NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15235498|ref|NP_192184|]
View 

Tetratricopeptide repeat (TPR)-like superfamily protein [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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PLN03077 super family cl33629
Protein ECB2; Provisional
 66-779 2.45e-177

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 530.96  E-value: 2.45e-177
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   66 EWNVAISSYMRTgrCNEALrvfKRMPRWSSVSYNGMISGYLRNGEFELARKLFDEMPERDLVSWNVMIKGYVRNRNLGKA 145
Cdd:PLN03077  97 EWKRAVEEGSRV--CSRAL---SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEA 171

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  146 RELFEIM------------P---------------------------ERDVCSWNTMLSGYAQNGCVDDARSVFDRMPEK 186
Cdd:PLN03077 172 LCLYHRMlwagvrpdvytfPcvlrtcggipdlargrevhahvvrfgfELDVDVVNALITMYVKCGDVVSARLVFDRMPRR 251

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  187 NDVSWNALLSAYVQNSKMEEACMLF-KSRENW---------ALVSWNCLLG--GFVKKKKIVEARQFFDSmnvrDVVSWN 254
Cdd:PLN03077 252 DCISWNAMISGYFENGECLEGLELFfTMRELSvdpdlmtitSVISACELLGdeRLGREMHGYVVKTGFAV----DVSVCN 327

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  255 TIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPERN----EVSWNAMLAGYVQGERMEM 330
Cdd:PLN03077 328 SLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNvspdEITIASVLSACACLGDLDV 407

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  331 AKELFDVMP----CRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGgR 406
Cdd:PLN03077 408 GVKLHELAErkglISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL-K 486

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  407 LNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAgKDIVSWNTMIAGYS 486
Cdd:PLN03077 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE-KDVVSWNILLTGYV 565

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  487 RHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAH 566
Cdd:PLN03077 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAY 645

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  567 NLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKV 646
Cdd:PLN03077 646 NFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD 725

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  647 PGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRyHSERLAVAYGIMRV 726
Cdd:PLN03077 726 PGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCG-HSERLAIAFGLINT 804

                        730       740       750       760       770
                 ....*....|....*....|....*....|....*....|....*....|...
gi 15235498  727 SSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGD 779
Cdd:PLN03077 805 VPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 66-779 2.45e-177

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 530.96  E-value: 2.45e-177
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   66 EWNVAISSYMRTgrCNEALrvfKRMPRWSSVSYNGMISGYLRNGEFELARKLFDEMPERDLVSWNVMIKGYVRNRNLGKA 145
Cdd:PLN03077  97 EWKRAVEEGSRV--CSRAL---SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEA 171

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  146 RELFEIM------------P---------------------------ERDVCSWNTMLSGYAQNGCVDDARSVFDRMPEK 186
Cdd:PLN03077 172 LCLYHRMlwagvrpdvytfPcvlrtcggipdlargrevhahvvrfgfELDVDVVNALITMYVKCGDVVSARLVFDRMPRR 251

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  187 NDVSWNALLSAYVQNSKMEEACMLF-KSRENW---------ALVSWNCLLG--GFVKKKKIVEARQFFDSmnvrDVVSWN 254
Cdd:PLN03077 252 DCISWNAMISGYFENGECLEGLELFfTMRELSvdpdlmtitSVISACELLGdeRLGREMHGYVVKTGFAV----DVSVCN 327

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  255 TIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPERN----EVSWNAMLAGYVQGERMEM 330
Cdd:PLN03077 328 SLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNvspdEITIASVLSACACLGDLDV 407

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  331 AKELFDVMP----CRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGgR 406
Cdd:PLN03077 408 GVKLHELAErkglISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL-K 486

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  407 LNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAgKDIVSWNTMIAGYS 486
Cdd:PLN03077 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE-KDVVSWNILLTGYV 565

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  487 RHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAH 566
Cdd:PLN03077 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAY 645

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  567 NLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKV 646
Cdd:PLN03077 646 NFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD 725

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  647 PGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRyHSERLAVAYGIMRV 726
Cdd:PLN03077 726 PGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCG-HSERLAIAFGLINT 804

                        730       740       750       760       770
                 ....*....|....*....|....*....|....*....|....*....|...
gi 15235498  727 SSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGD 779
Cdd:PLN03077 805 VPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857
DYW_deaminase pfam14432
DYW family of nucleic acid deaminases; This is the DYW domain found in nucleic acid deaminases ...
 689-781 6.79e-47

DYW family of nucleic acid deaminases; This is the DYW domain found in nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members containing this domain are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. This domain contains a characteriztic zinc-binding motif (CXXC, HXE) which has been shown to bind zinc ions. This domain is often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems.


Pssm-ID: 464172 [Multi-domain]  Cd Length: 93  Bit Score: 161.44  E-value: 6.79e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   689 GYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFH 768
Cdd:pfam14432   1 GYVPDLRFVLHDVDDEEKKQLLCGHSEKLALAYGLLTTPDGATIRITKNLRVCGDCHTAFKYISKIRGREIVVRDASRFH 80

                          90
                  ....*....|...
gi 15235498   769 HFKDGSCSCGDYW 781
Cdd:pfam14432  81 HFKNGLCSCGDFW 93
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 476-510 2.06e-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: 44.75  E-value: 2.06e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15235498   476 VSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDD 510
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
244-409 9.86e-04

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 41.53  E-value: 9.86e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 244 SMNVRDVVSWNTIITGYAQSGKIDEARQLFDES----PvQDVFTWTAMVSGYIQNRMVEEARELFDK---MPERNEVSWN 316
Cdd:COG0457   2 ELDPDDAEAYNNLGLAYRRLGRYEEAIEDYEKAleldP-DDAEALYNLGLAYLRLGRYEEALADYEQaleLDPDDAEALN 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 317 AMLAGYVQGERMEMAKELFD----VMPcRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDP---VSWAAMIAGYSQSGH 389
Cdd:COG0457  81 NLGLALQALGRYEEALEDYDkaleLDP-DDAEALYNLGLALLELGRYDEAIEAYERALELDPddaDALYNLGIALEKLGR 159

                       170       180
                ....*....|....*....|
gi 15235498 390 SFEALRLFVQMEREGGRLNR 409
Cdd:COG0457 160 YEEALELLEKLEAAALAALL 179
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 66-779 2.45e-177

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 530.96  E-value: 2.45e-177
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   66 EWNVAISSYMRTgrCNEALrvfKRMPRWSSVSYNGMISGYLRNGEFELARKLFDEMPERDLVSWNVMIKGYVRNRNLGKA 145
Cdd:PLN03077  97 EWKRAVEEGSRV--CSRAL---SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEA 171

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  146 RELFEIM------------P---------------------------ERDVCSWNTMLSGYAQNGCVDDARSVFDRMPEK 186
Cdd:PLN03077 172 LCLYHRMlwagvrpdvytfPcvlrtcggipdlargrevhahvvrfgfELDVDVVNALITMYVKCGDVVSARLVFDRMPRR 251

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  187 NDVSWNALLSAYVQNSKMEEACMLF-KSRENW---------ALVSWNCLLG--GFVKKKKIVEARQFFDSmnvrDVVSWN 254
Cdd:PLN03077 252 DCISWNAMISGYFENGECLEGLELFfTMRELSvdpdlmtitSVISACELLGdeRLGREMHGYVVKTGFAV----DVSVCN 327

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  255 TIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPERN----EVSWNAMLAGYVQGERMEM 330
Cdd:PLN03077 328 SLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNvspdEITIASVLSACACLGDLDV 407

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  331 AKELFDVMP----CRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGgR 406
Cdd:PLN03077 408 GVKLHELAErkglISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL-K 486

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  407 LNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAgKDIVSWNTMIAGYS 486
Cdd:PLN03077 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE-KDVVSWNILLTGYV 565

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  487 RHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAH 566
Cdd:PLN03077 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAY 645

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  567 NLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKV 646
Cdd:PLN03077 646 NFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD 725

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  647 PGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRyHSERLAVAYGIMRV 726
Cdd:PLN03077 726 PGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCG-HSERLAIAFGLINT 804

                        730       740       750       760       770
                 ....*....|....*....|....*....|....*....|....*....|...
gi 15235498  727 SSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGD 779
Cdd:PLN03077 805 VPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 280-781 2.05e-163

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 489.38  E-value: 2.05e-163
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  280 DVFTWTAMVSGYIQNRMVEEARELFDKMPERNEVSWNAMLAGYVQGERMEMAKELFDVM--------------------- 338
Cdd:PLN03081 157 DQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMwedgsdaeprtfvvmlrasag 236

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  339 ------------------PCRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQM 400
Cdd:PLN03081 237 lgsaragqqlhccvlktgVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEM 316

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  401 EREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNT 480
Cdd:PLN03081 317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNA 396

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  481 MIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAG 560
Cdd:PLN03081 397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  561 LLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRD 640
Cdd:PLN03081 477 LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR 556

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  641 KGVKKVPGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSERLAVA 720
Cdd:PLN03081 557 KGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIA 636

                        490       500       510       520       530       540
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15235498  721 YGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGDYW 781
Cdd:PLN03081 637 FGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697
DYW_deaminase pfam14432
DYW family of nucleic acid deaminases; This is the DYW domain found in nucleic acid deaminases ...
 689-781 6.79e-47

DYW family of nucleic acid deaminases; This is the DYW domain found in nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members containing this domain are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. This domain contains a characteriztic zinc-binding motif (CXXC, HXE) which has been shown to bind zinc ions. This domain is often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems.


Pssm-ID: 464172 [Multi-domain]  Cd Length: 93  Bit Score: 161.44  E-value: 6.79e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   689 GYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFH 768
Cdd:pfam14432   1 GYVPDLRFVLHDVDDEEKKQLLCGHSEKLALAYGLLTTPDGATIRITKNLRVCGDCHTAFKYISKIRGREIVVRDASRFH 80

                          90
                  ....*....|...
gi 15235498   769 HFKDGSCSCGDYW 781
Cdd:pfam14432  81 HFKNGLCSCGDFW 93
PLN03077 PLN03077
Protein ECB2; Provisional
 297-611 2.83e-36

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 146.92  E-value: 2.83e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  297 VEEARELFDKMPE-RNEVSWNAMLA---------GYVQGERMemAKELFDVMPCRNVSTWNTMITGYAQCGKISEAKNLF 366
Cdd:PLN03077  67 LEQALKLLESMQElRVPVDEDAYVAlfrlcewkrAVEEGSRV--CSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVF 144

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  367 DKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFV 446
Cdd:PLN03077 145 GKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDV 224

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  447 GNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLV 526
Cdd:PLN03077 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  527 DKGRQ-YFYTMTQDYGVmpNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEpDAAIWGTLLGASRVHGnteLAETAADKIF 605
Cdd:PLN03077 305 RLGREmHGYVVKTGFAV--DVSVCNSLIQMYLSLGSWGEAEKVFSRMETK-DAVSWTAMISGYEKNG---LPDKALETYA 378


                 ....*.
gi 15235498  606 AMEPEN 611
Cdd:PLN03077 379 LMEQDN 384
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 591-653 1.98e-19

E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) proteins which contain a DYW deaminase domain. The DYW domain is required for RNA editing, a process that deaminates specific cytidines to uridines. This motif, together with the E+ motif, precedes the DYW domain and, although their role is not clear, they are essential in the RNA editing reaction. The E/E+ motifs may contain two degenerate PPR motifs that could be involved in RNA or protein binding.


Pssm-ID: 466580 [Multi-domain]  Cd Length: 63  Bit Score: 82.59  E-value: 1.98e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15235498   591 HGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIE 653
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSWIE 63
PLN03077 PLN03077
Protein ECB2; Provisional
 379-531 2.28e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 70.65  E-value: 2.28e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  379 AMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCG 458
Cdd:PLN03077  56 SQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFG 135

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15235498  459 SIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACShtGLVD--KGRQ 531
Cdd:PLN03077 136 ELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCG--GIPDlaRGRE 208
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 473-522 9.35e-11

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: 57.37  E-value: 9.35e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15235498   473 KDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSH 522
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 94-138 3.24e-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: 55.83  E-value: 3.24e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 15235498    94 SSVSYNGMISGYLRNGEFELARKLFDEMPER----DLVSWNVMIKGYVR 138
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 371-621 1.71e-09

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 61.43  E-value: 1.71e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   371 KRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADvvALELGKQL--HGRLVKGGYETGCFVGN 448
Cdd:PLN03218  469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR--AGQVAKAFgaYGIMRSKNVKPDRVVFN 546

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   449 ALLLMYCKCGSIEEANDLFKEMAGK------DIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSH 522
Cdd:PLN03218  547 ALISACGQSGAVDRAFDVLAEMKAEthpidpDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQ 626

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   523 TGLVDKGRQYFYTMTQDyGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMP---FEPDAAIWGTLLGASRVHGNTELAET 599
Cdd:PLN03218  627 KGDWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARkqgIKLGTVSYSSLMGACSNAKNWKKALE 705

                         250       260
                  ....*....|....*....|....
gi 15235498   600 AADKIFAME--PENSGMYVLLSNL 621
Cdd:PLN03218  706 LYEDIKSIKlrPTVSTMNALITAL 729
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 248-291 8.59e-09

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: 51.98  E-value: 8.59e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15235498   248 RDVVSWNTIITGYAQSGKIDEARQLFDE------SPvqDVFTWTAMVSGY 291
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEmkkrgvKP--NVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 310-355 6.72e-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: 49.28  E-value: 6.72e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15235498   310 RNEVSWNAMLAGYVQGERMEMAKELFDVMPCRNVS----TWNTMITGYAQ 355
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKpnvyTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 124-169 8.84e-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: 48.90  E-value: 8.84e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15235498   124 RDLVSWNVMIKGYVRNRNLGKARELFEIMPER----DVCSWNTMLSGYAQ 169
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 341-384 2.62e-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: 47.74  E-value: 2.62e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15235498   341 RNVSTWNTMITGYAQCGKISEAKNLFDKMPKR----DPVSWAAMIAGY 384
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 ...
 280-322 2.62e-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: 47.74  E-value: 2.62e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15235498   280 DVFTWTAMVSGYIQNRMVEEARELFDKMPER----NEVSWNAMLAGY 322
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 155-198 6.60e-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: 46.59  E-value: 6.60e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15235498   155 RDVCSWNTMLSGYAQNGCVDDARSVFDRMPEK----NDVSWNALLSAY 198
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGL 48
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 476-510 2.06e-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: 44.75  E-value: 2.06e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15235498   476 VSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDD 510
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 220-262 2.08e-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: 45.05  E-value: 2.08e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15235498   220 VSWNCLLGGFVKKKKIVEARQFFDSMNVR----DVVSWNTIITGYAQ 262
Cdd:pfam13041   4 VTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 476-506 3.50e-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: 43.99  E-value: 3.50e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15235498   476 VSWNTMIAGYSRHGFGEVALRFFESMKREGL 506
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 494-587 5.87e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 49.88  E-value: 5.87e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   494 ALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTqDYGVMPNSQHYACMVDLLGRAGLLED---AHNLMK 570
Cdd:PLN03218  456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV-NAGVEANVHTFGALIDGCARAGQVAKafgAYGIMR 534

                          90
                  ....*....|....*..
gi 15235498   571 NMPFEPDAAIWGTLLGA 587
Cdd:PLN03218  535 SKNVKPDRVVFNALISA 551
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 96-126 5.94e-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: 43.22  E-value: 5.94e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15235498    96 VSYNGMISGYLRNGEFELARKLFDEMPERDL 126
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 249-275 6.61e-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: 43.49  E-value: 6.61e-06
                          10        20
                  ....*....|....*....|....*..
gi 15235498   249 DVVSWNTIITGYAQSGKIDEARQLFDE 275
Cdd:pfam12854   6 DVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 96-127 7.45e-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: 7.45e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 15235498    96 VSYNGMISGYLRNGEFELARKLFDEMPERDLV 127
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 340-369 8.36e-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: 43.10  E-value: 8.36e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 15235498   340 CRNVSTWNTMITGYAQCGKISEAKNLFDKM 369
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 186-231 8.89e-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: 43.51  E-value: 8.89e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15235498   186 KNDVSWNALLSAYVQNSKMEEACMLFKSRENWAL----VSWNCLLGGFVK 231
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVkpnvYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 344-372 1.24e-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: 42.45  E-value: 1.24e-05
                          10        20
                  ....*....|....*....|....*....
gi 15235498   344 STWNTMITGYAQCGKISEAKNLFDKMPKR 372
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 249-555 1.27e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 49.11  E-value: 1.27e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   249 DVVSWNTIITGYAQSGKIDEARQLFDESPVQ----DVFTWTAMVSGYIQNRMVEEARELFDKMPERN----EVSWNAML- 319
Cdd:PLN03218  471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAgveaNVHTFGALIDGCARAGQVAKAFGAYGIMRSKNvkpdRVVFNALIs 550

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   320 ----AGYVQgeRM-----EMAKELFDVMPcrNVSTWNTMITGYAQCGKISEAKNLFDKMPKRD----PVSWAAMIAGYSQ 386
Cdd:PLN03218  551 acgqSGAVD--RAfdvlaEMKAETHPIDP--DHITVGALMKACANAGQVDRAKEVYQMIHEYNikgtPEVYTIAVNSCSQ 626

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   387 SGHSFEALRLFVQMEREGGRLNRSsFSSALstcADVVAlelgkqlHGRLV-----------KGGYETGCFVGNALLLMYC 455
Cdd:PLN03218  627 KGDWDFALSIYDDMKKKGVKPDEV-FFSAL---VDVAG-------HAGDLdkafeilqdarKQGIKLGTVSYSSLMGACS 695

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   456 KCGSIEEANDLF---KEMAGKDIVS-WNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQ 531
Cdd:PLN03218  696 NAKNWKKALELYediKSIKLRPTVStMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD 775

                         330       340
                  ....*....|....*....|....
gi 15235498   532 YFYTMTQDyGVMPNSQHYACMVDL 555
Cdd:PLN03218  776 LLSQAKED-GIKPNLVMCRCITGL 798
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 282-311 1.31e-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: 42.45  E-value: 1.31e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 15235498   282 FTWTAMVSGYIQNRMVEEARELFDKMPERN 311
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 159-187 1.38e-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: 42.45  E-value: 1.38e-05
                          10        20
                  ....*....|....*....|....*....
gi 15235498   159 SWNTMLSGYAQNGCVDDARSVFDRMPEKN 187
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 127-157 4.06e-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: 40.91  E-value: 4.06e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15235498   127 VSWNVMIKGYVRNRNLGKARELFEIMPERDV 157
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 ...
 448-487 5.01e-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: 41.19  E-value: 5.01e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 15235498   448 NALLLMYCKCGSIEEANDLFKEMAGK----DIVSWNTMIAGYSR 487
Cdd:pfam13041   7 NTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 67-107 1.03e-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: 40.42  E-value: 1.03e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15235498    67 WNVAISSYMRTGRCNEALRVFKRMPRW----SSVSYNGMISGYLR 107
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 158-187 1.08e-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: 39.75  E-value: 1.08e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 15235498   158 CSWNTMLSGYAQNGCVDDARSVFDRMPEKN 187
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG 30
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 280-307 1.57e-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: 39.25  E-value: 1.57e-04
                          10        20
                  ....*....|....*....|....*...
gi 15235498   280 DVFTWTAMVSGYIQNRMVEEARELFDKM 307
Cdd:pfam12854   6 DVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 282-311 1.67e-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: 39.36  E-value: 1.67e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 15235498   282 FTWTAMVSGYIQNRMVEEARELFDKMPERN 311
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG 30
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 251-275 2.35e-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: 38.99  E-value: 2.35e-04
                          10        20
                  ....*....|....*....|....*
gi 15235498   251 VSWNTIITGYAQSGKIDEARQLFDE 275
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKE 25
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 96-121 2.84e-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: 38.87  E-value: 2.84e-04
                          10        20
                  ....*....|....*....|....*.
gi 15235498    96 VSYNGMISGYLRNGEFELARKLFDEM 121
Cdd:pfam12854   8 VTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 154-183 2.92e-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: 38.48  E-value: 2.92e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 15235498   154 ERDVCSWNTMLSGYAQNGCVDDARSVFDRM 183
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 127-158 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: 38.59  E-value: 3.36e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 15235498   127 VSWNVMIKGYVRNRNLGKARELFEIMPERDVC 158
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32
Eplus_motif pfam20430
E+ motif; This is the E+ motif found in some plant pentatricopeptide repeat (PPR) proteins ...
 658-685 5.72e-04

E+ motif; This is the E+ motif found in some plant pentatricopeptide repeat (PPR) proteins which contain a C-terminal DYW deaminase domain. The DYW domain is required for RNA editing, a process that deaminates specific cytidines to uridines. This motif, together with the E motif, precedes the DYW domain and, although their role is not clear, they are essential in th RNA editing reaction. The E/E+ motifs may contain two degenerate PPR motifs that could be involved in RNA or protein binding.


Pssm-ID: 466579 [Multi-domain]  Cd Length: 28  Bit Score: 37.64  E-value: 5.72e-04
                          10        20
                  ....*....|....*....|....*...
gi 15235498   658 THTFSVGDEFHPEKDEIFAFLEELDLRM 685
Cdd:pfam20430   1 TYTFFAGDKSHPESKQIYEKLSDLTQRI 28
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 345-373 6.13e-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: 6.13e-04
                          10        20
                  ....*....|....*....|....*....
gi 15235498   345 TWNTMITGYAQCGKISEAKNLFDKMPKRD 373
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERG 30
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 98-369 7.00e-04

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 43.33  E-value: 7.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498    98 YNGMISGYLRNGEFELARKLFDEMP----ERDLVSWNVMIKGYVRNRNLGKARELFEIM------PERDVcsWNTMLSGY 167
Cdd:PLN03218  475 YTTLISTCAKSGKVDAMFEVFHEMVnagvEANVHTFGALIDGCARAGQVAKAFGAYGIMrsknvkPDRVV--FNALISAC 552

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   168 AQNGCVDDARSVFDRM-----PEKND-VSWNALLSAyvqnskmeeacmlfksrenwalvswnCLLGGFVKKKKivEARQF 241
Cdd:PLN03218  553 GQSGAVDRAFDVLAEMkaethPIDPDhITVGALMKA--------------------------CANAGQVDRAK--EVYQM 604

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498   242 FDSMNVRDVVSWNTI-ITGYAQSGKIDEARQLFD---ESPVQ--DVFtWTAMVSGYIQNRMVEEARELFDKMpeRNE--- 312
Cdd:PLN03218  605 IHEYNIKGTPEVYTIaVNSCSQKGDWDFALSIYDdmkKKGVKpdEVF-FSALVDVAGHAGDLDKAFEILQDA--RKQgik 681

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15235498   313 ---VSWNAMLAGYVQGERMEMAKELFD------VMPcrNVSTWNTMITGYAQCGKISEAKNLFDKM 369
Cdd:PLN03218  682 lgtVSYSSLMGACSNAKNWKKALELYEdiksikLRP--TVSTMNALITALCEGNQLPKALEVLSEM 745
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
244-409 9.86e-04

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 41.53  E-value: 9.86e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 244 SMNVRDVVSWNTIITGYAQSGKIDEARQLFDES----PvQDVFTWTAMVSGYIQNRMVEEARELFDK---MPERNEVSWN 316
Cdd:COG0457   2 ELDPDDAEAYNNLGLAYRRLGRYEEAIEDYEKAleldP-DDAEALYNLGLAYLRLGRYEEALADYEQaleLDPDDAEALN 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 317 AMLAGYVQGERMEMAKELFD----VMPcRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDP---VSWAAMIAGYSQSGH 389
Cdd:COG0457  81 NLGLALQALGRYEEALEDYDkaleLDP-DDAEALYNLGLALLELGRYDEAIEAYERALELDPddaDALYNLGIALEKLGR 159

                       170       180
                ....*....|....*....|
gi 15235498 390 SFEALRLFVQMEREGGRLNR 409
Cdd:COG0457 160 YEEALELLEKLEAAALAALL 179
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 375-404 1.54e-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: 1.54e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 15235498   375 VSWAAMIAGYSQSGHSFEALRLFVQMEREG 404
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
74-219 1.55e-03

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 41.15  E-value: 1.55e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498  74 YMRTGRCNEALRVFKR---MPRWSSVSYNGMISGYLRNGEFELARKLFD---EMPERDLVSWNVMIKGYVRNRNLGKARE 147
Cdd:COG0457  18 YRRLGRYEEAIEDYEKaleLDPDDAEALYNLGLAYLRLGRYEEALADYEqalELDPDDAEALNNLGLALQALGRYEEALE 97

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15235498 148 LF----EIMPErDVCSWNTMLSGYAQNGCVDDARSVFDR---MPEKNDVSWNALLSAYVQNSKMEEACMLFKSRENWAL 219
Cdd:COG0457  98 DYdkalELDPD-DAEALYNLGLALLELGRYDEAIEAYERaleLDPDDADALYNLGIALEKLGRYEEALELLEKLEAAAL 175
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 313-343 1.55e-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: 1.55e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15235498   313 VSWNAMLAGYVQGERMEMAKELFDVMPCRNV 343
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 545-630 2.17e-03

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: 39.02  E-value: 2.17e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 545 NSQHYACMVDLLGRAGLLEDA----HNLMKNMPFEPDAAI-WGTLLGASrvhGNTELAETAADKIFAMEPENSGMYVLLS 619
Cdd:COG4783  37 NPEAFALLGEILLQLGDLDEAivllHEALELDPDEPEARLnLGLALLKA---GDYDEALALLEKALKLDPEHPEAYLRLA 113

                        90
                ....*....|.
gi 15235498 620 NLYASSGRWGD 630
Cdd:COG4783 114 RAYRALGRPDE 124
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 251-275 2.60e-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: 35.89  E-value: 2.60e-03
                          10        20
                  ....*....|....*....|....*
gi 15235498   251 VSWNTIITGYAQSGKIDEARQLFDE 275
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKE 25
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 105-334 4.09e-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: 39.71  E-value: 4.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 105 YLRNGEFELARKLFDEMPERD---LVSWNVMIKGYVRNRNLGKARELFE----IMPERDVCswNTMLSG-YAQNGCVDDA 176
Cdd:COG2956  18 YLLNGQPDKAIDLLEEALELDpetVEAHLALGNLYRRRGEYDRAIRIHQklleRDPDRAEA--LLELAQdYLKAGLLDRA 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 177 RSVFDR---MPEKNDVSWNALLSAYVQNSKMEEACMLFK--SRENWALVSWNCLLGG-FVKKKKIVEARQFFD---SMNV 247
Cdd:COG2956  96 EELLEKlleLDPDDAEALRLLAEIYEQEGDWEKAIEVLErlLKLGPENAHAYCELAElYLEQGDYDEAIEALEkalKLDP 175

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 248 RDVVSWNTIITGYAQSGKIDEARQLFDESPVQD---VFTWTAMVSGYIQNRMVEEARELFDKMPERNE--VSWNAMLAGY 322
Cdd:COG2956 176 DCARALLLLAELYLEQGDYEEAIAALERALEQDpdyLPALPRLAELYEKLGDPEEALELLRKALELDPsdDLLLALADLL 255

                       250
                ....*....|..
gi 15235498 323 VQGERMEMAKEL 334
Cdd:COG2956 256 ERKEGLEAALAL 267
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 189-212 4.63e-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: 35.13  E-value: 4.63e-03
                          10        20
                  ....*....|....*....|....
gi 15235498   189 VSWNALLSAYVQNSKMEEACMLFK 212
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFK 24
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 372-421 5.32e-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: 35.42  E-value: 5.32e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15235498   372 RDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCAD 421
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 260-397 6.84e-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: 39.33  E-value: 6.84e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 260 YAQSGKIDEARQLFD---ESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPERNEVSWNA--MLAG-YVQGERMEMAKE 333
Cdd:COG2956  86 YLKAGLLDRAEELLEkllELDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAycELAElYLEQGDYDEAIE 165

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15235498 334 LFD----VMPcRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDP--VSWAAMIAG-YSQSGHSFEALRLF 397
Cdd:COG2956 166 ALEkalkLDP-DCARALLLLAELYLEQGDYEEAIAALERALEQDPdyLPALPRLAElYEKLGDPEEALELL 235
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 466-520 6.89e-03

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: 35.80  E-value: 6.89e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15235498   466 LFKEMAGK----DIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSAC 520
Cdd:pfam13812   2 ILREMVRDgiqlNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
190-336 9.98e-03

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 38.45  E-value: 9.98e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 190 SWNALLSAYVQNSKMEEACMLFK---SRENWALVSWNCLLGGFVKKKKIVEARQFFD---SMNVRDVVSWNTIITGYAQS 263
Cdd:COG0457  10 AYNNLGLAYRRLGRYEEAIEDYEkalELDPDDAEALYNLGLAYLRLGRYEEALADYEqalELDPDDAEALNNLGLALQAL 89

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235498 264 GKIDEARQLFDE----SPvQDVFTWTAMVSGYIQNRMVEEARELFDK---MPERNEVSWNAMLAGYVQGERMEMAKELFD 336
Cdd:COG0457  90 GRYEEALEDYDKalelDP-DDAEALYNLGLALLELGRYDEAIEAYERaleLDPDDADALYNLGIALEKLGRYEEALELLE 168
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH