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Conserved domains on  [gi|1281055795|ref|XP_022970168|]
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pentatricopeptide repeat-containing protein At3g61360 [Cucurbita maxima]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 13804467)

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

Gene Ontology:  GO:0003723
PubMed:  23635770

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
 247-461 1.80e-13

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 73.37  E-value: 1.80e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  247 RGFKPDVVTYSIRMDAYCKRGCfVDGL-RVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDIGA 325
Cdd:PLN03218   466 AGLKADCKLYTTLISTCAKSGK-VDAMfEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  326 YNALISSLIRSDDVNSAAALMEDM--EAKHIGHDSMTYHMMFVGLMKLEDVHGFYELYsKMIRRNFVPKARTVVMIMRFF 403
Cdd:PLN03218   545 FNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNS 623

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1281055795  404 CENR-RVDLGLDLWGYLVEKGYCPHSHVLDVLVTGLCARGMVHEAFECSKQMLERGRQM 461
Cdd:PLN03218   624 CSQKgDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 216-265 7.75e-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: 54.29  E-value: 7.75e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1281055795 216 PNTKTMNLLLLGFKESSNVTAVELFYHEMIRRGFKPDVVTYSIRMDAYCK 265
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 247-461 1.80e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 73.37  E-value: 1.80e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  247 RGFKPDVVTYSIRMDAYCKRGCfVDGL-RVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDIGA 325
Cdd:PLN03218   466 AGLKADCKLYTTLISTCAKSGK-VDAMfEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  326 YNALISSLIRSDDVNSAAALMEDM--EAKHIGHDSMTYHMMFVGLMKLEDVHGFYELYsKMIRRNFVPKARTVVMIMRFF 403
Cdd:PLN03218   545 FNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNS 623

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1281055795  404 CENR-RVDLGLDLWGYLVEKGYCPHSHVLDVLVTGLCARGMVHEAFECSKQMLERGRQM 461
Cdd:PLN03218   624 CSQKgDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 251-297 3.47e-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: 3.47e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1281055795 251 PDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHG 297
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 216-265 7.75e-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: 54.29  E-value: 7.75e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1281055795 216 PNTKTMNLLLLGFKESSNVTAVELFYHEMIRRGFKPDVVTYSIRMDAYCK 265
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 254-287 1.31e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 44.75  E-value: 1.31e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1281055795 254 VTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPT 287
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 247-461 1.80e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 73.37  E-value: 1.80e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  247 RGFKPDVVTYSIRMDAYCKRGCfVDGL-RVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDIGA 325
Cdd:PLN03218   466 AGLKADCKLYTTLISTCAKSGK-VDAMfEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  326 YNALISSLIRSDDVNSAAALMEDM--EAKHIGHDSMTYHMMFVGLMKLEDVHGFYELYsKMIRRNFVPKARTVVMIMRFF 403
Cdd:PLN03218   545 FNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNS 623

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1281055795  404 CENR-RVDLGLDLWGYLVEKGYCPHSHVLDVLVTGLCARGMVHEAFECSKQMLERGRQM 461
Cdd:PLN03218   624 CSQKgDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 251-297 3.47e-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: 3.47e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1281055795 251 PDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHG 297
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 216-265 7.75e-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: 54.29  E-value: 7.75e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1281055795 216 PNTKTMNLLLLGFKESSNVTAVELFYHEMIRRGFKPDVVTYSIRMDAYCK 265
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 241-390 1.63e-08

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 57.58  E-value: 1.63e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  241 YHEMIRRGFKPDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLC 320
Cdd:PLN03218   637 YDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLR 716

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1281055795  321 PDIGAYNALISSLIRSDDVNSAAALMEDMEAKHIGHDSMTYHMMFVGLMKLEDVHGFYELYSKM----IRRNFV 390
Cdd:PLN03218   717 PTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAkedgIKPNLV 790
PLN03077 PLN03077
Protein ECB2; Provisional
 146-457 2.07e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 53.70  E-value: 2.07e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 146 LKSMSILLTKIAKFQSFEETIEAFRRMeneVFVGRKFGTEEFNVLLRAFCTQRQMKEARSVFLKMYS-RFPPNTKTMNLL 224
Cdd:PLN03077  152 LFSWNVLVGGYAKAGYFDEALCLYHRM---LWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRfGFELDVDVVNAL 228

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 225 LLGFKESSNVTAVELFYHEMIRRgfkpDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHGAGVAKDI 304
Cdd:PLN03077  229 ITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 305 AKARQLFDEMPLRKLCPDIGAYNALISSLIRSDDVNSAAALMEDMEAKhighDSMTYHMMFVGLMKledvHGF----YEL 380
Cdd:PLN03077  305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEK----NGLpdkaLET 376

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1281055795 381 YSKMIRRNFVPKARTVVMIMRFFCENRRVDLGLDLWGYLVEKGYCPHSHVLDVLVTGLCARGMVHEAFECSKQMLER 457
Cdd:PLN03077  377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK 453
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 274-331 3.89e-07

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 46.97  E-value: 3.89e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1281055795 274 RVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDIGAYNALIS 331
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 242-295 1.25e-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: 45.81  E-value: 1.25e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1281055795 242 HEMIRRGFKPDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLI 295
Cdd:pfam13812   4 REMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 254-287 1.31e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 44.75  E-value: 1.31e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1281055795 254 VTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPT 287
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 247-280 1.46e-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: 44.64  E-value: 1.46e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1281055795 247 RGFKPDVVTYSIRMDAYCKRGCFVDGLRVFEEMK 280
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PLN03077 PLN03077
Protein ECB2; Provisional
 222-368 1.66e-05

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 47.54  E-value: 1.66e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 222 NLLLLGFKESSN-VTAVELFyHEMIRRGFKPDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRaKFE--PTLETITTLIHGA 298
Cdd:PLN03077  558 NILLTGYVAHGKgSMAVELF-NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEE-KYSitPNLKHYACVVDLL 635

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1281055795 299 GVAKDIAKARQLFDEMPLRklcPDIGAYNALISS--LIRSDDVNS-AAALMEDMEAKHIGhdsmtYHMMFVGL 368
Cdd:PLN03077  636 GRAGKLTEAYNFINKMPIT---PDPAVWGALLNAcrIHRHVELGElAAQHIFELDPNSVG-----YYILLCNL 700
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 242-441 2.44e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 47.18  E-value: 2.44e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  242 HEMIR----RGFkPDVvtYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLR 317
Cdd:PLN03218   602 YQMIHeyniKGT-PEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795  318 KLCPDIGAYNALISSLIRSDDVNSAAALMEDMEAKHIGHDSMTYHMMFVGLMKLEDVHGFYELYSKMIRRNFVPKARTVV 397
Cdd:PLN03218   679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYS 758

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*
gi 1281055795  398 MIMRfFCE-NRRVDLGLDLWGYLVEKGYCPHSHVLDVLvTGLCAR 441
Cdd:PLN03218   759 ILLV-ASErKDDADVGLDLLSQAKEDGIKPNLVMCRCI-TGLCLR 801
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 321-370 7.96e-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: 40.04  E-value: 7.96e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1281055795 321 PDIGAYNALISSLIRSDDVNSAAALMEDMEAKHIGHDSMTYHMMFVGLMK 370
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 254-284 1.27e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 38.99  E-value: 1.27e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1281055795 254 VTYSIRMDAYCKRGCFVDGLRVFEEMKRAKF 284
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 155-467 1.70e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 44.48  E-value: 1.70e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 155 KIAKFQSFEETIEAFRRME-NEVFvgrKFGTEEFNVLLRAFCTQRQMKEARSVFLKMYSR-FPPNTKTMNLLLLGFKESS 232
Cdd:PLN03081   96 KLVACGRHREALELFEILEaGCPF---TLPASTYDALVEACIALKSIRCVKAVYWHVESSgFEPDQYMMNRVLLMHVKCG 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 233 NVTAVELFYHEMIRRgfkpDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHGA-------------- 298
Cdd:PLN03081  173 MLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASaglgsaragqqlhc 248

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 299 -----GVAKD----------------IAKARQLFDEMPLRKLCpdigAYNALISSLIRSDDVNSAAALMEDMEAKHIGHD 357
Cdd:PLN03081  249 cvlktGVVGDtfvscalidmyskcgdIEDARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 358 SMTYHMM---FVGLMKLEDVHgfyELYSKMIRRNFVPKARTVVMIMRFFCENRRVDLGldlwGYLVEKgyCPHSHVL--D 432
Cdd:PLN03081  325 QFTFSIMiriFSRLALLEHAK---QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDA----RNVFDR--MPRKNLIswN 395

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 1281055795 433 VLVTGLCARGMVHEAFECSKQMLERGRQMSDAAFL 467
Cdd:PLN03081  396 ALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430
PLN03077 PLN03077
Protein ECB2; Provisional
 252-447 2.25e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 44.07  E-value: 2.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 252 DVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDIGAYNALIS 331
Cdd:PLN03077  151 DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALIT 230

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 332 SLIRSDDVNSAAALMEDMEAKhighDSMTYHMMFVGLMKLEDVHGFYELYSKMiRRNFV-PKARTVVMIMRfFCE---NR 407
Cdd:PLN03077  231 MYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTM-RELSVdPDLMTITSVIS-ACEllgDE 304

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1281055795 408 RvdLGLDLWGYLVEKGYCPHSHVLDVLVTGLCARGMVHEA 447
Cdd:PLN03077  305 R--LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA 342
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 271-404 7.62e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.84  E-value: 7.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 271 DGLRVFEEMKRAKFEPTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDIGAYNALISSLIRSDDVNSAAALMEDME 350
Cdd:pfam17177  73 RGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHML 152

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1281055795 351 AKHIGHDSMTYhmmfVGLMKLEDVHG----FYELYSKMIRRNFVPKARTVVMIMRFFC 404
Cdd:pfam17177 153 AHGVELEEPEL----AALLKVSAKAGradkVYAYLHRLRDAVRQVSESTAGVLEEWFR 206
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 290-323 2.76e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.51  E-value: 2.76e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1281055795 290 TITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDI 323
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 244-398 3.12e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 40.24  E-value: 3.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 244 MIRRGFKPDVVTYSIRMDAYCKRGCFVDGLRVFEEMKRAkfepTLETITTLIHGAGVAKDIAKARQLFDEMPLRKLCPDI 323
Cdd:PLN03081  351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH 426

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1281055795 324 GAYNALISSLIRSDDVNSAAALMEDMEAKH-IGHDSMTYHMM--FVGLMKLEDvhgfyELYSkMIRRnfVPKARTVVM 398
Cdd:PLN03081  427 VTFLAVLSACRYSGLSEQGWEIFQSMSENHrIKPRAMHYACMieLLGREGLLD-----EAYA-MIRR--APFKPTVNM 496
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 190-352 4.48e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 39.85  E-value: 4.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 190 LLRAFCTQRQMKEARSVFLKMYSRfppNTKTMNLLLLGF-KESSNVTAVELFyHEMIRRGFKPDVVTYSIRMDAyCKRGC 268
Cdd:PLN03081  366 LVDLYSKWGRMEDARNVFDRMPRK---NLISWNALIAGYgNHGRGTKAVEMF-ERMIAEGVAPNHVTFLAVLSA-CRYSG 440

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1281055795 269 FVD-GLRVFEEM---------------------------------KRAKFEPTLETITTLIHGAGVAKDIAKAR----QL 310
Cdd:PLN03081  441 LSEqGWEIFQSMsenhrikpramhyacmiellgreglldeayamiRRAPFKPTVNMWAALLTACRIHKNLELGRlaaeKL 520

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1281055795 311 FDEMPLRklcpdIGAYNALISSLIRSDDVNSAAALMEDMEAK 352
Cdd:PLN03081  521 YGMGPEK-----LNNYVVLLNLYNSSGRQAEAAKVVETLKRK 557
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 319-350 5.88e-03

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 34.63  E-value: 5.88e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1281055795 319 LCPDIGAYNALISSLIRSDDVNSAAALMEDME 350
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
 
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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