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Conserved domains on  [gi|645245269|ref|XP_008228803|]
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PREDICTED: pentatricopeptide repeat-containing protein At1g80880, mitochondrial [Prunus mume]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 198-467 1.74e-14

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 76.84  E-value: 1.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  198 MIERYASVNDPCKAIKTFQMMDKFRLTPDQEAFHTLLNALCKYGNIEEAEEFMLVNK-KLFPLE----TVGfniILNGWC 272
Cdd:PLN03218  513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaETHPIDpdhiTVG---ALMKAC 589

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  273 NISVDVFEAKRVWREMSKCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLIYVLTCENCFNEAL 352
Cdd:PLN03218  590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  353 KMLGNSKQMGLQPDSTTYNSMICPLCESKKPEEARQMLSAMIEDNVSPTIETYHAFL----QSTGLEGTLEILNRMKKAN 428
Cdd:PLN03218  670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALItalcEGNQLPKALEVLSEMKRLG 749

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 645245269  429 LGPNGNTFLMILGKFFRLEQPEMALKIWTEMKHYGVVPD 467
Cdd:PLN03218  750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 471-499 5.63e-03

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


:

Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 34.75  E-value: 5.63e-03
                          10        20
                  ....*....|....*....|....*....
gi 645245269  471 YTVMVQGLAACRLLMKARELFAEMRSNGF 499
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 198-467 1.74e-14

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 76.84  E-value: 1.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  198 MIERYASVNDPCKAIKTFQMMDKFRLTPDQEAFHTLLNALCKYGNIEEAEEFMLVNK-KLFPLE----TVGfniILNGWC 272
Cdd:PLN03218  513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaETHPIDpdhiTVG---ALMKAC 589

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  273 NISVDVFEAKRVWREMSKCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLIYVLTCENCFNEAL 352
Cdd:PLN03218  590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  353 KMLGNSKQMGLQPDSTTYNSMICPLCESKKPEEARQMLSAMIEDNVSPTIETYHAFL----QSTGLEGTLEILNRMKKAN 428
Cdd:PLN03218  670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALItalcEGNQLPKALEVLSEMKRLG 749

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 645245269  429 LGPNGNTFLMILGKFFRLEQPEMALKIWTEMKHYGVVPD 467
Cdd:PLN03218  750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 295-339 1.58e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 47.74  E-value: 1.58e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 645245269  295 PDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLI 339
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 299-330 1.06e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.36  E-value: 1.06e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 645245269  299 SYTHLISCLSKVGKLFDSLRFYDQMKKRGFVP 330
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 471-499 5.63e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 34.75  E-value: 5.63e-03
                          10        20
                  ....*....|....*....|....*....
gi 645245269  471 YTVMVQGLAACRLLMKARELFAEMRSNGF 499
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 198-467 1.74e-14

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 76.84  E-value: 1.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  198 MIERYASVNDPCKAIKTFQMMDKFRLTPDQEAFHTLLNALCKYGNIEEAEEFMLVNK-KLFPLE----TVGfniILNGWC 272
Cdd:PLN03218  513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaETHPIDpdhiTVG---ALMKAC 589

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  273 NISVDVFEAKRVWREMSKCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLIYVLTCENCFNEAL 352
Cdd:PLN03218  590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  353 KMLGNSKQMGLQPDSTTYNSMICPLCESKKPEEARQMLSAMIEDNVSPTIETYHAFL----QSTGLEGTLEILNRMKKAN 428
Cdd:PLN03218  670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALItalcEGNQLPKALEVLSEMKRLG 749

                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 645245269  429 LGPNGNTFLMILGKFFRLEQPEMALKIWTEMKHYGVVPD 467
Cdd:PLN03218  750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 212-498 3.45e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 62.97  E-value: 3.45e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  212 IKTFQMMDKFRLTPDQEAFHTLLNALCK-YGNIEEAEEFMlvnkKLFPLETVG-FNIILNGWCNiSVDVFEAKRVWREMS 289
Cdd:PLN03218  390 IDLLEDMEKRGLLDMDKIYHAKFFKACKkQRAVKEAFRFA----KLIRNPTLStFNMLMSVCAS-SQDIDGALRVLRLVQ 464

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  290 KCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLIyvltcENC-----FNEALKMLGNSKQMGLQ 364
Cdd:PLN03218  465 EAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI-----DGCaragqVAKAFGAYGIMRSKNVK 539

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  365 PDSTTYNSMICPLCESKKPEEARQMLSAMIEDN--VSPTIETYHAFLQSTGLEG----TLEILNRMKKANLGPNGNTFLM 438
Cdd:PLN03218  540 PDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGqvdrAKEVYQMIHEYNIKGTPEVYTI 619

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  439 ILGKFFRLEQPEMALKIWTEMKHYGVVPDSTHYTVMVQGLAACRLLMKARELFAEMRSNG 498
Cdd:PLN03218  620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 210-466 8.11e-08

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 55.27  E-value: 8.11e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  210 KAIKTFQMMDKFRLTPDQEAFHTLLNALCKYGNIEEAEEFM--LVNKKLFPLEtVGFNIILNGwCNISVDVFEAKRVWRE 287
Cdd:PLN03218  597 RAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYddMKKKGVKPDE-VFFSALVDV-AGHAGDLDKAFEILQD 674

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  288 MSKCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLIYVLtCE-NCFNEALKMLGNSKQMGLQPD 366
Cdd:PLN03218  675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL-CEgNQLPKALEVLSEMKRLGLCPN 753

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  367 STTYnSMICPLCESKKPEEARQML-SAMIEDNVSPTIETYHAFlqsTGLegtleILNRMKKANLGPNgntflMILGkfFR 445
Cdd:PLN03218  754 TITY-SILLVASERKDDADVGLDLlSQAKEDGIKPNLVMCRCI---TGL-----CLRRFEKACALGE-----PVVS--FD 817

                         250       260
                  ....*....|....*....|....*...
gi 645245269  446 LEQPE-------MALKIWTEMKHYGVVP 466
Cdd:PLN03218  818 SGRPQienkwtsWALMVYRETISAGTLP 845
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 295-339 1.58e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 47.74  E-value: 1.58e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 645245269  295 PDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLI 339
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 365-405 1.11e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.43  E-value: 1.11e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 645245269  365 PDSTTYNSMICPLCESKKPEEARQMLSAMIEDNVSPTIETY 405
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTY 41
PLN03077 PLN03077
Protein ECB2; Provisional
 189-494 2.44e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 50.62  E-value: 2.44e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269 189 MDTRRAL--LIMIERYASVNDPCKAIKTFQMMDKFRLTPDQEAFHTLLNALCKYGNIEEAEEFM-LVNKKLFPLETVGFN 265
Cdd:PLN03077 349 METKDAVswTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHeLAERKGLISYVVVAN 428

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269 266 IILNGWCnisvdvfEAKRVWR--EMSKCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKkrgfvpgLKVY-NSLIYVL 342
Cdd:PLN03077 429 ALIEMYS-------KCKCIDKalEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-------LTLKpNSVTLIA 494

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269 343 TCENCFNEALKMLG-----NSKQMGLQPDSTTYNSMICPLCESKKPEEARQMLSAMIEDNVSPTIeTYHAFLQSTGLEGT 417
Cdd:PLN03077 495 ALSACARIGALMCGkeihaHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNI-LLTGYVAHGKGSMA 573

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 645245269 418 LEILNRMKKANLGPNGNTFLMILGKFFRLEQPEMALKIWTEMKH-YGVVPDSTHYTVMVQGLAACRLLMKARELFAEM 494
Cdd:PLN03077 574 VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEkYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 294-431 2.57e-06

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 48.55  E-value: 2.57e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269  294 TPDATSYTHLISClSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLIYVLTCENCFNEALKMLGNS------KQM---GLQ 364
Cdd:pfam17177   9 TPESELRFQLDKC-SKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLAADrgfevfEAMkaqGVS 87

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 645245269  365 PDSTTYNSMIcPLCESKK-PEEARQMLSAMIEDNVSPTIETY----HAFLQSTGLEGTLEILNRMKKANLGP 431
Cdd:pfam17177  88 PNEATYTAVA-RLAAAKGdGDLAFDLVKEMEAAGVSPRLRSYspalHAYCEAGDADKAYEVEEHMLAHGVEL 158
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 439-479 8.24e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 43.12  E-value: 8.24e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 645245269  439 ILGKFFRLEQPEMALKIWTEMKHYGVVPDSTHYTVMVQGLA 479
Cdd:pfam13041   9 LINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 283-339 1.03e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.12  E-value: 1.03e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 645245269  283 RVWREMSKCCITPDATSYTHLISCLSKVGKLFDSLRFYDQMKKRGFVPGLKVYNSLI 339
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 261-309 6.61e-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: 40.42  E-value: 6.61e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 645245269  261 TVGFNIILNGWCNISvDVFEAKRVWREMSKCCITPDATSYTHLISCLSK 309
Cdd:pfam13041   3 VVTYNTLINGYCKKG-KVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 299-330 1.06e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.36  E-value: 1.06e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 645245269  299 SYTHLISCLSKVGKLFDSLRFYDQMKKRGFVP 330
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 369-402 3.60e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 38.21  E-value: 3.60e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 645245269  369 TYNSMICPLCESKKPEEARQMLSAMIEDNVSPTI 402
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 361-393 8.45e-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: 36.94  E-value: 8.45e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 645245269  361 MGLQPDSTTYNSMICPLCESKKPEEARQMLSAM 393
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 ...
 299-328 1.12e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.67  E-value: 1.12e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 645245269  299 SYTHLISCLSKVGKLFDSLRFYDQMKKRGF 328
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03077 PLN03077
Protein ECB2; Provisional
 233-374 4.72e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 39.83  E-value: 4.72e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 645245269 233 LLNALCKYGNIEEAEEFMLVNKKlfplETVGFNIILNGWC-----NISVDVFEakrvwrEMSKCCITPDATSYTHLISCL 307
Cdd:PLN03077 530 LLDLYVRCGRMNYAWNQFNSHEK----DVVSWNILLTGYVahgkgSMAVELFN------RMVESGVNPDEVTFISLLCAC 599

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 645245269 308 SKVGKLFDSLRFYDQMK-KRGFVPGLKVYNSLIYVLTCENCFNEALKMLgnsKQMGLQPDSTTYNSMI 374
Cdd:PLN03077 600 SRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGRAGKLTEAYNFI---NKMPITPDPAVWGALL 664
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 471-499 5.63e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 34.75  E-value: 5.63e-03
                          10        20
                  ....*....|....*....|....*....
gi 645245269  471 YTVMVQGLAACRLLMKARELFAEMRSNGF 499
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 353-413 7.88e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 35.03  E-value: 7.88e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 645245269  353 KMLGNSKQMGLQPDSTTYNSMICPLCESKKPEEARQMLSAMIEDNVSPTIETYHAFLQSTG 413
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
 
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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