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Conserved domains on  [gi|1063713140|ref|NP_001327245|]
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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
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 153-534 1.54e-38

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 152.34  E-value: 1.54e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  153 EGRVSEAVALVDrmvEMKQRPDL----VTVSTLINGLCLKGRVSEALVLIDRMVEygfqPDEVTYGPVLNRLCKSGNSAL 228
Cdd:PLN03218   383 DGRIKDCIDLLE---DMEKRGLLdmdkIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDG 455

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  229 ALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIG 308
Cdd:PLN03218   456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  309 RNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMI--TRGIAPDTITYNSLIDGFCKE----------NCLHEAN------ 370
Cdd:PLN03218   536 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaeTHPIDPDHITVGALMKACANAgqvdrakevyQMIHEYNikgtpe 615

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  371 -------------------QMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGFcqsgklnaakELFQEMVSRGVPPSVV 431
Cdd:PLN03218   616 vytiavnscsqkgdwdfalSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF----------EILQDARKQGIKLGTV 685

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  432 TYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLC 511
Cdd:PLN03218   686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE 765

                          410       420
                   ....*....|....*....|...
gi 1063713140  512 KKGSLSEADMLFRKMKEDGCTPD 534
Cdd:PLN03218   766 RKDDADVGLDLLSQAKEDGIKPN 788
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 135-167 3.21e-10

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: 55.04  E-value: 3.21e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 135 GYEPDTITFSTLVNGFCLEGRVSEAVALVDRMV 167
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 104-151 5.47e-07

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


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.59  E-value: 5.47e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1063713140 104 DMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFC 151
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 153-534 1.54e-38

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 152.34  E-value: 1.54e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  153 EGRVSEAVALVDrmvEMKQRPDL----VTVSTLINGLCLKGRVSEALVLIDRMVEygfqPDEVTYGPVLNRLCKSGNSAL 228
Cdd:PLN03218   383 DGRIKDCIDLLE---DMEKRGLLdmdkIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDG 455

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  229 ALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIG 308
Cdd:PLN03218   456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  309 RNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMI--TRGIAPDTITYNSLIDGFCKE----------NCLHEAN------ 370
Cdd:PLN03218   536 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaeTHPIDPDHITVGALMKACANAgqvdrakevyQMIHEYNikgtpe 615

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  371 -------------------QMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGFcqsgklnaakELFQEMVSRGVPPSVV 431
Cdd:PLN03218   616 vytiavnscsqkgdwdfalSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF----------EILQDARKQGIKLGTV 685

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  432 TYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLC 511
Cdd:PLN03218   686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE 765

                          410       420
                   ....*....|....*....|...
gi 1063713140  512 KKGSLSEADMLFRKMKEDGCTPD 534
Cdd:PLN03218   766 RKDDADVGLDLLSQAKEDGIKPN 788
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 348-397 3.14e-18

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: 78.17  E-value: 3.14e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063713140 348 PDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCK 397
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 135-167 3.21e-10

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: 55.04  E-value: 3.21e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 135 GYEPDTITFSTLVNGFCLEGRVSEAVALVDRMV 167
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 351-385 1.61e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 50.53  E-value: 1.61e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 351 ITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDI 385
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 ...
 104-151 5.47e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.59  E-value: 5.47e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1063713140 104 DMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFC 151
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 153-534 1.54e-38

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 152.34  E-value: 1.54e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  153 EGRVSEAVALVDrmvEMKQRPDL----VTVSTLINGLCLKGRVSEALVLIDRMVEygfqPDEVTYGPVLNRLCKSGNSAL 228
Cdd:PLN03218   383 DGRIKDCIDLLE---DMEKRGLLdmdkIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDG 455

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  229 ALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIG 308
Cdd:PLN03218   456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  309 RNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMI--TRGIAPDTITYNSLIDGFCKE----------NCLHEAN------ 370
Cdd:PLN03218   536 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaeTHPIDPDHITVGALMKACANAgqvdrakevyQMIHEYNikgtpe 615

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  371 -------------------QMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGFcqsgklnaakELFQEMVSRGVPPSVV 431
Cdd:PLN03218   616 vytiavnscsqkgdwdfalSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF----------EILQDARKQGIKLGTV 685

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  432 TYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLC 511
Cdd:PLN03218   686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE 765

                          410       420
                   ....*....|....*....|...
gi 1063713140  512 KKGSLSEADMLFRKMKEDGCTPD 534
Cdd:PLN03218   766 RKDDADVGLDLLSQAKEDGIKPN 788
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 66-441 1.49e-34

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 140.01  E-value: 1.49e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140   66 PLPTPIDFNRLCSAVARTKQYDLVLGFCKGMELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFST 145
Cdd:PLN03218   433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGA 512

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  146 LVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEAL-VLIDRMVE-YGFQPDEVTYGPVLNRLCKS 223
Cdd:PLN03218   513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFdVLAEMKAEtHPIDPDHITVGALMKACANA 592

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  224 GNSALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKML 303
Cdd:PLN03218   593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL 672

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  304 REMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEP 383
Cdd:PLN03218   673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1063713140  384 DIVTYSILINSyCKAKrvddgfcqsGKLNAAKELFQEMVSRGVPPSVVTYGILLdGLC 441
Cdd:PLN03218   753 NTITYSILLVA-SERK---------DDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLC 799
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 183-594 1.68e-28

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 121.52  E-value: 1.68e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  183 NGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMeernIKASVVQYSIVIDSLC---KDg 259
Cdd:PLN03218   378 NRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKL----IRNPTLSTFNMLMSVCassQD- 452

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  260 sFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYN 339
Cdd:PLN03218   453 -IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYG 531

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  340 EMITRGIAPDTITYNSLIDGFCKENCLHEAnqmFDLMVSKGCE-----PDIVTYSILINSYCKAKRVDdgfcqsgklnAA 414
Cdd:PLN03218   532 IMRSKNVKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAEthpidPDHITVGALMKACANAGQVD----------RA 598

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  415 KELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDK 494
Cdd:PLN03218   599 KEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  495 GVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVCGFSADssTIK 574
Cdd:PLN03218   679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN--TIT 756

                          410       420
                   ....*....|....*....|..
gi 1063713140  575 MVIDMLSDRRLDKS--FLDMLS 594
Cdd:PLN03218   757 YSILLVASERKDDAdvGLDLLS 778
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 238-544 9.20e-28

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 119.21  E-value: 9.20e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  238 ERNIKASVVQYSividSLCKDGSFDDALSLFNEME-------MK------------------------------------ 274
Cdd:PLN03218   367 KRKSPEYIDAYN----RLLRDGRIKDCIDLLEDMEkrglldmDKiyhakffkackkqravkeafrfaklirnptlstfnm 442

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  275 ------------------------GIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGK 330
Cdd:PLN03218   443 lmsvcassqdidgalrvlrlvqeaGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ 522

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  331 LLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEAnqmFDLMVSKGCE-----PDIVTYSILINSYCKAKRVDDG- 404
Cdd:PLN03218   523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAEthpidPDHITVGALMKACANAGQVDRAk 599

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  405 -----------------------FC-QSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSR 460
Cdd:PLN03218   600 evyqmiheynikgtpevytiavnSCsQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  461 MTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNI 540
Cdd:PLN03218   680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI 759


                   ....
gi 1063713140  541 LIRA 544
Cdd:PLN03218   760 LLVA 763
PLN03077 PLN03077
Protein ECB2; Provisional
 96-509 9.01e-27

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 115.72  E-value: 9.01e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  96 MELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFCLEGRVSEAVALVDRMvemkQRPDL 175
Cdd:PLN03077  279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM----ETKDA 354

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 176 VTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNsalaLDLFRKMEERNIKASVVQYSIVIDSL 255
Cdd:PLN03077  355 VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD----LDVGVKLHELAERKGLISYVVVANAL 430

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 256 ----CKDGSFDDALSLFNEMEMKgikaDVVTYSSLIGGLCNDGKWDDGAKMLREMIGrNIIPDVVTFSALIDVFVKEGKL 331
Cdd:PLN03077  431 iemySKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGAL 505

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 332 LEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLmvskgCEPDIVTYSILINsyckakrvddGFCQSGKL 411
Cdd:PLN03077  506 MCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-----HEKDVVSWNILLT----------GYVAHGKG 570

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 412 NAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQ-KSRMTLGIGIYNIIIHGMCNASKVDDAWSLfcs 490
Cdd:PLN03077  571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGRAGKLTEAYNF--- 647

                         410
                  ....*....|....*....
gi 1063713140 491 LSDKGVKPDVVTYNVMIGG 509
Cdd:PLN03077  648 INKMPITPDPAVWGALLNA 666
PLN03077 PLN03077
Protein ECB2; Provisional
 133-563 1.73e-24

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 108.40  E-value: 1.73e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 133 KLGYEPDTITFSTLVNGFCLEGRVSEAVALVDRMvemkQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVT 212
Cdd:PLN03077  215 RFGFELDVDVVNALITMYVKCGDVVSARLVFDRM----PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMT 290

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 213 YGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKgikaDVVTYSSLIGGLCN 292
Cdd:PLN03077  291 ITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEK 366

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 293 DGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQM 372
Cdd:PLN03077  367 NGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEV 446

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 373 FDLMVSKgcepDIVTYSILINsyckakrvddGFCQSGKLNAAKELFQEMVSRgVPPSVVTYGILLDGLCDNGELNKALEI 452
Cdd:PLN03077  447 FHNIPEK----DVISWTSIIA----------GLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEI 511

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 453 FEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSlsdkgVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCT 532
Cdd:PLN03077  512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-----HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN 586

                         410       420       430
                  ....*....|....*....|....*....|.
gi 1063713140 533 PDDFTYNILIRAHLGGSGLISSVELIEEMKV 563
Cdd:PLN03077  587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEE 617
PLN03077 PLN03077
Protein ECB2; Provisional
 139-563 1.61e-23

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 105.70  E-value: 1.61e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 139 DTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLN 218
Cdd:PLN03077  252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQ 331

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 219 RLCKSGNSALALDLFRKMEERNIkasvVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDD 298
Cdd:PLN03077  332 MYLSLGSWGEAEKVFSRMETKDA----VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV 407

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 299 GAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRgiapDTITYNSLIDGFCKENCLHEANQMFDLMVS 378
Cdd:PLN03077  408 GVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLL 483

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 379 KgCEPDIVTYsILINSYCKAkrvddgfcqSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQK 458
Cdd:PLN03077  484 T-LKPNSVTL-IAALSACAR---------IGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK 552

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 459 SrmtlgIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKED-GCTPDDFT 537
Cdd:PLN03077  553 D-----VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKH 627

                         410       420
                  ....*....|....*....|....*..
gi 1063713140 538 YNILIRAhLGGSG-LISSVELIEEMKV 563
Cdd:PLN03077  628 YACVVDL-LGRAGkLTEAYNFINKMPI 653
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 3-525 1.85e-23

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 104.95  E-value: 1.85e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140   3 QRLIPLNRK--ASNFTQIlekgtsllhYSSITEAKLSYKERLRNGIVDIKVNDAIDLFESMIQSRPLPTpidfnRLCSAV 80
Cdd:PLN03081   29 PRKFSLRGRrtKTPFSSI---------SCSSVEQGLKPRPRLKPEPIRIEVSESKDARLDDTQIRKSGV-----SLCSQI 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  81 AR---TKQYDLVLGFCKGMELNG-IEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFCLEGRV 156
Cdd:PLN03081   95 EKlvaCGRHREALELFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGML 174

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 157 SEAVALVDrmvEMKQRpDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGnSALAldlFRKM 236
Cdd:PLN03081  175 IDARRLFD---EMPER-NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG-SARA---GQQL 246

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 237 EERNIKASVVQYSIV----IDSLCKDGSFDDALSLFNEMEMKgikaDVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNII 312
Cdd:PLN03081  247 HCCVLKTGVVGDTFVscalIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS 322

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 313 PDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKgcepDIVTYSILI 392
Cdd:PLN03081  323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALI 398

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 393 NSYCKAKRVDDgfcqsgklnaAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKsrmtlgigiyniii 472
Cdd:PLN03081  399 AGYGNHGRGTK----------AVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE-------------- 454

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1063713140 473 hgmcnaskvddawslfcslsDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRK 525
Cdd:PLN03081  455 --------------------NHRIKPRAMHYACMIELLGREGLLDEAYAMIRR 487
PLN03077 PLN03077
Protein ECB2; Provisional
 179-579 2.69e-22

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 101.85  E-value: 2.69e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 179 STLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYgPVLNRLC-------------------------KSGNSALAL--- 230
Cdd:PLN03077   55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAY-VALFRLCewkraveegsrvcsralsshpslgvRLGNAMLSMfvr 133

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 231 --------DLFRKMEERNikasVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLI---GGLCNdgkWDDG 299
Cdd:PLN03077  134 fgelvhawYVFGKMPERD----LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLrtcGGIPD---LARG 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 300 AKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRgiapDTITYNSLIDGFCKENCLHEANQMFDLMVSK 379
Cdd:PLN03077  207 REVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMREL 282

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 380 GCEPDIVTYSILInSYCKA---------------KR---VDDGFCQS--------GKLNAAKELFQEMVSR--------- 424
Cdd:PLN03077  283 SVDPDLMTITSVI-SACELlgderlgremhgyvvKTgfaVDVSVCNSliqmylslGSWGEAEKVFSRMETKdavswtami 361

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 425 ----------------------GVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVD 482
Cdd:PLN03077  362 sgyeknglpdkaletyalmeqdNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCID 441

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 483 DAWSLFCSLSDKgvkpDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDgCTPDDFTYNILIRAHLGGSGLISSVELIEEMK 562
Cdd:PLN03077  442 KALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVL 516

                         490
                  ....*....|....*..
gi 1063713140 563 VCGFSADSSTIKMVIDM 579
Cdd:PLN03077  517 RTGIGFDGFLPNALLDL 533
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 201-552 1.41e-20

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 96.09  E-value: 1.41e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 201 MVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIkasvVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADV 280
Cdd:PLN03081  149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEP 224

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 281 VTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRgiapDTITYNSLIDGF 360
Cdd:PLN03081  225 RTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGY 300

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 361 CKENCLHEANQMFDLMVSKGCEPDIVTYSILInsyckakRVddgFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGL 440
Cdd:PLN03081  301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMI-------RI---FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLY 370

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 441 CDNGELNKALEIFEKMQKSRMTlgigIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEAD 520
Cdd:PLN03081  371 SKWGRMEDARNVFDRMPRKNLI----SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGW 446

                         330       340       350
                  ....*....|....*....|....*....|...
gi 1063713140 521 MLFRKMKED-GCTPDDFTYNILIRAhLGGSGLI 552
Cdd:PLN03081  447 EIFQSMSENhRIKPRAMHYACMIEL-LGREGLL 478
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 348-397 3.14e-18

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: 78.17  E-value: 3.14e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063713140 348 PDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCK 397
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 ...
 498-544 3.33e-17

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: 75.48  E-value: 3.33e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1063713140 498 PDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRA 544
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 313-362 1.52e-16

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 73.55  E-value: 1.52e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063713140 313 PDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCK 362
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 ...
 383-442 1.38e-15

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 70.86  E-value: 1.38e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 383 PDIVTYSILINSYCKAkrvddgfcqsGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCD 442
Cdd:pfam13041   1 PDVVTYNTLINGYCKK----------GKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 467-512 5.15e-15

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: 69.31  E-value: 5.15e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063713140 467 IYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCK 512
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 50-360 3.32e-14

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 76.07  E-value: 3.32e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140   50 KVNDAIDLFESMIQSRPLPTPIDFNRLCSAVARTKQYDLVLGFCKGMELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLG 129
Cdd:PLN03218   594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ 673

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  130 RAWKLGYEPDTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPD 209
Cdd:PLN03218   674 DARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140  210 EVTYGpVLNRLC-KSGNSALALDLFRKMEERNIKASVVQYSIVIdSLCKDgSFDDALSLFNEmemkgikadVVTYSSliG 288
Cdd:PLN03218   754 TITYS-ILLVASeRKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCLR-RFEKACALGEP---------VVSFDS--G 819

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063713140  289 GLCNDGKWDDGAKML-REMIGRNIIPDVVTFSALIDVFvkegKLLEAKELYNEMI-TRGIAPDTITY---NSLIDGF 360
Cdd:PLN03218   820 RPQIENKWTSWALMVyRETISAGTLPTMEVLSQVLGCL----QLPHDATLRNRLIeNLGISADSQKQsnlSTLVDGF 892
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 244-292 6.71e-14

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: 66.23  E-value: 6.71e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1063713140 244 SVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCN 292
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 236-561 5.25e-12

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 68.74  E-value: 5.25e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 236 MEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKG-IKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPD 314
Cdd:PLN03081   78 LDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPD 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 315 VVTFSALIDVFVKEGKLLEAKELYNEMITRGIApdtiTYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINS 394
Cdd:PLN03081  158 QYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA----SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRA 233

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 395 -------------YC---KAKRVDDGF--C-------QSGKLNAAKELFQEMVSRgvppSVVTYGILLDGLCDNGELNKA 449
Cdd:PLN03081  234 saglgsaragqqlHCcvlKTGVVGDTFvsCalidmysKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEA 309

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 450 LEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKED 529
Cdd:PLN03081  310 LCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK 389

                         330       340       350
                  ....*....|....*....|....*....|...
gi 1063713140 530 GCtpddFTYNILIrAHLGGSGL-ISSVELIEEM 561
Cdd:PLN03081  390 NL----ISWNALI-AGYGNHGRgTKAVEMFERM 417
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 279-327 2.54e-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: 58.91  E-value: 2.54e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1063713140 279 DVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVK 327
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 208-257 1.96e-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: 56.22  E-value: 1.96e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063713140 208 PDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDSLCK 257
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 171-306 3.11e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 63.33  E-value: 3.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 171 QRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEER-NIKASVVQYS 249
Cdd:PLN03077  550 HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYA 629

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 250 IVIDSLCKDGSFDDALSLFNEMEmkgIKADVVTYSSLIGG------------------------------LCN----DGK 295
Cdd:PLN03077  630 CVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNAcrihrhvelgelaaqhifeldpnsvgyyilLCNlyadAGK 706

                         170
                  ....*....|.
gi 1063713140 296 WDDGAKMLREM 306
Cdd:PLN03077  707 WDEVARVRKTM 717
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 135-167 3.21e-10

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: 55.04  E-value: 3.21e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 135 GYEPDTITFSTLVNGFCLEGRVSEAVALVDRMV 167
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 379-422 3.47e-10

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: 55.04  E-value: 3.47e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1063713140 379 KGCEPDIVTYSILINSYCKAKRVDDgfcqsgklnaAKELFQEMV 422
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDE----------AFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 494-527 4.22e-10

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: 54.66  E-value: 4.22e-10
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063713140 494 KGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMK 527
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 327-459 4.68e-10

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 59.72  E-value: 4.68e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 327 KEGKLLEAKELYNEMITRGIAPDTITYNSLI---------DGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINsYCK 397
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVAR-LAA 101

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063713140 398 AKRvdDGfcqsgklNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKS 459
Cdd:pfam17177 102 AKG--DG-------DLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAH 154
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 138-186 4.97e-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: 4.97e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1063713140 138 PDTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLC 186
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 344-377 1.27e-09

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: 53.50  E-value: 1.27e-09
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063713140 344 RGIAPDTITYNSLIDGFCKENCLHEANQMFDLMV 377
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 424-456 2.87e-09

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: 52.35  E-value: 2.87e-09
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 424 RGVPPSVVTYGILLDGLCDNGELNKALEIFEKM 456
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 173-222 4.37e-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: 52.37  E-value: 4.37e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063713140 173 PDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCK 222
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 274-306 1.53e-08

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 50.42  E-value: 1.53e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 274 KGIKADVVTYSSLIGGLCNDGKWDDGAKMLREM 306
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 351-385 1.61e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 50.53  E-value: 1.61e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 351 ITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDI 385
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 337-395 1.61e-08

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 51.20  E-value: 1.61e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1063713140 337 LYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSY 395
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 501-535 6.08e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 48.61  E-value: 6.08e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 501 VTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDD 535
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 ...
 501-531 1.26e-07

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 47.85  E-value: 1.26e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 501 VTYNVMIGGLCKKGSLSEADMLFRKMKEDGC 531
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 173-202 1.28e-07

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 47.73  E-value: 1.28e-07
                          10        20        30
                  ....*....|....*....|....*....|
gi 1063713140 173 PDLVTVSTLINGLCLKGRVSEALVLIDRMV 202
Cdd:pfam12854   5 PDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 266-328 1.85e-07

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 48.12  E-value: 1.85e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063713140 266 SLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKE 328
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 239-272 2.37e-07

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 46.96  E-value: 2.37e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063713140 239 RNIKASVVQYSIVIDSLCKDGSFDDALSLFNEME 272
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 301-363 2.68e-07

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: 47.74  E-value: 2.68e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063713140 301 KMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKE 363
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 104-151 5.47e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.59  E-value: 5.47e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1063713140 104 DMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFC 151
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 486-544 8.36e-07

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: 46.58  E-value: 8.36e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1063713140 486 SLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRA 544
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 417-476 8.95e-07

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: 46.20  E-value: 8.95e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 417 LFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIhGMC 476
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL-GVI 60
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 351-381 3.00e-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: 3.00e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 351 ITYNSLIDGFCKENCLHEANQMFDLMVSKGC 381
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 386-430 3.25e-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: 43.98  E-value: 3.25e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1063713140 386 VTYSILINSYCKAKRVDDgfcqsgklnaAKELFQEMVSRGVPPSV 430
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEE----------ALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 309-341 3.31e-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: 43.87  E-value: 3.31e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 309 RNIIPDVVTFSALIDVFVKEGKLLEAKELYNEM 341
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 248-280 3.65e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.60  E-value: 3.65e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 248 YSIVIDSLCKDGSFDDALSLFNEMEMKGIKADV 280
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 316-350 5.57e-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: 5.57e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 316 VTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDT 350
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 ...
 316-346 9.65e-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: 42.45  E-value: 9.65e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 316 VTFSALIDVFVKEGKLLEAKELYNEMITRGI 346
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 281-315 1.02e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 42.44  E-value: 1.02e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 281 VTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDV 315
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 232-288 1.24e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.12  E-value: 1.24e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063713140 232 LFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIG 288
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 467-500 1.67e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 42.06  E-value: 1.67e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063713140 467 IYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDV 500
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 217-402 1.76e-05

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 46.24  E-value: 1.76e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 217 LNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIdSLCKDGsfDDALSLFNEMEMkgikadvvtyssligglcndgkw 296
Cdd:pfam17177  18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLL-YLCSKA--ADATDLKPQLAA----------------------- 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 297 DDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLM 376
Cdd:pfam17177  72 DRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHM 151

                         170       180
                  ....*....|....*....|....*.
gi 1063713140 377 VSKGCEPDIVTYSILINSYCKAKRVD 402
Cdd:pfam17177 152 LAHGVELEEPELAALLKVSAKAGRAD 177
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 176-210 2.01e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.67  E-value: 2.01e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 176 VTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDE 210
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 ...
 248-276 3.10e-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: 3.10e-05
                          10        20
                  ....*....|....*....|....*....
gi 1063713140 248 YSIVIDSLCKDGSFDDALSLFNEMEMKGI 276
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 386-426 9.49e-05

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 39.76  E-value: 9.49e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1063713140 386 VTYSILINSYCKAKRVDDgfcqsgklnaAKELFQEMVSRGV 426
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEE----------ALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 444-538 9.90e-05

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 43.92  E-value: 9.90e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 444 GELNKALEIFEKMQKSRMTLGIGIYNIIIHgMCNAS----------KVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKK 513
Cdd:pfam17177  25 ADATGALALYDAAKAEGVRLAQYHYNVLLY-LCSKAadatdlkpqlAADRGFEVFEAMKAQGVSPNEATYTAVARLAAAK 103

                          90       100
                  ....*....|....*....|....*
gi 1063713140 514 GSLSEADMLFRKMKEDGCTPDDFTY 538
Cdd:pfam17177 104 GDGDLAFDLVKEMEAAGVSPRLRSY 128
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 431-461 1.30e-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: 39.37  E-value: 1.30e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 431 VTYGILLDGLCDNGELNKALEIFEKMQKSRM 461
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 431-461 1.44e-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: 1.44e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 431 VTYGILLDGLCDNGELNKALEIFEKMQKSRM 461
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 409-581 1.69e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 44.48  E-value: 1.69e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 409 GKLNAAKELFQEMVSRG---VPPSvvTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAW 485
Cdd:PLN03081  101 GRHREALELFEILEAGCpftLPAS--TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDAR 178

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 486 SLFCSLSDKgvkpDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLGgsglISSVELIEEMKVC- 564
Cdd:PLN03081  179 RLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG----LGSARAGQQLHCCv 250

                         170       180
                  ....*....|....*....|
gi 1063713140 565 ---GFSADSSTIKMVIDMLS 581
Cdd:PLN03081  251 lktGVVGDTFVSCALIDMYS 270
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 205-237 1.69e-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: 1.69e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063713140 205 GFQPDEVTYGPVLNRLCKSGNSALALDLFRKME 237
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 372-443 1.85e-04

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 39.65  E-value: 1.85e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063713140 372 MFDLMVSKGCEPDIVTYSILINSYCkakrvddgfcQSGKLNAAKELFQEMVSRGVPPSVVTYGILLdGLCDN 443
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYA----------NVGNLKLALEIFERMKKKGIKPTLDTYNAIL-GVIGG 62
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 281-311 3.05e-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: 38.22  E-value: 3.05e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 281 VTYSSLIGGLCNDGKWDDGAKMLREMIGRNI 311
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 141-174 3.51e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 38.21  E-value: 3.51e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063713140 141 ITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPD 174
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 176-206 3.86e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 37.83  E-value: 3.86e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063713140 176 VTVSTLINGLCLKGRVSEALVLIDRMVEYGF 206
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 336-465 4.77e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 42.00  E-value: 4.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063713140 336 ELYNEMITRGIAPDTITYNSLIDgfckencLHEANQMFDL-------MVSKGCEPDIVTYSILINSYCKAKRVDDGFcqs 408
Cdd:pfam17177  76 EVFEAMKAQGVSPNEATYTAVAR-------LAAAKGDGDLafdlvkeMEAAGVSPRLRSYSPALHAYCEAGDADKAY--- 145

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063713140 409 gklnaakELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKM-----QKSRMTLGI 465
Cdd:pfam17177 146 -------EVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLrdavrQVSESTAGV 200
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 196-252 1.90e-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: 36.95  E-value: 1.90e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063713140 196 VLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVI 252
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 468-488 2.63e-03

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.78  E-value: 2.63e-03
                          10        20
                  ....*....|....*....|.
gi 1063713140 468 YNIIIHGMCNASKVDDAWSLF 488
Cdd:pfam12854  10 YNTLINGLCRAGRVDEAFELL 30
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 211-245 2.88e-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: 2.88e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063713140 211 VTYGPVLNRLCKSGNSALALDLFRKMEERNIKASV 245
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 ...
 141-169 5.33e-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: 34.75  E-value: 5.33e-03
                          10        20
                  ....*....|....*....|....*....
gi 1063713140 141 ITFSTLVNGFCLEGRVSEAVALVDRMVEM 169
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
 
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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