIYNSLLYIAGEAKEFK---VVDDLVEE--MENLCKMdirtWTILISQLRKVkliGKALLFF 262
Cdd:PLN03218  425 AFRFAKLIRNP-----TLSTFNMLMSVCASSQDIDgalRVLRLVQEagLKADCKL----YTTLISTCAKS---GKVDAMF 492

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  263 E---KMKKSGFEPDEKIYKIMVHLLCEGGKGEIALELYKEMIQRDMKLDLSSYKVLLNSmakLGDVGAVNLIAD---DMI 336
Cdd:PLN03218  493 EvfhEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA---CGQSGAVDRAFDvlaEMK 569

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  337 RVSQISEPD-VLVCMLKSFCV----AGRIRE--------------------------------ALALIRDLKSKEISIDY 379
Cdd:PLN03218  570 AETHPIDPDhITVGALMKACAnagqVDRAKEvyqmiheynikgtpevytiavnscsqkgdwdfALSIYDDMKKKGVKPDE 649

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  380 EYFEILVKGLCRAGRIADAMEIIEIMKKRNF-VDAKVYGIIINGYLRRKELSKALELFQCMKESGCQPTTSTYTELMQHL 458
Cdd:PLN03218  650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIkLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL 729

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 802611034  459 FNLNQYKKGLELYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAFNTMEAEGINPT 517
Cdd:PLN03218  730 CEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 899-946 4.21e-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: 61.61  E-value: 4.21e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 802611034   899 PTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGY 946
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 482-530 3.61e-08

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: 50.44  E-value: 3.61e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 802611034   482 DSVAIMAVVAGHVRQNHISEAWEAFNTMEAEGINPTWKSYSIFIKELCK 530
Cdd:pfam13041    2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 776-1033 4.92e-07

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: 52.42  E-value: 4.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  776 RKVDEAIKIFEEMIRAeyipDREVVETYLC---CLCESGKLLEARRSIDSLCKVGFTVPLSYSLHIRALCRAGRLEEALS 852
Cdd:COG2956    22 GQPDKAIDLLEEALEL----DPETVEAHLAlgnLYRRRGEYDRAIRIHQKLLERDPDRAEALLELAQDYLKAGLLDRAEE 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  853 LLDEVGGERATlDQYAYGTLVHGLLREGRQEQALAKVNSMKQAGiQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEgc 932
Cdd:COG2956    98 LLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALEKALKL-- 173

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  933 EPTIV-THSALIRGYMNMGRVDDAWNVFN-CLKLKgplPDF-KTYSMFISCLCKAGKSEEALRLISEMLDAGiiPSTINF 1009
Cdd:COG2956   174 DPDCArALLLLAELYLEQGDYEEAIAALErALEQD---PDYlPALPRLAELYEKLGDPEEALELLRKALELD--PSDDLL 248

                         250       260
                  ....*....|....*....|....
gi 802611034 1010 RTVFYGLNREGKYDLARTVLQQKL 1033
Cdd:COG2956   249 LALADLLERKEGLEAALALLERQL 272
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 973-1006 3.65e-06

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: 44.37  E-value: 3.65e-06
                           10        20        30
                   ....*....|....*....|....*....|....
gi 802611034   973 TYSMFISCLCKAGKSEEALRLISEMLDAGIIPST 1006
Cdd:TIGR00756    2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 240-274 6.45e-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: 38.21  E-value: 6.45e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 802611034   240 RTWTILISQLRKVKLIGKALLFFEKMKKSGFEPDE 274
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 391-580 2.30e-03

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: 41.25  E-value: 2.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  391 RAGRIADAMEIIEIMKKRNFVDAKVYGIIINGYLRRKELSKALELFQCMKESGcQPTTSTYTELMQHLFNLNQYKKGLEL 470
Cdd:COG2956    88 KAGLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEA 166

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  471 YNEMLERgIKTDSVAIMAVVAGHVRQNHISEAWEAFNtmEAEGINPTWKSYSIFIKELC-KVSRTDDILKVLykMQASKI 549
Cdd:COG2956   167 LEKALKL-DPDCARALLLLAELYLEQGDYEEAIAALE--RALEQDPDYLPALPRLAELYeKLGDPEEALELL--RKALEL 241

                         170       180       190
                  ....*....|....*....|....*....|...
gi 802611034  550 FINDEIFKWVIACLEKKGEMDNVQ--IVKQMQR 580
Cdd:COG2956   242 DPSDDLLLALADLLERKEGLEAALalLERQLRR 274
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 689-1031 2.14e-25

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 113.82  E-value: 2.14e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  689 TTETYNMAMKIAGRGKDFKHMRSLFYEMRRKGclITPDT--WSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYL 766
Cdd:PLN03218  436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAG--LKADCklYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  767 IIClCGRKGrKVDEAIKIFEEMIRAEYIPDREVVETYLCCLCESGKLleaRRSIDSLCKVGF-TVPL-----SYSLHIRA 840
Cdd:PLN03218  514 IDG-CARAG-QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV---DRAFDVLAEMKAeTHPIdpdhiTVGALMKA 588

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  841 LCRAGRLEEALslldEVggeRATLDQY-------AYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVHFFK 913
Cdd:PLN03218  589 CANAGQVDRAK----EV---YQMIHEYnikgtpeVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  914 EKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRL 993
Cdd:PLN03218  662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEV 741

                         330       340       350
                  ....*....|....*....|....*....|....*...
gi 802611034  994 ISEMLDAGIIPSTINFRTVFYGLNREGKYDLARTVLQQ 1031
Cdd:PLN03218  742 LSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQ 779
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 188-517 3.40e-18

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 90.32  E-value: 3.40e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  188 AFRFFNWVKMKdgfchTTKIYNSLLYIAGEAKEFK---VVDDLVEE--MENLCKMdirtWTILISQLRKVkliGKALLFF 262
Cdd:PLN03218  425 AFRFAKLIRNP-----TLSTFNMLMSVCASSQDIDgalRVLRLVQEagLKADCKL----YTTLISTCAKS---GKVDAMF 492

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  263 E---KMKKSGFEPDEKIYKIMVHLLCEGGKGEIALELYKEMIQRDMKLDLSSYKVLLNSmakLGDVGAVNLIAD---DMI 336
Cdd:PLN03218  493 EvfhEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA---CGQSGAVDRAFDvlaEMK 569

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  337 RVSQISEPD-VLVCMLKSFCV----AGRIRE--------------------------------ALALIRDLKSKEISIDY 379
Cdd:PLN03218  570 AETHPIDPDhITVGALMKACAnagqVDRAKEvyqmiheynikgtpevytiavnscsqkgdwdfALSIYDDMKKKGVKPDE 649

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  380 EYFEILVKGLCRAGRIADAMEIIEIMKKRNF-VDAKVYGIIINGYLRRKELSKALELFQCMKESGCQPTTSTYTELMQHL 458
Cdd:PLN03218  650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIkLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL 729

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 802611034  459 FNLNQYKKGLELYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAFNTMEAEGINPT 517
Cdd:PLN03218  730 CEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 710-1025 4.51e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 76.83  E-value: 4.51e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  710 RSLFYEMRRKGCLitpdTWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYLIICLCG----RKGRKVDEAIkif 785
Cdd:PLN03081  178 RRLFDEMPERNLA----SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGlgsaRAGQQLHCCV--- 250

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  786 eemIRAEYIPDREV----VETYLCClcesGKLLEARRSIDSLCK---VGF-TVPLSYSLHiralcraGRLEEALSLLDEV 857
Cdd:PLN03081  251 ---LKTGVVGDTFVscalIDMYSKC----GDIEDARCVFDGMPEkttVAWnSMLAGYALH-------GYSEEALCLYYEM 316

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  858 GGERATLDQYAYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEgcepTIV 937
Cdd:PLN03081  317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLI 392

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  938 THSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRLISEML-DAGIIPSTINFRTVFYGL 1016
Cdd:PLN03081  393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSeNHRIKPRAMHYACMIELL 472


                  ....*....
gi 802611034 1017 NREGKYDLA 1025
Cdd:PLN03081  473 GREGLLDEA 481
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 899-946 4.21e-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: 61.61  E-value: 4.21e-12
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 802611034   899 PTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGY 946
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03077 PLN03077
Protein ECB2; Provisional
 710-997 1.19e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 69.11  E-value: 1.19e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  710 RSLFYEMRRKGCLitpdTWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTY-KYLIICLC-GR-------------- 773
Cdd:PLN03077  343 EKVFSRMETKDAV----SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIaSVLSACAClGDldvgvklhelaerk 418

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  774 -----------------KGRKVDEAIKIFEEMiraeyiPDREVVE--TYLCCLCESGKLLEA----RRSIDSL--CKVGF 828
Cdd:PLN03077  419 glisyvvvanaliemysKCKCIDKALEVFHNI------PEKDVISwtSIIAGLRLNNRCFEAliffRQMLLTLkpNSVTL 492

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  829 TVPLSYSLHIRALcRAGRLEEALSLLDEVGgeratLDQYAYGTLVHGLLREGRQEQALAKVNSMKQagiqpTVHVYTSLI 908
Cdd:PLN03077  493 IAALSACARIGAL-MCGKEIHAHVLRTGIG-----FDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILL 561

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  909 VHFFKEKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMNMGRVDDAWNVFNCLKLK-GPLPDFKTYSMFISCLCKAGKS 987
Cdd:PLN03077  562 TGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKL 641

                         330
                  ....*....|
gi 802611034  988 EEALRLISEM 997
Cdd:PLN03077  642 TEAYNFINKM 651
PLN03077 PLN03077
Protein ECB2; Provisional
 197-544 7.15e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 66.41  E-value: 7.15e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  197 MKDGFCHTTKIYNSLLYIAGEAKEFKVVDDLVEEMEnlCKmDIRTWTILISQLRKVKLIGKALLFFEKMKKSGFEPDEkI 276
Cdd:PLN03077  315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME--TK-DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE-I 390

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  277 YKIMVHLLCEG-GKGEIALELYKEMIqrdmKLDLSSYKVLLNSmakLGDVGAVNLIADDMIRV-SQISEPDVL--VCMLK 352
Cdd:PLN03077  391 TIASVLSACAClGDLDVGVKLHELAE----RKGLISYVVVANA---LIEMYSKCKCIDKALEVfHNIPEKDVIswTSIIA 463

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  353 SFCVAGRIREALALIRD--LKSKEISIdyeyfeILVKGLCRAGRIADAMEIIEI----MKKRNFVDAKVYGIIINGYLRR 426
Cdd:PLN03077  464 GLRLNNRCFEALIFFRQmlLTLKPNSV------TLIAALSACARIGALMCGKEIhahvLRTGIGFDGFLPNALLDLYVRC 537

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  427 KELSKALELFqcmkeSGCQPTTSTYTELMQHLFNLNQYKKGLELYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAF 506
Cdd:PLN03077  538 GRMNYAWNQF-----NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYF 612

                         330       340       350
                  ....*....|....*....|....*....|....*....
gi 802611034  507 NTMEAE-GINPTWKSYSIFIKELCKVSRTDDILKVLYKM 544
Cdd:PLN03077  613 HSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 692-1023 1.40e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 65.67  E-value: 1.40e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  692 TYNMAMKIAGRGKDFKHMRSLFYEMRRKGCLITPDTWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYLIIcLC 771
Cdd:PLN03218  581 TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD-VA 659

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  772 GRKGRkVDEAIKIFEEMiRAEYIPDREVVETYL---CC-LCESGKLLEARRSIDSLcKVGFTVPLSYSLhIRALCRAGRL 847
Cdd:PLN03218  660 GHAGD-LDKAFEILQDA-RKQGIKLGTVSYSSLmgaCSnAKNWKKALELYEDIKSI-KLRPTVSTMNAL-ITALCEGNQL 735

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  848 EEALSLLDEVGGERATLDQYAYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVhfFKEKQIEKAMEifqem 927
Cdd:PLN03218  736 PKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITG--LCLRRFEKACA----- 808

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  928 qqeGCEPtIVThsalirgyMNMGR--VDDAWN-----VFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRLISEMLDA 1000
Cdd:PLN03218  809 ---LGEP-VVS--------FDSGRpqIENKWTswalmVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGIS 876

                         330       340
                  ....*....|....*....|...
gi 802611034 1001 GIIPSTINFRTVFYGLnreGKYD 1023
Cdd:PLN03218  877 ADSQKQSNLSTLVDGF---GEYD 896
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 382-807 3.02e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 64.51  E-value: 3.02e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  382 FEILVKGLCRAGRIADAMEIIEIMKKRNF-VDAKVYGIIINGYLRRKELSKALELFQCMKESGCQPTTSTYTELMQHLFN 460
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEAGLkADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  461 LNQYKKGLELYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAFNTMEAEG--INPTWKSYSIFIKELCKVSRTDDIL 538
Cdd:PLN03218  520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAK 599

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  539 KVLYKMQASKIFINDEIFKWVIACLEKKGEMD-NVQIVKQMQRIhtlDSIEDKVSreqklqveqnhnqSEPLID---Hql 614
Cdd:PLN03218  600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDfALSIYDDMKKK---GVKPDEVF-------------FSALVDvagH-- 661

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  615 lkplpkgynGQDLQEICRILSSsddwcMKREALEKCTVQFTPelVLGVlrnCSMHGN--AALHLFSWVgMQTGYHHTTET 692
Cdd:PLN03218  662 ---------AGDLDKAFEILQD-----ARKQGIKLGTVSYSS--LMGA---CSNAKNwkKALELYEDI-KSIKLRPTVST 721

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  693 YNMAMKIAGRGKDFKHMRSLFYEMRRKGclITPD--TWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKyLIICL 770
Cdd:PLN03218  722 MNALITALCEGNQLPKALEVLSEMKRLG--LCPNtiTYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCR-CITGL 798

                         410       420       430       440       450
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 802611034  771 CGRKGRK----------------------VDEAIKIFEEMIRAEYIPDREVVETYLCCL 807
Cdd:PLN03218  799 CLRRFEKacalgepvvsfdsgrpqienkwTSWALMVYRETISAGTLPTMEVLSQVLGCL 857
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 934-983 9.20e-10

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: 55.06  E-value: 9.20e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 802611034   934 PTIVTHSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCK 983
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 892-949 2.71e-09

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: 54.29  E-value: 2.71e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 802611034   892 MKQAGIQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMNM 949
Cdd:pfam13812    6 MVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 761-1021 3.53e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 60.65  E-value: 3.53e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  761 STYKYLIICLCGRkgRKVDEAIKIFEEMIRAEYIPDR----EVVETYLCClcesGKLLEARRSIDSLCKVGFtvpLSYSL 836
Cdd:PLN03081  124 STYDALVEACIAL--KSIRCVKAVYWHVESSGFEPDQymmnRVLLMHVKC----GMLIDARRLFDEMPERNL---ASWGT 194

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  837 HIRALCRAGRLEEALSLLDE----------------------------------------VGGER----ATLDQY----- 867
Cdd:PLN03081  195 IIGGLVDAGNYREAFALFREmwedgsdaeprtfvvmlrasaglgsaragqqlhccvlktgVVGDTfvscALIDMYskcgd 274

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  868 -----------------AYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQE 930
Cdd:PLN03081  275 iedarcvfdgmpekttvAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT 354

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  931 GCEPTIVTHSALIRGYMNMGRVDDAWNVFNclklKGPLPDFKTYSMFISCLCKAGKSEEALRLISEMLDAGIIPSTINFR 1010
Cdd:PLN03081  355 GFPLDIVANTALVDLYSKWGRMEDARNVFD----RMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

                         330
                  ....*....|....*.
gi 802611034 1011 TV-----FYGLNREGK 1021
Cdd:PLN03081  431 AVlsacrYSGLSEQGW 446
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 482-530 3.61e-08

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: 50.44  E-value: 3.61e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 802611034   482 DSVAIMAVVAGHVRQNHISEAWEAFNTMEAEGINPTWKSYSIFIKELCK 530
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 ...
 727-771 1.38e-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: 48.90  E-value: 1.38e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 802611034   727 TWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYLIICLC 771
Cdd:pfam13041    5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 412-460 1.47e-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: 48.90  E-value: 1.47e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 802611034   412 DAKVYGIIINGYLRRKELSKALELFQCMKESGCQPTTSTYTELMQHLFN 460
Cdd:pfam13041    2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 776-1033 4.92e-07

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: 52.42  E-value: 4.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  776 RKVDEAIKIFEEMIRAeyipDREVVETYLC---CLCESGKLLEARRSIDSLCKVGFTVPLSYSLHIRALCRAGRLEEALS 852
Cdd:COG2956    22 GQPDKAIDLLEEALEL----DPETVEAHLAlgnLYRRRGEYDRAIRIHQKLLERDPDRAEALLELAQDYLKAGLLDRAEE 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  853 LLDEVGGERATlDQYAYGTLVHGLLREGRQEQALAKVNSMKQAGiQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEgc 932
Cdd:COG2956    98 LLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALEKALKL-- 173

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  933 EPTIV-THSALIRGYMNMGRVDDAWNVFN-CLKLKgplPDF-KTYSMFISCLCKAGKSEEALRLISEMLDAGiiPSTINF 1009
Cdd:COG2956   174 DPDCArALLLLAELYLEQGDYEEAIAALErALEQD---PDYlPALPRLAELYEKLGDPEEALELLRKALELD--PSDDLL 248

                         250       260
                  ....*....|....*....|....
gi 802611034 1010 RTVFYGLNREGKYDLARTVLQQKL 1033
Cdd:COG2956   249 LALADLLERKEGLEAALALLERQL 272
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 238-285 6.39e-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: 46.97  E-value: 6.39e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 802611034   238 DIRTWTILISQLRKVKLIGKALLFFEKMKKSGFEPDEKIYKIMVHLLC 285
Cdd:pfam13041    2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 236-582 6.85e-07

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 53.34  E-value: 6.85e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  236 KMDIRTWTILISQLRKVKLIGKALLFFEKMKKSGFEPDEKIYK--IMVHLLCegGKGEIALELYKEMIQRdmklDLSSYK 313
Cdd:PLN03081  120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNrvLLMHVKC--GMLIDARRLFDEMPER----NLASWG 193

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  314 VLLNSMAKLGD-VGAVNLIAdDMIRVSQISEPDVLVCMLKSFCVAGRIREALALiRDLKSKEISIDYEYFEI-LVKGLCR 391
Cdd:PLN03081  194 TIIGGLVDAGNyREAFALFR-EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQL-HCCVLKTGVVGDTFVSCaLIDMYSK 271

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  392 AGRIADAMEIIEIMKKRNFVdakVYGIIINGYLRRKELSKALELFQCMKESGC---QPTTSTYTELMQHLFNLNQYKKGl 468
Cdd:PLN03081  272 CGDIEDARCVFDGMPEKTTV---AWNSMLAGYALHGYSEEALCLYYEMRDSGVsidQFTFSIMIRIFSRLALLEHAKQA- 347

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  469 elYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAFNTMEAEGInptwKSYSIFIKELCKVSRTDDILKVLYKMQASK 548
Cdd:PLN03081  348 --HAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

                         330       340       350
                  ....*....|....*....|....*....|....*....
gi 802611034  549 IFINDEIFKWVI-AC----LEKKGEmdnvQIVKQMQRIH 582
Cdd:PLN03081  422 VAPNHVTFLAVLsACrysgLSEQGW----EIFQSMSENH 456
PLN03077 PLN03077
Protein ECB2; Provisional
 226-547 8.83e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 53.31  E-value: 8.83e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  226 DLVEEMENLCKM---DIRTWTILISQLRKVKLIGKALLFFEKMKKSGFEPDekIYKIMVHLLCEGGKGEIAL--ELYKEM 300
Cdd:PLN03077  136 ELVHAWYVFGKMperDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPD--VYTFPCVLRTCGGIPDLARgrEVHAHV 213

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  301 IQRDMKLDLSSYKVLLNSMAKLGDVGAVNLIADDMIRVSQIS-----------------------------EPDVLVcmL 351
Cdd:PLN03077  214 VRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISwnamisgyfengecleglelfftmrelsvDPDLMT--I 291

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  352 KSFCVAGRIREALALIRDLKSKEI----SIDYEYFEILVKGLCRAGRIADAMEIIEIMKKRnfvDAKVYGIIINGYLRRK 427
Cdd:PLN03077  292 TSVISACELLGDERLGREMHGYVVktgfAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK---DAVSWTAMISGYEKNG 368

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  428 ELSKALELFQCMKESGCQPTTSTYTELMQHLFNLNQYKKGLELYNEMLERGIKTDSVAIMAVVAGHVRQNHISEAWEAFN 507
Cdd:PLN03077  369 LPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFH 448

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|
gi 802611034  508 TMEAEGInptwKSYSIFIKELCKVSRTDDILKVLYKMQAS 547
Cdd:PLN03077  449 NIPEKDV----ISWTSIIAGLRLNNRCFEALIFFRQMLLT 484
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 969-1016 1.70e-06

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: 45.82  E-value: 1.70e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 802611034   969 PDFKTYSMFISCLCKAGKSEEALRLISEMLDAGIIPSTINFRTVFYGL 1016
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 878-1004 1.85e-06

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: 50.09  E-value: 1.85e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034   878 REGRQEQALAKVNSMKQAGIQPTVHVYTSLI---------VHFFKEKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMN 948
Cdd:pfam17177   23 KHADATGALALYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAAA 102

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 802611034   949 MGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRLISEMLDAGIIP 1004
Cdd:pfam17177  103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVEL 158
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 965-997 2.41e-06

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: 45.03  E-value: 2.41e-06
                           10        20        30
                   ....*....|....*....|....*....|...
gi 802611034   965 KGPLPDFKTYSMFISCLCKAGKSEEALRLISEM 997
Cdd:pfam12854    1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 973-1006 3.65e-06

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: 44.37  E-value: 3.65e-06
                           10        20        30
                   ....*....|....*....|....*....|....
gi 802611034   973 TYSMFISCLCKAGKSEEALRLISEMLDAGIIPST 1006
Cdd:TIGR00756    2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 773-998 7.77e-06

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: 48.96  E-value: 7.77e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  773 RKGRkVDEAIKIFEEMIRAEyiPDREVV-----ETYLcclcESGKLLEARRSIDSLCKVGFTVPLSYSLHIRALCRAGRL 847
Cdd:COG2956    54 RRGE-YDRAIRIHQKLLERD--PDRAEAllelaQDYL----KAGLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDW 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  848 EEALSLLD---EVGGERAtldqYAYGTLVHGLLREGRQEQALAkvnSMKQA-GIQPT-VHVYTSLIVHFFKEKQIEKAME 922
Cdd:COG2956   127 EKAIEVLErllKLGPENA----HAYCELAELYLEQGDYDEAIE---ALEKAlKLDPDcARALLLLAELYLEQGDYEEAIA 199

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 802611034  923 IFQEMQQEgcEP-TIVTHSALIRGYMNMGRVDDAWNVFN-CLKLKGPLPDFKTYSMFISclcKAGKSEEALRLISEML 998
Cdd:COG2956   200 ALERALEQ--DPdYLPALPRLAELYEKLGDPEEALELLRkALELDPSDDLLLALADLLE---RKEGLEAALALLERQL 272
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 902-936 9.64e-06

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: 43.21  E-value: 9.64e-06
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 802611034   902 HVYTSLIVHFFKEKQIEKAMEIFQEMQQEGCEPTI 936
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03077 PLN03077
Protein ECB2; Provisional
 873-1012 1.40e-05

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 49.08  E-value: 1.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  873 VHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEGCEPTIVTHSALIRGYMNMGRV 952
Cdd:PLN03077   58 LRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGEL 137

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  953 DDAWNVFNclklKGPLPDFKTYSMFISCLCKAGKSEEALRLISEMLDAGIIPSTINFRTV 1012
Cdd:PLN03077  138 VHAWYVFG----KMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCV 193
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 272-321 1.46e-05

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: 43.12  E-value: 1.46e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 802611034   272 PDEKIYKIMVHLLCEGGKGEIALELYKEMIQRDMKLDLSSYKVLLNSMAK 321
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 930-960 2.86e-05

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: 41.95  E-value: 2.86e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 802611034   930 EGCEPTIVTHSALIRGYMNMGRVDDAWNVFN 960
Cdd:pfam12854    1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 865-908 3.54e-05

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: 41.97  E-value: 3.54e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 802611034   865 DQYAYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSLI 908
Cdd:pfam13041    2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PLN03077 PLN03077
Protein ECB2; Provisional
 727-982 4.05e-05

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 47.92  E-value: 4.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  727 TWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKyLIICLCG-----RKGRKVDEAIkifeemIRAEYIPDREVVE 801
Cdd:PLN03077  154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP-CVLRTCGgipdlARGREVHAHV------VRFGFELDVDVVN 226

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  802 TYLCCLCESGKLLEARRSIDSLCKvgfTVPLSYSLHIRALCRAGRLEEALSLL-----DEVGGERATLDQYAYGTLVHGL 876
Cdd:PLN03077  227 ALITMYVKCGDVVSARLVFDRMPR---RDCISWNAMISGYFENGECLEGLELFftmreLSVDPDLMTITSVISACELLGD 303

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  877 LREGRQEQALAkvnsmKQAGIQPTVHVYTSLIVHFFKEKQIEKAMEIFQEMQQEgcepTIVTHSALIRGYMNMGRVDDAW 956
Cdd:PLN03077  304 ERLGREMHGYV-----VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKAL 374

                         250       260
                  ....*....|....*....|....*..
gi 802611034  957 NVFNCLKLKGPLPDFKTY-SMFISCLC 982
Cdd:PLN03077  375 ETYALMEQDNVSPDEITIaSVLSACAC 401
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 844-1021 4.08e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 47.95  E-value: 4.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  844 AGRLEEALSLLDEVGGERATLDQYAYGTLVHGLLREGRQEQALAKVNSMKQAGIQPTVHVYTSlivHFFKEKQIEKAMEI 923
Cdd:PLN03218  348 ASDVEEENSLAAYNGGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHA---KFFKACKKQRAVKE 424

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  924 FQEMQQEGCEPTIVTHSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFISCLCKAGKSEEALRLISEMLDAGII 1003
Cdd:PLN03218  425 AFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVE 504

                         170
                  ....*....|....*...
gi 802611034 1004 PSTINFRTVFYGLNREGK 1021
Cdd:PLN03218  505 ANVHTFGALIDGCARAGQ 522
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 711-767 4.79e-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: 41.96  E-value: 4.79e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 802611034   711 SLFYEMRRKGCLITPDTWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPTGSTYKYLI 767
Cdd:pfam13812    1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 923-979 7.39e-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: 41.57  E-value: 7.39e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 802611034   923 IFQEMQQEGCEPTIVTHSALIRGYMNMGRVDDAWNVFNCLKLKGPLPDFKTYSMFIS 979
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 384-425 1.07e-04

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: 40.81  E-value: 1.07e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 802611034   384 ILVKGLCRAGRIADAMEIIEIMKKRNFV-DAKVYGIIINGYLR 425
Cdd:pfam13041    8 TLINGYCKKGKVEEAFKLFNEMKKRGVKpNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 973-1002 1.16e-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: 40.14  E-value: 1.16e-04
                           10        20        30
                   ....*....|....*....|....*....|
gi 802611034   973 TYSMFISCLCKAGKSEEALRLISEMLDAGI 1002
Cdd:pfam01535    2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 727-756 1.26e-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: 40.14  E-value: 1.26e-04
                           10        20        30
                   ....*....|....*....|....*....|
gi 802611034   727 TWSIMIMQYGRTGLTEIALKIFHEMKNDGC 756
Cdd:pfam01535    2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 754-788 1.83e-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: 39.64  E-value: 1.83e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 802611034   754 DGCKPTGSTYKYLIICLCgRKGRkVDEAIKIFEEM 788
Cdd:pfam12854    1 KGLKPDVVTYNTLINGLC-RAGR-VDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 727-759 2.69e-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: 38.98  E-value: 2.69e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 802611034   727 TWSIMIMQYGRTGLTEIALKIFHEMKNDGCKPT 759
Cdd:TIGR00756    2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 240-274 6.45e-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: 38.21  E-value: 6.45e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 802611034   240 RTWTILISQLRKVKLIGKALLFFEKMKKSGFEPDE 274
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 415-444 6.61e-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: 37.83  E-value: 6.61e-04
                           10        20        30
                   ....*....|....*....|....*....|
gi 802611034   415 VYGIIINGYLRRKELSKALELFQCMKESGC 444
Cdd:pfam01535    2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 415-448 7.34e-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: 37.82  E-value: 7.34e-04
                           10        20        30
                   ....*....|....*....|....*....|....
gi 802611034   415 VYGIIINGYLRRKELSKALELFQCMKESGCQPTT 448
Cdd:TIGR00756    2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 839-959 7.80e-04

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: 40.95  E-value: 7.80e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  839 RALCRAGRLEEALSLLDEVgGERATLDQYAYGTLVHGLLREGRQEQALAkvnSMKQA-GIQPT-VHVYTSLIVHFFKEKQ 916
Cdd:COG4783    12 QALLLAGDYDEAEALLEKA-LELDPDNPEAFALLGEILLQLGDLDEAIV---LLHEAlELDPDePEARLNLGLALLKAGD 87

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 802611034  917 IEKAMEIFQE-MQQEGCEPTIVTHSALIrgYMNMGRVDDAWNVF 959
Cdd:COG4783    88 YDEALALLEKaLKLDPEHPEAYLRLARA--YRALGRPDEAIAAL 129
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 293-456 9.83e-04

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: 41.61  E-value: 9.83e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034   293 ALELYKEMIQRDMKLDLSSYKVLLN--SMAKLGDVGAVNLIADDMIRVsqisepdvlvcmlksFCvagrirealalirDL 370
Cdd:pfam17177   30 ALALYDAAKAEGVRLAQYHYNVLLYlcSKAADATDLKPQLAADRGFEV---------------FE-------------AM 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034   371 KSKEISIDYEYFEILVKgLCRAGRIAD-AMEIIEIMKKRNfVDAKV--YGIIINGYLRRKELSKALELFQCMKESGCQPT 447
Cdd:pfam17177   82 KAQGVSPNEATYTAVAR-LAAAKGDGDlAFDLVKEMEAAG-VSPRLrsYSPALHAYCEAGDADKAYEVEEHMLAHGVELE 159


                   ....*....
gi 802611034   448 TSTYTELMQ 456
Cdd:pfam17177  160 EPELAALLK 168
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 903-932 1.72e-03

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: 36.67  E-value: 1.72e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 802611034   903 VYTSLIVHFFKEKQIEKAMEIFQEMQQEGC 932
Cdd:pfam01535    2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 382-406 1.86e-03

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: 1.86e-03
                           10        20
                   ....*....|....*....|....*
gi 802611034   382 FEILVKGLCRAGRIADAMEIIEIMK 406
Cdd:pfam12854   10 YNTLINGLCRAGRVDEAFELLDEME 34
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 391-580 2.30e-03

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: 41.25  E-value: 2.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  391 RAGRIADAMEIIEIMKKRNFVDAKVYGIIINGYLRRKELSKALELFQCMKESGcQPTTSTYTELMQHLFNLNQYKKGLEL 470
Cdd:COG2956    88 KAGLLDRAEELLEKLLELDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEA 166

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  471 YNEMLERgIKTDSVAIMAVVAGHVRQNHISEAWEAFNtmEAEGINPTWKSYSIFIKELC-KVSRTDDILKVLykMQASKI 549
Cdd:COG2956   167 LEKALKL-DPDCARALLLLAELYLEQGDYEEAIAALE--RALEQDPDYLPALPRLAELYeKLGDPEEALELL--RKALEL 241

                         170       180       190
                  ....*....|....*....|....*....|...
gi 802611034  550 FINDEIFKWVIACLEKKGEMDNVQ--IVKQMQR 580
Cdd:COG2956   242 DPSDDLLLALADLLERKEGLEAALalLERQLRR 274
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 762-796 2.41e-03

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: 2.41e-03
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 802611034   762 TYKYLIICLCgrKGRKVDEAIKIFEEMIRAEYIPD 796
Cdd:TIGR00756    2 TYNTLIDGLC--KAGRVEEALELFKEMKERGIEPD 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 207-359 2.54e-03

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: 40.46  E-value: 2.54e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034   207 IYNSLLYIAGEAkefkvvDDLVEEMENLCkmdirtwtilisqlrkvklIGKALLFFEKMKKSGFEPDEKIYKIMVHLLCE 286
Cdd:pfam17177   48 HYNVLLYLCSKA------ADATDLKPQLA-------------------ADRGFEVFEAMKAQGVSPNEATYTAVARLAAA 102

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 802611034   287 GGKGEIALELYKEMIQRDMKLDLSSYKVLLNSMAKLGDVGAVNLIADDMIRVS-QISEPDvLVCMLKSFCVAGR 359
Cdd:pfam17177  103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGvELEEPE-LAALLKVSAKAGR 175
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 807-964 3.18e-03

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 41.52  E-value: 3.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  807 LCESGKLLEARRSIDSLCKVGFTVPLSYSLHIRALCRAGRLEEALSLLDEVGGERATLDQyAYGTLVHGLLREGRQEQAL 886
Cdd:COG3914    88 LQALGRYEEALALYRRALALNPDNAEALFNLGNLLLALGRLEEALAALRRALALNPDFAE-AYLNLGEALRRLGRLEEAI 166

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  887 AkvnSMKQA-GIQPT-VHVYTSLIVHFFKEKQIEKAMEIFQE-MQQEGCEPTIvtHSALIRGYMNMGRVDDAWNVFNCLK 963
Cdd:COG3914   167 A---ALRRAlELDPDnAEALNNLGNALQDLGRLEEAIAAYRRaLELDPDNADA--HSNLLFALRQACDWEVYDRFEELLA 241


                  .
gi 802611034  964 L 964
Cdd:COG3914   242 A 242
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 692-721 8.18e-03

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: 35.12  E-value: 8.18e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 802611034   692 TYNMAMKIAGRGKDFKHMRSLFYEMRRKGC 721
Cdd:TIGR00756    2 TYNTLIDGLCKAGRVEEALELFKEMKERGI 31
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 779-942 9.31e-03

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 39.98  E-value: 9.31e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  779 DEAIKIFEEMIRAEyiPDREVVETYL-CCLCESGKLLEARRSIDSLCKVGFTVPLSYSLHIRALCRAGRLEEALSLLDEV 857
Cdd:COG3914    95 EEALALYRRALALN--PDNAEALFNLgNLLLALGRLEEALAALRRALALNPDFAEAYLNLGEALRRLGRLEEAIAALRRA 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 802611034  858 gGERATLDQYAYGTLVHGLLREGRQEQALAkvnSMKQAG-IQPTVHVYTSLIVH-FFKEKQIEKAMEIFQEMQQEGCEPT 935
Cdd:COG3914   173 -LELDPDNAEALNNLGNALQDLGRLEEAIA---AYRRALeLDPDNADAHSNLLFaLRQACDWEVYDRFEELLAALARGPS 248


                  ....*..
gi 802611034  936 IVTHSAL 942
Cdd:COG3914   249 ELSPFAL 255
 
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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