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Conserved domains on  [gi|334186756|ref|NP_193809|]
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Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03077 super family cl33629
Protein ECB2; Provisional
 63-761 2.99e-130

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 408.47  E-value: 2.99e-130
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  63 VFDEMSVRDVYSWNAFLTFRCKVGDLGEACEVFDGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLA 142
Cdd:PLN03077 112 ALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 143 SVLSACSKVLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDyGVRVFESLSQPNEVSYTAVIGGLARENKVL 222
Cdd:PLN03077 192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS-ARLVFDRMPRRDCISWNAMISGYFENGECL 270

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 223 EAVQMFRLMCEKGVQVDSVCLSNILSisapreGCDSLSEIygnELGKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNG 302
Cdd:PLN03077 271 EGLELFFTMRELSVDPDLMTITSVIS------ACELLGDE---RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 303 AELIFAEMPEVNVVSWNIMIVGFGQEYRSDKSVEfltrmrdsgfqpnevtcisvlgacfrsgdvetgrrifssipqpsvs 382
Cdd:PLN03077 342 AEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE---------------------------------------------- 375

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 383 awnamlsgysnyehyeeaisNFRQMQFQNLKPDKTTLSVILSSCARLRFLEGGKQIHGVVIRTEISKNSHIVSGLIAVYS 462
Cdd:PLN03077 376 --------------------TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS 435

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 463 ECEKMEISECIFdDCINELDIACWNSMISGFRHNMLDTKALILFRRMHQTavLCPNETSFATVLSSCSRLCSLLHGRQFH 542
Cdd:PLN03077 436 KCKCIDKALEVF-HNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIGALMCGKEIH 512

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 543 GLVVKSGYVSDSFVETALTDMYCKCGEIDSARQFFDAVlRKNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGIT 622
Cdd:PLN03077 513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT 591

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 623 FVSVLTACSHSGLVETGLEILSSMQRIHGIEPELDHYICIVDCLGRAGRLEDAEKLAEATPYKSSSVLWEILLSSCRVHG 702
Cdd:PLN03077 592 FISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHR 671

                        650       660       670       680       690
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 334186756 703 DVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGLMNKNRVHKTPGQSW 761
Cdd:PLN03077 672 HVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 314-362 1.50e-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.


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.74  E-value: 1.50e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334186756  314 NVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFR 362
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 super family cl37870
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 341-393 8.31e-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.


The actual alignment was detected with superfamily member pfam13812:

Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 35.41  E-value: 8.31e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334186756  341 MRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIPQ----PSVSAWNAMLSGYSN 393
Cdd:pfam13812   6 MVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKkgikPTLDTYNAILGVIGG 62
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 63-761 2.99e-130

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 408.47  E-value: 2.99e-130
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  63 VFDEMSVRDVYSWNAFLTFRCKVGDLGEACEVFDGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLA 142
Cdd:PLN03077 112 ALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 143 SVLSACSKVLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDyGVRVFESLSQPNEVSYTAVIGGLARENKVL 222
Cdd:PLN03077 192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS-ARLVFDRMPRRDCISWNAMISGYFENGECL 270

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 223 EAVQMFRLMCEKGVQVDSVCLSNILSisapreGCDSLSEIygnELGKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNG 302
Cdd:PLN03077 271 EGLELFFTMRELSVDPDLMTITSVIS------ACELLGDE---RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 303 AELIFAEMPEVNVVSWNIMIVGFGQEYRSDKSVEfltrmrdsgfqpnevtcisvlgacfrsgdvetgrrifssipqpsvs 382
Cdd:PLN03077 342 AEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE---------------------------------------------- 375

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 383 awnamlsgysnyehyeeaisNFRQMQFQNLKPDKTTLSVILSSCARLRFLEGGKQIHGVVIRTEISKNSHIVSGLIAVYS 462
Cdd:PLN03077 376 --------------------TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS 435

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 463 ECEKMEISECIFdDCINELDIACWNSMISGFRHNMLDTKALILFRRMHQTavLCPNETSFATVLSSCSRLCSLLHGRQFH 542
Cdd:PLN03077 436 KCKCIDKALEVF-HNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIGALMCGKEIH 512

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 543 GLVVKSGYVSDSFVETALTDMYCKCGEIDSARQFFDAVlRKNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGIT 622
Cdd:PLN03077 513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT 591

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 623 FVSVLTACSHSGLVETGLEILSSMQRIHGIEPELDHYICIVDCLGRAGRLEDAEKLAEATPYKSSSVLWEILLSSCRVHG 702
Cdd:PLN03077 592 FISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHR 671

                        650       660       670       680       690
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 334186756 703 DVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGLMNKNRVHKTPGQSW 761
Cdd:PLN03077 672 HVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 701-761 1.46e-11

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: 60.25  E-value: 1.46e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334186756  701 HGDVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGLMNKNRVHKTPGQSW 761
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSW 61
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 586-619 5.19e-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: 43.60  E-value: 5.19e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334186756  586 VIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPD 619
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 314-362 1.50e-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: 42.74  E-value: 1.50e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334186756  314 NVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFR 362
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 559-744 5.13e-05

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: 45.88  E-value: 5.13e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 559 ALTDMYCKCGEIDSARQFFDAVLRKN---TVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKpDGITFVSVLTACSHSGL 635
Cdd:COG2956   47 ALGNLYRRRGEYDRAIRIHQKLLERDpdrAEALLELAQDYLKAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGD 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 636 VETGLEILssmQRIHGIEPELDHYIC-IVDCLGRAGRLEDA----EKLAEATPyKSSSVLW---EILLSscrvHGDVSLA 707
Cdd:COG2956  126 WEKAIEVL---ERLLKLGPENAHAYCeLAELYLEQGDYDEAiealEKALKLDP-DCARALLllaELYLE----QGDYEEA 197

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 334186756 708 RRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAAL 744
Cdd:COG2956  198 IAALERALEQDPDYLPALPRLAELYEKLGDPEEALEL 234
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 341-393 8.31e-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: 35.41  E-value: 8.31e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334186756  341 MRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIPQ----PSVSAWNAMLSGYSN 393
Cdd:pfam13812   6 MVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKkgikPTLDTYNAILGVIGG 62
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 63-761 2.99e-130

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 408.47  E-value: 2.99e-130
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  63 VFDEMSVRDVYSWNAFLTFRCKVGDLGEACEVFDGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLA 142
Cdd:PLN03077 112 ALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 143 SVLSACSKVLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDyGVRVFESLSQPNEVSYTAVIGGLARENKVL 222
Cdd:PLN03077 192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS-ARLVFDRMPRRDCISWNAMISGYFENGECL 270

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 223 EAVQMFRLMCEKGVQVDSVCLSNILSisapreGCDSLSEIygnELGKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNG 302
Cdd:PLN03077 271 EGLELFFTMRELSVDPDLMTITSVIS------ACELLGDE---RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 303 AELIFAEMPEVNVVSWNIMIVGFGQEYRSDKSVEfltrmrdsgfqpnevtcisvlgacfrsgdvetgrrifssipqpsvs 382
Cdd:PLN03077 342 AEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE---------------------------------------------- 375

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 383 awnamlsgysnyehyeeaisNFRQMQFQNLKPDKTTLSVILSSCARLRFLEGGKQIHGVVIRTEISKNSHIVSGLIAVYS 462
Cdd:PLN03077 376 --------------------TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS 435

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 463 ECEKMEISECIFdDCINELDIACWNSMISGFRHNMLDTKALILFRRMHQTavLCPNETSFATVLSSCSRLCSLLHGRQFH 542
Cdd:PLN03077 436 KCKCIDKALEVF-HNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIGALMCGKEIH 512

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 543 GLVVKSGYVSDSFVETALTDMYCKCGEIDSARQFFDAVlRKNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGIT 622
Cdd:PLN03077 513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT 591

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 623 FVSVLTACSHSGLVETGLEILSSMQRIHGIEPELDHYICIVDCLGRAGRLEDAEKLAEATPYKSSSVLWEILLSSCRVHG 702
Cdd:PLN03077 592 FISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHR 671

                        650       660       670       680       690
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 334186756 703 DVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGLMNKNRVHKTPGQSW 761
Cdd:PLN03077 672 HVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 341-772 4.20e-94

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 308.72  E-value: 4.20e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 341 MRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIPQPSVSAWNAMLSGYSNYEHYEEAISNFRQMQFQNLKPDKTTLS 420
Cdd:PLN03081 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFV 228

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 421 VILSSCARLRFLEGGKQIHGVVIRTEISKNSHIVSGLIAVYSECEKMEISECIFDdCINELDIACWNSMISGFRHNMLDT 500
Cdd:PLN03081 229 VMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFD-GMPEKTTVAWNSMLAGYALHGYSE 307

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 501 KALILFRRMHQTAVLCPNETsFATVLSSCSRLCSLLHGRQFHGLVVKSGYVSDSFVETALTDMYCKCGEIDSARQFFDAV 580
Cdd:PLN03081 308 EALCLYYEMRDSGVSIDQFT-FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM 386

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 581 LRKNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGITFVSVLTACSHSGLVETGLEILSSMQRIHGIEPELDHYI 660
Cdd:PLN03081 387 PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYA 466

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 661 CIVDCLGRAGRLEDAEKLAEATPYKSSSVLWEILLSSCRVHGDVSLARRVAEKLMRLDPQSSAAYVLLSNTY-SSLRQWD 739
Cdd:PLN03081 467 CMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYnSSGRQAE 546

                        410       420       430
                 ....*....|....*....|....*....|....
gi 334186756 740 DSAALQGLMNKN-RVHktPGQSWTTYGnDLDSGF 772
Cdd:PLN03081 547 AAKVVETLKRKGlSMH--PACTWIEVK-KQDHSF 577
PLN03077 PLN03077
Protein ECB2; Provisional
 25-466 1.36e-62

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 225.50  E-value: 1.36e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  25 GKVIHGFIVRMGMKSDTYLCNRLLDLYIECGDGDYARKVFDEMSVRDVYSWNA-----------------FLTFR----- 82
Cdd:PLN03077 206 GREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAmisgyfengecleglelFFTMRelsvd 285

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  83 ------------------------------------------------CKVGDLGEACEVFDGMPERDVVSWNNMISVLV 114
Cdd:PLN03077 286 pdlmtitsvisacellgderlgremhgyvvktgfavdvsvcnsliqmyLSLGSWGEAEKVFSRMETKDAVSWTAMISGYE 365

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 115 RKGFEEKALVVYKRMVCDGFLPSRFTLASVLSACSKVLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIvDYGV 194
Cdd:PLN03077 366 KNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCI-DKAL 444

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 195 RVFESLSQPNEVSYTAVIGGLARENKVLEAVQMFRLMCEKgVQVDSVCLSNILSISApREGCDSlseiygneLGKQIHCL 274
Cdd:PLN03077 445 EVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACA-RIGALM--------CGKEIHAH 514

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 275 ALRLGFGGDLHLNNSLLEIYAKNKDMNGAELIFaEMPEVNVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCI 354
Cdd:PLN03077 515 VLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFI 593

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 355 SVLGACFRSGDVETGRRIFSSIPQ-----PSVSAWNAMLSGYSNYEHYEEAISNFRQMQfqnLKPDKTTLSVILSSCARL 429
Cdd:PLN03077 594 SLLCACSRSGMVTQGLEYFHSMEEkysitPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIH 670

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|
gi 334186756 430 RFLEGGKQIHGVVIrtEISKNS---HIVsgLIAVYSECEK 466
Cdd:PLN03077 671 RHVELGELAAQHIF--ELDPNSvgyYIL--LCNLYADAGK 706
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 71-436 6.89e-56

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 203.95  E-value: 6.89e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  71 DVYSWNAFLTFRCKVGDLGEACEVFDGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLASVLSACSK 150
Cdd:PLN03081 157 DQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG 236

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 151 VLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDyGVRVFESLSQPNEVSYTAVIGGLARENKVLEAVQMFRL 230
Cdd:PLN03081 237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED-ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYE 315

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 231 MCEKGVQVDSVCLSNILSISApregcdSLSEIygnELGKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNGAELIFAEM 310
Cdd:PLN03081 316 MRDSGVSIDQFTFSIMIRIFS------RLALL---EHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM 386

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 311 PEVNVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIPQ-----PSVSAWN 385
Cdd:PLN03081 387 PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEnhrikPRAMHYA 466

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|.
gi 334186756 386 AMLSGYSNYEHYEEAISNFRQMQFqnlKPDKTTLSVILSSCARLRFLEGGK 436
Cdd:PLN03081 467 CMIELLGREGLLDEAYAMIRRAPF---KPTVNMWAALLTACRIHKNLELGR 514
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 501-702 2.88e-15

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 79.91  E-value: 2.88e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 501 KALILFRRMHQTAVLCPNETSFATVLSSCSRLCSLLHGRQFHGLVVKSGYVSDSFVETALTDMYCKCGEIDSARQFFDAV 580
Cdd:PLN03081 105 EALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 581 LRKNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGITFVSVLTACSHSGLVETGLEILSSMQRIHGIEpelDHYI 660
Cdd:PLN03081 185 PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVG---DTFV 261

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 334186756 661 -C-IVDCLGRAGRLEDAEKLAEATPYKsSSVLWEILLSSCRVHG 702
Cdd:PLN03081 262 sCaLIDMYSKCGDIEDARCVFDGMPEK-TTVAWNSMLAGYALHG 304
PLN03077 PLN03077
Protein ECB2; Provisional
 24-150 2.75e-13

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 73.73  E-value: 2.75e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  24 SGKVIHGFIVRMGMKSDTYLCNRLLDLYIECGDGDYArkvfdemsvrdvysWNAFltfrckvgdlgeacevfdGMPERDV 103
Cdd:PLN03077 507 CGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA--------------WNQF------------------NSHEKDV 554

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 334186756 104 VSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLASVLSACSK 150
Cdd:PLN03077 555 VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 513-718 7.53e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 69.14  E-value: 7.53e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  513 AVLCPNET--SFATVLSSCSRLCSLLHGRQFHGLVVKSGYVSDSFVETALTDMYCKCGEIDSARQFF----DAVLRKNTV 586
Cdd:PLN03218  429 AKLIRNPTlsTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFhemvNAGVEANVH 508

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  587 IWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGITFVSVLTACSHSGLVETGLEILSSMQ-RIHGIEPelDH--YICIV 663
Cdd:PLN03218  509 TFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaETHPIDP--DHitVGALM 586

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 334186756  664 DCLGRAGRLEDAE---KLAEATPYKSSSVLWEILLSSCRVHGDVSLARRVAEKLMRLD 718
Cdd:PLN03218  587 KACANAGQVDRAKevyQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG 644
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 701-761 1.46e-11

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: 60.25  E-value: 1.46e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334186756  701 HGDVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGLMNKNRVHKTPGQSW 761
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSW 61
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 136-428 9.83e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 65.67  E-value: 9.83e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  136 PSRFTLASVLSAC--SKVLDGVFG-MRchgVAVKTGLDKNIFVGNALLSMYAKCGfIVDYGVRVFESLS----QPNEVSY 208
Cdd:PLN03218  435 PTLSTFNMLMSVCasSQDIDGALRvLR---LVQEAGLKADCKLYTTLISTCAKSG-KVDAMFEVFHEMVnagvEANVHTF 510

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  209 TAVIGGLARENKVLEAVQMFRLMCEKGVQVDSVCLsNILSISAPREGC-----DSLSEI-------------YG------ 264
Cdd:PLN03218  511 GALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVF-NALISACGQSGAvdrafDVLAEMkaethpidpdhitVGalmkac 589

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  265 ---------NELGKQIHclalRLGFGGDLHLNNSLLEIYAKNKDMNGAELIFAEMPEVNV----VSWNIMIVGFGQEYRS 331
Cdd:PLN03218  590 anagqvdraKEVYQMIH----EYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVkpdeVFFSALVDVAGHAGDL 665

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  332 DKSVEFLTRMRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIP----QPSVSAWNAMLSGYSNYEHYEEAISNFRQM 407
Cdd:PLN03218  666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKsiklRPTVSTMNALITALCEGNQLPKALEVLSEM 745

                         330       340
                  ....*....|....*....|.
gi 334186756  408 QFQNLKPDKTTLSVILSSCAR 428
Cdd:PLN03218  746 KRLGLCPNTITYSILLVASER 766
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 583-632 5.66e-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: 5.66e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334186756  583 KNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGITFVSVLTACSH 632
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 ...
 379-428 7.14e-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: 7.14e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334186756  379 PSVSAWNAMLSGYSNYEHYEEAISNFRQMQFQNLKPDKTTLSVILSSCAR 428
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 355-707 6.23e-07

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 53.34  E-value: 6.23e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  355 SVLGACFRSGDVETGRRIFSSIPQPSVSAWNAMLSGYSNYEHYEEAISNFRQMQFQNLKPDKTTLSVILSSCARlrfleG 434
Cdd:PLN03218  411 KFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK-----S 485

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  435 GK-----QIHGVVIRTEISKNSHIVSGLI-------------AVYS--ECEKMEISECIFDDCINeldiACWNSMISGFR 494
Cdd:PLN03218  486 GKvdamfEVFHEMVNAGVEANVHTFGALIdgcaragqvakafGAYGimRSKNVKPDRVVFNALIS----ACGQSGAVDRA 561

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  495 HNML-DTKAlilfrrmhQTAVLCPNETSFATVLSSCSRLCSLLHGRQFHGLVVKSGYVSDSFVETALTDMYCKCGEIDSA 573
Cdd:PLN03218  562 FDVLaEMKA--------ETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFA 633

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756  574 RQFFDAVLRK----NTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGITFVSVLTACSHSGLVETGLEILSSMQRI 649
Cdd:PLN03218  634 LSIYDDMKKKgvkpDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI 713

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334186756  650 hGIEPELDHYICIVDCLGRAGRLEDA-EKLAEATPY--KSSSVLWEILLSSCRVHGDVSLA 707
Cdd:PLN03218  714 -KLRPTVSTMNALITALCEGNQLPKAlEVLSEMKRLglCPNTITYSILLVASERKDDADVG 773
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 203-241 1.42e-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: 45.43  E-value: 1.42e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 334186756  203 PNEVSYTAVIGGLARENKVLEAVQMFRLMCEKGVQVDSV 241
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVY 39
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 101-150 3.94e-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: 44.28  E-value: 3.94e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334186756  101 RDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLASVLSACSK 150
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 586-619 5.19e-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: 43.60  E-value: 5.19e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334186756  586 VIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPD 619
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 314-362 1.50e-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: 42.74  E-value: 1.50e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334186756  314 NVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFR 362
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 586-615 3.00e-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: 41.30  E-value: 3.00e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 334186756  586 VIWNEMIHGYGHNGRGDEAVGLYRKMISSG 615
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 559-744 5.13e-05

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: 45.88  E-value: 5.13e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 559 ALTDMYCKCGEIDSARQFFDAVLRKN---TVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKpDGITFVSVLTACSHSGL 635
Cdd:COG2956   47 ALGNLYRRRGEYDRAIRIHQKLLERDpdrAEALLELAQDYLKAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGD 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 636 VETGLEILssmQRIHGIEPELDHYIC-IVDCLGRAGRLEDA----EKLAEATPyKSSSVLW---EILLSscrvHGDVSLA 707
Cdd:COG2956  126 WEKAIEVL---ERLLKLGPENAHAYCeLAELYLEQGDYDEAiealEKALKLDP-DCARALLllaELYLE----QGDYEEA 197

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 334186756 708 RRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAAL 744
Cdd:COG2956  198 IAALERALEQDPDYLPALPRLAELYEKLGDPEEALEL 234
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 206-240 1.34e-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: 39.75  E-value: 1.34e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334186756  206 VSYTAVIGGLARENKVLEAVQMFRLMCEKGVQVDS 240
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 ...
 104-134 2.62e-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: 38.60  E-value: 2.62e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334186756  104 VSWNNMISVLVRKGFEEKALVVYKRMVCDGF 134
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 206-236 3.07e-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: 38.60  E-value: 3.07e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334186756  206 VSYTAVIGGLARENKVLEAVQMFRLMCEKGV 236
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 202-231 3.78e-04

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 38.48  E-value: 3.78e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 334186756  202 QPNEVSYTAVIGGLARENKVLEAVQMFRLM 231
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 ...
 70-115 5.26e-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: 38.50  E-value: 5.26e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334186756   70 RDVYSWNAFLTFRCKVGDLGEACEVFDGMPER----DVVSWNNMISVLVR 115
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 104-137 7.11e-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: 37.43  E-value: 7.11e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334186756  104 VSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPS 137
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 599-750 3.10e-03

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 41.13  E-value: 3.10e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 599 GRGDEAVGLYRKMISsgEKPDGITFVSVL-TACSHSGLVETGLEILssmQRIHGIEPEL-DHYICIVDCLGRAGRLEDAE 676
Cdd:COG3914   92 GRYEEALALYRRALA--LNPDNAEALFNLgNLLLALGRLEEALAAL---RRALALNPDFaEAYLNLGEALRRLGRLEEAI 166

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334186756 677 KLAE-ATPYKSSSVlwEILLSSCRVH---GDVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGLMNK 750
Cdd:COG3914  167 AALRrALELDPDNA--EALNNLGNALqdlGRLEEAIAAYRRALELDPDNADAHSNLLFALRQACDWEVYDRFEELLAA 242
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 666-744 4.22e-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: 38.25  E-value: 4.22e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334186756 666 LGRAGRLEDAEKLAEA--TPYKSSSVLWEILLSSCRVHGDVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAA 743
Cdd:COG4783   14 LLLAGDYDEAEALLEKalELDPDNPEAFALLGEILLQLGDLDEAIVLLHEALELDPDEPEARLNLGLALLKAGDYDEALA 93


                 .
gi 334186756 744 L 744
Cdd:COG4783   94 L 94
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 316-350 4.43e-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: 35.51  E-value: 4.43e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334186756  316 VSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNE 350
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 ...
 288-325 8.22e-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: 35.03  E-value: 8.22e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 334186756  288 NSLLEIYAKNKDMNGAELIFAEMP----EVNVVSWNIMIVGF 325
Cdd:pfam13041   7 NTLINGYCKKGKVEEAFKLFNEMKkrgvKPNVYTYTILINGL 48
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 341-393 8.31e-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: 35.41  E-value: 8.31e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334186756  341 MRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIPQ----PSVSAWNAMLSGYSN 393
Cdd:pfam13812   6 MVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKkgikPTLDTYNAILGVIGG 62
 
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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