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Conserved domains on  [gi|334183592|ref|NP_001185295|]
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pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 13595353)

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

CATH:  1.25.40.10
Gene Ontology:  GO:0003723
PubMed:  19004664|23635770|25882680|34065603|18031283|30809817
SCOP:  4001344

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
 141-475 1.37e-35

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 141.94  E-value: 1.37e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  141 KLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVEMGYKPDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLVT 220
Cdd:PLN03218  430 KLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHT 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  221 YGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEM--ENKGVRPNVITYSSLISCL 298
Cdd:PLN03218  510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKAC 589

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  299 CNYGR-----------------------------------WSDASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAE 343
Cdd:PLN03218  590 ANAGQvdrakevyqmiheynikgtpevytiavnscsqkgdWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  344 KLYEEMIKRSIDPNIFTYSSLInGFCmlDRLGEAKQMLELM--IRKDCL-PNVVTYNTLINGFCKAKRVDKGMELFREMS 420
Cdd:PLN03218  670 EILQDARKQGIKLGTVSYSSLM-GAC--SNAKNWKKALELYedIKSIKLrPTVSTMNALITALCEGNQLPKALEVLSEMK 746

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 334183592  421 QRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLdGLCK 475
Cdd:PLN03218  747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 461-510 4.85e-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: 4.85e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  461 PNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCK 510
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 76-125 1.46e-05

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


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.35  E-value: 1.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592   76 PSIIEFSKLLSAIAKMNKFDLVISFGEKMEILGISHNLYTYNILINCFCR 125
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 141-475 1.37e-35

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 141.94  E-value: 1.37e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  141 KLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVEMGYKPDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLVT 220
Cdd:PLN03218  430 KLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHT 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  221 YGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEM--ENKGVRPNVITYSSLISCL 298
Cdd:PLN03218  510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKAC 589

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  299 CNYGR-----------------------------------WSDASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAE 343
Cdd:PLN03218  590 ANAGQvdrakevyqmiheynikgtpevytiavnscsqkgdWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  344 KLYEEMIKRSIDPNIFTYSSLInGFCmlDRLGEAKQMLELM--IRKDCL-PNVVTYNTLINGFCKAKRVDKGMELFREMS 420
Cdd:PLN03218  670 EILQDARKQGIKLGTVSYSSLM-GAC--SNAKNWKKALELYedIKSIKLrPTVSTMNALITALCEGNQLPKALEVLSEMK 746

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 334183592  421 QRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLdGLCK 475
Cdd:PLN03218  747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 391-438 1.28e-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: 1.28e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 334183592  391 PNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTTLIHGF 438
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 461-510 4.85e-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: 4.85e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  461 PNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCK 510
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 394-428 6.99e-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: 6.99e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  394 VTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNT 428
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 ...
 76-125 1.46e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.35  E-value: 1.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592   76 PSIIEFSKLLSAIAKMNKFDLVISFGEKMEILGISHNLYTYNILINCFCR 125
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 465-498 8.97e-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: 39.75  E-value: 8.97e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  465 TYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDI 498
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 230-422 3.16e-04

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: 42.79  E-value: 3.16e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 230 KRGDTDLALNLLNKMEAAKIEaNVVIYSTVIDSLCKYRHEDDALNLFTEMENKGvRPNVITYSSLISCLCNYGRWSDASR 309
Cdd:COG2956   88 KAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIE 165

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 310 LLSDMIerKINPNLV-TFSALIDAFVKKGKLVKAEKLYEEMIKRSIDpNIFTYSSLINGFCMLDRLGEAKQMLELMIRKD 388
Cdd:COG2956  166 ALEKAL--KLDPDCArALLLLAELYLEQGDYEEAIAALERALEQDPD-YLPALPRLAELYEKLGDPEEALELLRKALELD 242

                        170       180       190
                 ....*....|....*....|....*....|....
gi 334183592 389 clPNVVTYNTLINGFCKAKRVDKGMELFREMSQR 422
Cdd:COG2956  243 --PSDDLLLALADLLERKEGLEAALALLERQLRR 274
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 141-475 1.37e-35

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 141.94  E-value: 1.37e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  141 KLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVEMGYKPDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLVT 220
Cdd:PLN03218  430 KLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHT 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  221 YGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEM--ENKGVRPNVITYSSLISCL 298
Cdd:PLN03218  510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKAC 589

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  299 CNYGR-----------------------------------WSDASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAE 343
Cdd:PLN03218  590 ANAGQvdrakevyqmiheynikgtpevytiavnscsqkgdWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  344 KLYEEMIKRSIDPNIFTYSSLInGFCmlDRLGEAKQMLELM--IRKDCL-PNVVTYNTLINGFCKAKRVDKGMELFREMS 420
Cdd:PLN03218  670 EILQDARKQGIKLGTVSYSSLM-GAC--SNAKNWKKALELYedIKSIKLrPTVSTMNALITALCEGNQLPKALEVLSEMK 746

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 334183592  421 QRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLdGLCK 475
Cdd:PLN03218  747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 152-517 1.11e-31

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 130.00  E-value: 1.11e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  152 NSLLNGfchgNRISDAVALVDQMVEMGykpdTVTFTTLIHGLFLHN-KASEAVALIDRMVQRGCQPDLVTYGAVVNGLCK 230
Cdd:PLN03218  378 NRLLRD----GRIKDCIDLLEDMEKRG----LLDMDKIYHAKFFKAcKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  231 RGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLISCLCNYGRWSDASRL 310
Cdd:PLN03218  450 SQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGA 529

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  311 LSDMIERKINPNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRS--IDPNIFTYSSLINGFC---MLDRLGEAKQML---- 381
Cdd:PLN03218  530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACAnagQVDRAKEVYQMIheyn 609

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  382 ----------------------------ELMIRKDCLPNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTT 433
Cdd:PLN03218  610 ikgtpevytiavnscsqkgdwdfalsiyDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS 689

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  434 LIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGK 513
Cdd:PLN03218  690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD 769


                  ....
gi 334183592  514 WKMG 517
Cdd:PLN03218  770 ADVG 773
PLN03077 PLN03077
Protein ECB2; Provisional
 137-497 6.69e-26

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 112.25  E-value: 6.69e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 137 GKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMvemgYKPDTVTFTTLIHGL---FLHNKASEAVALIDrmvQRG 213
Cdd:PLN03077 312 GYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM----ETKDAVSWTAMISGYeknGLPDKALETYALME---QDN 384

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 214 CQPDLVTYGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKgvrpNVITYSS 293
Cdd:PLN03077 385 VSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTS 460

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 294 LISCLCNYGRWSDASRLLSDMIeRKINPNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGFCMLDR 373
Cdd:PLN03077 461 IIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGR 539

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 374 LGEAKQMLELmirkdCLPNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTTLIHGffqardCDNAQMV--- 450
Cdd:PLN03077 540 MNYAWNQFNS-----HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCA------CSRSGMVtqg 608

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|.
gi 334183592 451 ---FKQM-VSVGVHPNILTYNILLDGLCKNGKLAKAmvvFEYLQRSTMEPD 497
Cdd:PLN03077 609 leyFHSMeEKYSITPNLKHYACVVDLLGRAGKLTEA---YNFINKMPITPD 656
PLN03077 PLN03077
Protein ECB2; Provisional
 58-513 4.94e-24

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 106.47  E-value: 4.94e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  58 ELDDAIGLFGVMAQSRPFpsiiEFSKLLSAIAKMNKFDLVISFGEKMEILGISHNLYTYNILINCFCRCSRLSLALALLG 137
Cdd:PLN03077 136 ELVHAWYVFGKMPERDLF----SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHA 211

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 138 KMMKLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVEMgykpDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPD 217
Cdd:PLN03077 212 HVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPD 287

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 218 LVTYGAVVNGLCKRGDTDLALNllnkmeaakieanvvIYSTVIdslckyrheddalnlftemeNKGVRPNVITYSSLISC 297
Cdd:PLN03077 288 LMTITSVISACELLGDERLGRE---------------MHGYVV--------------------KTGFAVDVSVCNSLIQM 332

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 298 LCNYGRWSDASRLLSDMiERKinpNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGFCMLDRLGEA 377
Cdd:PLN03077 333 YLSLGSWGEAEKVFSRM-ETK---DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG 408

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 378 KQMLELMIRKDCLPNVVTYNTLINGFCKAKRVDKGMELFREMSQRglvgNTVTYTTLIHGFFQARDCDNAQMVFKQMVsV 457
Cdd:PLN03077 409 VKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQML-L 483

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 334183592 458 GVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGK 513
Cdd:PLN03077 484 TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGR 539
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 115-496 2.87e-20

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 94.55  E-value: 2.87e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 115 TYNILINCFCRCSRLSLALALLGKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVEMgykpDTVTFTTLIHGLF 194
Cdd:PLN03081 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLV 200

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 195 LHNKASEAVALIDRMVQRGCQPDLVTYGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALN 274
Cdd:PLN03081 201 DAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARC 280

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 275 LFTEMENKgvrpNVITYSSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSI 354
Cdd:PLN03081 281 VFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 355 DPNIFTYSSLINGFCMLDRLGEAKQMLELMIRKdclpNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTTL 434
Cdd:PLN03081 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAV 432

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334183592 435 IHGFFQARDCDNAQMVFKQMVSV-GVHPNILTYNILLDGLCKNGKLAKAmvvFEYLQRSTMEP 496
Cdd:PLN03081 433 LSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLLDEA---YAMIRRAPFKP 492
PLN03077 PLN03077
Protein ECB2; Provisional
 60-473 5.80e-18

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 87.60  E-value: 5.80e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  60 DDAIGLFGVMAQSRPFPSIIEFSKLLSAIAKMNKFDLvisfGEKMEILGISHNLYTY----NILINCFCRCSRLSLALAL 135
Cdd:PLN03077 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDV----GVKLHELAERKGLISYvvvaNALIEMYSKCKCIDKALEV 446

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 136 LGKMMklgyEPDIVTLNSLLNGFCHGNRISDAVALVDQMVeMGYKPDTVTFTTLIH-----GLFLHNKASEAVALIDRMV 210
Cdd:PLN03077 447 FHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSacariGALMCGKEIHAHVLRTGIG 521

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 211 QRGCQPDlvtygAVVNGLCKRGDTDLALNLLNKMeaakiEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVIT 290
Cdd:PLN03077 522 FDGFLPN-----ALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT 591

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 291 YSSLIsCLCNY-GRWSDASRLLSDMIER-KINPNLVTFSALIDAFVKKGKLVKAEKLYEEMikrSIDPNIFTYSSLINGf 368
Cdd:PLN03077 592 FISLL-CACSRsGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA- 666

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 369 CMLDR---LGE--AKQMLELMirkdclPNVVTYNTLI-NGFCKAKRVDKGMELFREMSQRGLVGNT----VTYTTLIHGF 438
Cdd:PLN03077 667 CRIHRhveLGElaAQHIFELD------PNSVGYYILLcNLYADAGKWDEVARVRKTMRENGLTVDPgcswVEVKGKVHAF 740

                        410       420       430
                 ....*....|....*....|....*....|....*
gi 334183592 439 FQARDcdnaqmvfkqmvsvgVHPNILTYNILLDGL 473
Cdd:PLN03077 741 LTDDE---------------SHPQIKEINTVLEGF 760
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 140-417 2.39e-17

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 85.31  E-value: 2.39e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 140 MKLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVEmgykPDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLV 219
Cdd:PLN03081 251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF 326

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 220 TYGAVVnGLCKRgdtdlalnlLNKMEAAK----------IEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKgvrpNVI 289
Cdd:PLN03081 327 TFSIMI-RIFSR---------LALLEHAKqahaglirtgFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLI 392

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 290 TYSSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAEKLYEEMIK-RSIDPNIFTYSSLINGF 368
Cdd:PLN03081 393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEnHRIKPRAMHYACMIELL 472

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 334183592 369 CMLDRLGEAKQmlelMIRKDCL-PNVVTYNTLINgfckAKRVDKGMELFR 417
Cdd:PLN03081 473 GREGLLDEAYA----MIRRAPFkPTVNMWAALLT----ACRIHKNLELGR 514
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 391-438 1.28e-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: 1.28e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 334183592  391 PNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTTLIHGF 438
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 321-369 2.65e-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: 72.78  E-value: 2.65e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334183592  321 PNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGFC 369
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 461-510 4.85e-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: 4.85e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  461 PNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCK 510
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 167-506 3.75e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 75.29  E-value: 3.75e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 167 AVALVDQMVEMGYKPDTVTFTtliHGLFLHNKAS---EAVALIDRMVQRgcqpDLVTYGAVVNGLCKRGDTDLALNLLNK 243
Cdd:PLN03081 142 VKAVYWHVESSGFEPDQYMMN---RVLLMHVKCGmliDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFRE 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 244 MEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLISCLCNYGRWSDASRLLSDMIERKInpnl 323
Cdd:PLN03081 215 MWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTT---- 290

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 324 VTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGFCMLDRLGEAKQMLELMIRKDCLPNVVTYNTLINGF 403
Cdd:PLN03081 291 VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLY 370

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 404 CKAKRVDKGMELFREMSQRglvgNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAM 483
Cdd:PLN03081 371 SKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGW 446

                        330       340
                 ....*....|....*....|....
gi 334183592 484 VVFEYLQRS-TMEPDIYTYNIMIE 506
Cdd:PLN03081 447 EIFQSMSENhRIKPRAMHYACMIE 470
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 356-405 5.79e-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: 5.79e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  356 PNIFTYSSLINGFCMLDRLGEAKQMLELMIRKDCLPNVVTYNTLINGFCK 405
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 ...
 252-300 1.11e-13

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: 65.46  E-value: 1.11e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334183592  252 NVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLISCLCN 300
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 184-507 2.08e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 72.98  E-value: 2.08e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 184 VTFTTLIHGLFLHNKASEAVALIdRMVQRGCQPDL--VTYGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVID 261
Cdd:PLN03081  88 VSLCSQIEKLVACGRHREALELF-EILEAGCPFTLpaSTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLL 166

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 262 SLCKYRHEDDALNLFTEMENKgvrpNVITYSSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVK 341
Cdd:PLN03081 167 MHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA 242

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 342 AEKLYEEMIKRSIDPNIFTYSSLINGFCMLDRLGEAKQMLELMIRKdclpNVVTYNTLINGFCKAKRVDKGMELFREMSQ 421
Cdd:PLN03081 243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRD 318

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 422 RGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRStmepDIYTY 501
Cdd:PLN03081 319 SGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISW 394


                 ....*.
gi 334183592 502 NIMIEG 507
Cdd:PLN03081 395 NALIAG 400
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 387-420 3.70e-13

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: 63.52  E-value: 3.70e-13
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  387 KDCLPNVVTYNTLINGFCKAKRVDKGMELFREMS 420
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 181-230 2.06e-12

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 61.61  E-value: 2.06e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  181 PDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLVTYGAVVNGLCK 230
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 ...
 286-335 3.05e-12

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 61.23  E-value: 3.05e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  286 PNVITYSSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIDAFVK 335
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 ...
 146-193 3.71e-12

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 60.84  E-value: 3.71e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 334183592  146 PDIVTLNSLLNGFCHGNRISDAVALVDQMVEMGYKPDTVTFTTLIHGL 193
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 216-265 3.36e-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: 55.45  E-value: 3.36e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592  216 PDLVTYGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVIDSLCK 265
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 415-476 7.50e-10

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: 55.06  E-value: 7.50e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334183592  415 LFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLdGLCKN 476
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL-GVIGG 62
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 275-335 1.26e-09

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 54.29  E-value: 1.26e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334183592  275 LFTEMENKGVRPNVITYSSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIDAFVK 335
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 59-387 1.65e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 60.27  E-value: 1.65e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  59 LDDAIGLFGVMaqsrPFPSIIEFSKLLSAIAKMNKFDLVISFGEKMEILGISHNLYTYNILINCFCRCSRLSLALALLGK 138
Cdd:PLN03081 275 IEDARCVFDGM----PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAG 350

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 139 MMKLGYEPDIVTLNSLLNGFCHGNRISDAVALVDQMVemgyKPDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDL 218
Cdd:PLN03081 351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH 426

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 219 VTYGAVVNGlCKrgdtdlalnllnkmeaakieanvviYSTVIdslckyrheDDALNLFTEM-ENKGVRPNVITYSSLISC 297
Cdd:PLN03081 427 VTFLAVLSA-CR-------------------------YSGLS---------EQGWEIFQSMsENHRIKPRAMHYACMIEL 471

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 298 LCNYGRWSDAsrllSDMIERK-INPNLVTFSALIDAFVKKGKL----VKAEKLYeemikrSIDP-NIFTYSSLINGFCML 371
Cdd:PLN03081 472 LGREGLLDEA----YAMIRRApFKPTVNMWAALLTACRIHKNLelgrLAAEKLY------GMGPeKLNNYVVLLNLYNSS 541

                        330
                 ....*....|....*.
gi 334183592 372 DRLGEAKQMLELMIRK 387
Cdd:PLN03081 542 GRQAEAAKVVETLKRK 557
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 370-512 3.30e-09

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: 57.02  E-value: 3.30e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  370 MLDRLGEAKQMLEL---MIRKDCLPNVVTYNTLINgFC----------KAKRVDKGMELFREMSQRGLVGNTVTYTTLIH 436
Cdd:pfam17177  20 KCSKHADATGALALydaAKAEGVRLAQYHYNVLLY-LCskaadatdlkPQLAADRGFEVFEAMKAQGVSPNEATYTAVAR 98

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334183592  437 GFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAG 512
Cdd:pfam17177  99 LAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG 174
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 212-245 5.17e-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: 51.58  E-value: 5.17e-09
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  212 RGCQPDLVTYGAVVNGLCKRGDTDLALNLLNKME 245
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 458-487 8.43e-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: 51.19  E-value: 8.43e-09
                          10        20        30
                  ....*....|....*....|....*....|
gi 334183592  458 GVHPNILTYNILLDGLCKNGKLAKAMVVFE 487
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 230-365 3.13e-08

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: 53.94  E-value: 3.13e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  230 KRGDTDLALNLLNKMEAAKIEANVVIYSTVI---------DSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLIScLCN 300
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVAR-LAA 101

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334183592  301 YGRWSD-ASRLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLI 365
Cdd:pfam17177 102 AKGDGDlAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALL 167
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 309-368 5.20e-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: 49.66  E-value: 5.20e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  309 RLLSDMIERKINPNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGF 368
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 394-428 6.99e-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: 6.99e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  394 VTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNT 428
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 196-347 1.14e-07

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: 52.40  E-value: 1.14e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  196 HNKASEAVALIDRMVQRGCQPDLVTYGAVVNgLCKRGDTDLALNLLNK----------MEAAKIEANVVIYSTVIDSLCK 265
Cdd:pfam17177  24 HADATGALALYDAAKAEGVRLAQYHYNVLLY-LCSKAADATDLKPQLAadrgfevfeaMKAQGVSPNEATYTAVARLAAA 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  266 YRHEDDALNLFTEMENKGVRPNVITYSSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIDAFVKKGklvKAEKL 345
Cdd:pfam17177 103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG---RADKV 179


                  ..
gi 334183592  346 YE 347
Cdd:pfam17177 180 YA 181
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 282-314 1.31e-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: 1.31e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334183592  282 KGVRPNVITYSSLISCLCNYGRWSDASRLLSDM 314
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 394-424 1.90e-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: 47.07  E-value: 1.90e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  394 VTYNTLINGFCKAKRVDKGMELFREMSQRGL 424
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 228-513 4.49e-07

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 52.57  E-value: 4.49e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 228 LCKRGDTdlALNLLNKMEA-AKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLISCLCNYGRWSD 306
Cdd:PLN03081  99 ACGRHRE--ALELFEILEAgCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLID 176

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 307 ASRLLSDMIERkinpNLVTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGFCMLDRLGEAKQMLELMIR 386
Cdd:PLN03081 177 ARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLK 252

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 387 KDCLPNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVG-NTVTYTTLIHGFfqardCDNAQMVFKQMVSVGVHPNILT 465
Cdd:PLN03081 253 TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAwNSMLAGYALHGY-----SEEALCLYYEMRDSGVSIDQFT 327

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*...
gi 334183592 466 YNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGK 513
Cdd:PLN03081 328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR 375
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 143-175 4.71e-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: 46.18  E-value: 4.71e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334183592  143 GYEPDIVTLNSLLNGFCHGNRISDAVALVDQMV 175
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 177-210 9.73e-07

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 45.03  E-value: 9.73e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  177 MGYKPDTVTFTTLIHGLFLHNKASEAVALIDRMV 210
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 344-403 1.86e-06

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: 45.43  E-value: 1.86e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  344 KLYEEMIKRSIDPNIFTYSSLINGFCMLDRLGEAKQMLELMIRKDCLPNVVTYNTLINGF 403
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 352-384 2.07e-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: 44.26  E-value: 2.07e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334183592  352 RSIDPNIFTYSSLINGFCMLDRLGEAKQMLELM 384
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 240-296 2.31e-06

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: 45.04  E-value: 2.31e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334183592  240 LLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLIS 296
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 319-349 2.44e-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: 2.44e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  319 INPNLVTFSALIDAFVKKGKLVKAEKLYEEM 349
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 170-231 3.04e-06

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: 44.66  E-value: 3.04e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334183592  170 LVDQMVEMGYKPDTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLVTYGAVVNGLCKR 231
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 324-358 3.77e-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: 3.77e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  324 VTFSALIDAFVKKGKLVKAEKLYEEMIKRSIDPNI 358
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 289-322 9.11e-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: 42.44  E-value: 9.11e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  289 ITYSSLISCLCNYGRWSDASRLLSDMIERKINPN 322
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PLN03077 PLN03077
Protein ECB2; Provisional
 292-512 9.13e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 48.69  E-value: 9.13e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 292 SSLISCLCNYGRWSDASRLLSDMIERKINPNLVTFSALIdafvkkgklvkaeKLYEEmiKRSIDPNIFTYSSLINGFCML 371
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF-------------RLCEW--KRAVEEGSRVCSRALSSHPSL 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 372 D-RLGEAkqMLELMIR------------KDCLPNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTTLIHGF 438
Cdd:PLN03077 120 GvRLGNA--MLSMFVRfgelvhawyvfgKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC 197

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334183592 439 FQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRStmepDIYTYNIMIEG-----MCKAG 512
Cdd:PLN03077 198 GGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGyfengECLEG 272
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 359-393 1.01e-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: 42.44  E-value: 1.01e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  359 FTYSSLINGFCMLDRLGEAKQMLELMIRKDCLPNV 393
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 ...
 324-354 1.21e-05

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 42.07  E-value: 1.21e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  324 VTFSALIDAFVKKGKLVKAEKLYEEMIKRSI 354
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 149-183 1.44e-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: 1.44e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  149 VTLNSLLNGFCHGNRISDAVALVDQMVEMGYKPDT 183
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 ...
 76-125 1.46e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.35  E-value: 1.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183592   76 PSIIEFSKLLSAIAKMNKFDLVISFGEKMEILGISHNLYTYNILINCFCR 125
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 267-411 1.52e-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: 1.52e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  267 RHED--DALNLFTEMENKGVRPNVITYSSLIScLCNYGRWSDAS----------RLLSDMIERKINPNLVTFSALIDAFV 334
Cdd:pfam17177  23 KHADatGALALYDAAKAEGVRLAQYHYNVLLY-LCSKAADATDLkpqlaadrgfEVFEAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334183592  335 KKGKLVKAEKLYEEMIKRSIDPNIFTYSSLINGFCMLDRLGEAKQMLELMIRKDCLPNVVTYNTLINGFCKAKRVDK 411
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADK 178
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 422-455 1.54e-05

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 41.95  E-value: 1.54e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  422 RGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMV 455
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 254-288 2.60e-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: 41.29  E-value: 2.60e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  254 VIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNV 288
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 450-509 2.71e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 41.96  E-value: 2.71e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  450 VFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIeGMC 509
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL-GVI 60
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 494-515 6.60e-05

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 40.02  E-value: 6.60e-05
                          10        20
                  ....*....|....*....|..
gi 334183592  494 MEPDIYTYNIMIEGMCKAGKWK 515
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVD 24
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 380-435 8.48e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.42  E-value: 8.48e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 334183592  380 MLELMIRKDCLPNVVTYNTLINGFCKAKRVDKGMELFREMSQRGLVGNTVTYTTLI 435
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 465-498 8.97e-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: 39.75  E-value: 8.97e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  465 TYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDI 498
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 184-217 9.61e-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: 39.75  E-value: 9.61e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334183592  184 VTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPD 217
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 249-280 1.60e-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: 1.60e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 334183592  249 IEANVVIYSTVIDSLCKYRHEDDALNLFTEME 280
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 219-253 1.99e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 38.59  E-value: 1.99e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  219 VTYGAVVNGLCKRGDTDLALNLLNKMEAAKIEANV 253
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 205-260 3.13e-04

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 38.88  E-value: 3.13e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 334183592  205 LIDRMVQRGCQPDLVTYGAVVNGLCKRGDTDLALNLLNKMEAAKIEANVVIYSTVI 260
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 230-422 3.16e-04

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: 42.79  E-value: 3.16e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 230 KRGDTDLALNLLNKMEAAKIEaNVVIYSTVIDSLCKYRHEDDALNLFTEMENKGvRPNVITYSSLISCLCNYGRWSDASR 309
Cdd:COG2956   88 KAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIE 165

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 310 LLSDMIerKINPNLV-TFSALIDAFVKKGKLVKAEKLYEEMIKRSIDpNIFTYSSLINGFCMLDRLGEAKQMLELMIRKD 388
Cdd:COG2956  166 ALEKAL--KLDPDCArALLLLAELYLEQGDYEEAIAALERALEQDPD-YLPALPRLAELYEKLGDPEEALELLRKALELD 242

                        170       180       190
                 ....*....|....*....|....*....|....
gi 334183592 389 clPNVVTYNTLINGFCKAKRVDKGMELFREMSQR 422
Cdd:COG2956  243 --PSDDLLLALADLLERKEGLEAALALLERQLRR 274
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 359-389 5.41e-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: 37.44  E-value: 5.41e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  359 FTYSSLINGFCMLDRLGEAKQMLELMIRKDC 389
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 ...
 429-459 1.28e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.29  E-value: 1.28e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  429 VTYTTLIHGFFQARDCDNAQMVFKQMVSVGV 459
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
287-418 1.61e-03

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 40.38  E-value: 1.61e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 287 NVITYSSLISCLCNYGRWSDASRLLSDMIErkINPNL-VTFSALIDAFVKKGKLVKAEKLYEEMIKrsIDPNIF-TYSSL 364
Cdd:COG0457    7 DAEAYNNLGLAYRRLGRYEEAIEDYEKALE--LDPDDaEALYNLGLAYLRLGRYEEALADYEQALE--LDPDDAeALNNL 82

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 334183592 365 INGFCMLDRLGEAKQMLE--LMIRKDclpNVVTYNTLINGFCKAKRVDKGMELFRE 418
Cdd:COG0457   83 GLALQALGRYEEALEDYDkaLELDPD---DAEALYNLGLALLELGRYDEAIEAYER 135
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 184-214 1.88e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 35.90  E-value: 1.88e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  184 VTFTTLIHGLFLHNKASEAVALIDRMVQRGC 214
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 429-463 1.89e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.89  E-value: 1.89e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334183592  429 VTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNI 463
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 ...
 289-319 1.98e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 35.90  E-value: 1.98e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  289 ITYSSLISCLCNYGRWSDASRLLSDMIERKI 319
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 102-158 2.73e-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: 36.18  E-value: 2.73e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334183592  102 EKMEILGISHNLYTYNILINCFCRCSRLSLALALLGKMMKLGYEPDIVTLNSLLNGF 158
Cdd:pfam13812   4 REMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 102-250 2.79e-03

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 39.30  E-value: 2.79e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592  102 EKMEILGISHNLYTYNILINcFCRcsrlslalallgkmmKLGYEPDIVTLNSLLNGFchgnrisdavALVDQMVEMGYKP 181
Cdd:pfam17177  35 DAAKAEGVRLAQYHYNVLLY-LCS---------------KAADATDLKPQLAADRGF----------EVFEAMKAQGVSP 88

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334183592  182 DTVTFTTLIHGLFLHNKASEAVALIDRMVQRGCQPDLVTYGAVVNGLCKRGDTDLALNLLNKMEAAKIE 250
Cdd:pfam17177  89 NEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVE 157
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 465-492 3.57e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 35.13  E-value: 3.57e-03
                          10        20
                  ....*....|....*....|....*...
gi 334183592  465 TYNILLDGLCKNGKLAKAMVVFEYLQRS 492
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEK 29
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 254-284 4.06e-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: 4.06e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  254 VIYSTVIDSLCKYRHEDDALNLFTEMENKGV 284
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 496-516 4.77e-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: 4.77e-03
                          10        20
                  ....*....|....*....|.
gi 334183592  496 PDIYTYNIMIEGMCKAGKWKM 516
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEE 21
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 406-515 5.87e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 39.47  E-value: 5.87e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183592 406 AKRVDKGMELFREMSQRGLVGNTV-TYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILTYNILLDGLCKNGKLAKAMV 484
Cdd:PLN03081 100 CGRHREALELFEILEAGCPFTLPAsTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARR 179

                         90       100       110
                 ....*....|....*....|....*....|.
gi 334183592 485 VFEYLQrstmEPDIYTYNIMIEGMCKAGKWK 515
Cdd:PLN03081 180 LFDEMP----ERNLASWGTIIGGLVDAGNYR 206
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 219-249 9.00e-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: 33.98  E-value: 9.00e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334183592  219 VTYGAVVNGLCKRGDTDLALNLLNKMEAAKI 249
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
 
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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