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Conserved domains on  [gi|571460059|ref|XP_006581594|]
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pentatricopeptide repeat-containing protein At1g77360, mitochondrial [Glycine max]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000098)

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

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
 143-443 4.70e-28

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 118.44  E-value: 4.70e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  143 ARANKVDEAVYTFNVMDKYDVVPNLAAFNGLLSALCKSNNVRKAQEIFDAMKGQFV-PDEKSYSILLEGWGKAPNLPRAR 221
Cdd:PLN03218  483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVkPDRVVFNALISACGQSGAVDRAF 562

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  222 EVFREM-VEAG-CDPDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTYGVEHRIEDAIDTFLEMAK 299
Cdd:PLN03218  563 DVLAEMkAETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  300 KGIKADVVAYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNSrtcnVIISSMIGQ----GQTDRAFRVF--CRMIKLcEP 373
Cdd:PLN03218  643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT----VSYSSLMGAcsnaKNWKKALELYedIKSIKL-RP 717

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  374 DADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIKGLCEKDNAAKACVVMEEMIEKGIRP 443
Cdd:PLN03218  718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKP 787
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 143-443 4.70e-28

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 118.44  E-value: 4.70e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  143 ARANKVDEAVYTFNVMDKYDVVPNLAAFNGLLSALCKSNNVRKAQEIFDAMKGQFV-PDEKSYSILLEGWGKAPNLPRAR 221
Cdd:PLN03218  483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVkPDRVVFNALISACGQSGAVDRAF 562

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  222 EVFREM-VEAG-CDPDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTYGVEHRIEDAIDTFLEMAK 299
Cdd:PLN03218  563 DVLAEMkAETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  300 KGIKADVVAYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNSrtcnVIISSMIGQ----GQTDRAFRVF--CRMIKLcEP 373
Cdd:PLN03218  643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT----VSYSSLMGAcsnaKNWKKALELYedIKSIKL-RP 717

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  374 DADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIKGLCEKDNAAKACVVMEEMIEKGIRP 443
Cdd:PLN03218  718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKP 787
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 373-421 8.85e-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: 62.77  E-value: 8.85e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 571460059  373 PDADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIKGLC 421
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 237-271 8.15e-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: 8.15e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 571460059  237 VTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTS 271
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 143-443 4.70e-28

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 118.44  E-value: 4.70e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  143 ARANKVDEAVYTFNVMDKYDVVPNLAAFNGLLSALCKSNNVRKAQEIFDAMKGQFV-PDEKSYSILLEGWGKAPNLPRAR 221
Cdd:PLN03218  483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVkPDRVVFNALISACGQSGAVDRAF 562

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  222 EVFREM-VEAG-CDPDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTYGVEHRIEDAIDTFLEMAK 299
Cdd:PLN03218  563 DVLAEMkAETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  300 KGIKADVVAYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNSrtcnVIISSMIGQ----GQTDRAFRVF--CRMIKLcEP 373
Cdd:PLN03218  643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT----VSYSSLMGAcsnaKNWKKALELYedIKSIKL-RP 717

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  374 DADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIKGLCEKDNAAKACVVMEEMIEKGIRP 443
Cdd:PLN03218  718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKP 787
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 90-432 6.07e-28

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 118.06  E-value: 6.07e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059   90 KQRGYSHSIRAYHLMIESLAKIRQYQIVWDLVSAMRKKGM-LNVETFCIMMRKYARANKVDEAVYTFNVMDKYDVVPNLA 168
Cdd:PLN03218  464 QEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVeANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV 543

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  169 AFNGLLSALCKSNNVRKAQEIFDAMKGQ---FVPDEKSYSILLEGWGKAPNLPRAREVFREMVEAGCDPDVVTYGIMVDV 245
Cdd:PLN03218  544 VFNALISACGQSGAVDRAFDVLAEMKAEthpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNS 623

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  246 LCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTYGVEHRIEDAIDTFLEMAKKGIKADVVAYNALIGAFCKVNKFKNV 325
Cdd:PLN03218  624 CSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKA 703

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  326 HRVLKEMESNGVAPNSRTCNVIISSMIGQGQTDRAFRVFCRM--IKLCePDADTYTMMIKMfCEKN-ELEMALKIWKYMK 402
Cdd:PLN03218  704 LELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMkrLGLC-PNTITYSILLVA-SERKdDADVGLDLLSQAK 781

                         330       340       350
                  ....*....|....*....|....*....|....
gi 571460059  403 SKQFVPSMHTFSALIkGLC----EKDNAAKACVV 432
Cdd:PLN03218  782 EDGIKPNLVMCRCIT-GLClrrfEKACALGEPVV 814
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 373-421 8.85e-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: 62.77  E-value: 8.85e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 571460059  373 PDADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIKGLC 421
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 231-262 7.60e-12

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: 59.67  E-value: 7.60e-12
                          10        20        30
                  ....*....|....*....|....*....|..
gi 571460059  231 GCDPDVVTYGIMVDVLCKAGRVDEAVEVVKEM 262
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 134-448 4.12e-11

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 65.28  E-value: 4.12e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 134 TFCIMMRKYARANKVDEAVYTFNVMD---KYDVvpNLAAFNGLLSALCKSNNVRKAQEIFDAMKGQ-FVPDEKSYSILLE 209
Cdd:PLN03081  89 SLCSQIEKLVACGRHREALELFEILEagcPFTL--PASTYDALVEACIALKSIRCVKAVYWHVESSgFEPDQYMMNRVLL 166

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 210 GWGKAPNLPRAREVFREMVEAgcdpDVVTYGIMVDVLCKAGRVDEAVEVVKEM--DVGNCRPTSFIYSV----------- 276
Cdd:PLN03081 167 MHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMweDGSDAEPRTFVVMLrasaglgsara 242

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 277 ----------------------LVHTYGVEHRIEDAIDTFLEMAKKgikaDVVAYNALIGAFCKVNKFKNVHRVLKEMES 334
Cdd:PLN03081 243 gqqlhccvlktgvvgdtfvscaLIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRD 318

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 335 NGVAPNSRTCNVIIssmigqgqtdrafRVFCRMIKL--------------CEPDADTYTMMIKMFCEKNELEMALKIWKY 400
Cdd:PLN03081 319 SGVSIDQFTFSIMI-------------RIFSRLALLehakqahaglirtgFPLDIVANTALVDLYSKWGRMEDARNVFDR 385

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*...
gi 571460059 401 MKSKQFVpsmhTFSALIKGLCEKDNAAKACVVMEEMIEKGIRPSRITF 448
Cdd:PLN03081 386 MPRKNLI----SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF 429
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 74-462 5.22e-11

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 64.89  E-value: 5.22e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  74 FENAGMP--AFRFFE--WAEkqrGYSHSIRAYHLMIESLAKIRQYQIVWDLVSAMRKKGML-NVETFCIMMRKYARANKV 148
Cdd:PLN03081 199 LVDAGNYreAFALFRemWED---GSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVgDTFVSCALIDMYSKCGDI 275

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 149 DEAVYTFNVMDKYDVVpnlaAFNGLLSALCKSNNVRKAQEIFDAMKGQFVP-DEKSYSILLEGWGKAPNLPRAREVFREM 227
Cdd:PLN03081 276 EDARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCLYYEMRDSGVSiDQFTFSIMIRIFSRLALLEHAKQAHAGL 351

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 228 VEAGCDPDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNcrptsfiysvlvhtygvehriedaidtflemakkgikadVV 307
Cdd:PLN03081 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKN---------------------------------------LI 392

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 308 AYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNSRTCNVIISSMIGQGQTDRAFRVFCRMIKL--CEPDADTYTMMIKMF 385
Cdd:PLN03081 393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhrIKPRAMHYACMIELL 472

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 571460059 386 CEKNELEMAlkiWKYMKSKQFVPSMHTFSALIKGLCEKDNAAKACVVMEEMIekGIRPSRI-TFGRLRQLLIKEGRED 462
Cdd:PLN03081 473 GREGLLDEA---YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLY--GMGPEKLnNYVVLLNLYNSSGRQA 545
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 328-468 6.47e-11

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: 62.03  E-value: 6.47e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  328 VLKEMESNGVAPNSRTCNVII---------SSMIGQGQTDRAFRVFCRMI-KLCEPDADTYTMMIKMFCEKNELEMALKI 397
Cdd:pfam17177  33 LYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKaQGVSPNEATYTAVARLAAAKGDGDLAFDL 112

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 571460059  398 WKYMKSKQFVPSMHTFSALIKGLCEKDNAAKACVVMEEMIEKGIRPSRITFGRLRQLLIKEGRED-VLKFLH 468
Cdd:pfam17177 113 VKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADkVYAYLH 184
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 305-351 7.40e-11

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.99  E-value: 7.40e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 571460059  305 DVVAYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNSRTCNVIISSM 351
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 339-386 3.72e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 55.06  E-value: 3.72e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 571460059  339 PNSRTCNVIISSMIGQGQTDRAFRVFCRMIKL-CEPDADTYTMMIKMFC 386
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 ...
 199-248 1.92e-09

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 53.14  E-value: 1.92e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 571460059  199 PDEKSYSILLEGWGKAPNLPRAREVFREMVEAGCDPDVVTYGIMVDVLCK 248
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 113-337 2.53e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 59.86  E-value: 2.53e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 113 QYQIVWDLVSAMRKkgmlNVETFCIMMRKYARANKVDEAVYTFNVMDKYDVVPNLAAFNGLLSALCKSNNVRKAQEIFDA 192
Cdd:PLN03077 539 RMNYAWNQFNSHEK----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHS 614

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 193 MkgqfvpdEKSYSIllegwgkAPNLPRarevfremveagcdpdvvtYGIMVDVLCKAGRVDEAVEVVKEMDVgncRPTSF 272
Cdd:PLN03077 615 M-------EEKYSI-------TPNLKH-------------------YACVVDLLGRAGKLTEAYNFINKMPI---TPDPA 658

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 571460059 273 IYSVLVHTYGVEHRI---EDAIDTFLEMAKKgikaDVVAYNALIGAFCKVNKFKNVHRVLKEMESNGV 337
Cdd:PLN03077 659 VWGALLNACRIHRHVelgELAAQHIFELDPN----SVGYYILLCNLYADAGKWDEVARVRKTMRENGL 722
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 234-281 2.71e-09

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 52.75  E-value: 2.71e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 571460059  234 PDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTY 281
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 161-291 7.57e-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: 55.87  E-value: 7.57e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  161 YDVVPNLAAFNGLLSALCKSNNVRKAQEIFDAMKGQFV-PDEKSYSILLEGWGKAPNLPRAREVFREMVEAGCDPDVVTY 239
Cdd:pfam17177  49 YNVLLYLCSKAADATDLKPQLAADRGFEVFEAMKAQGVsPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSY 128

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 571460059  240 GIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHT----------YGVEHRIEDAI 291
Cdd:pfam17177 129 SPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVsakagradkvYAYLHRLRDAV 190
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 179-329 2.12e-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: 54.32  E-value: 2.12e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  179 KSNNVRKAQEIFDAMKGQFVP-DEKSYSILLEGWGKA-------PNLP--RAREVFREMVEAGCDPDVVTYGIMVDVLCK 248
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRlAQYHYNVLLYLCSKAadatdlkPQLAadRGFEVFEAMKAQGVSPNEATYTAVARLAAA 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  249 AGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTYGVEHRIEDAIDTFLEMAKKGIKADVVAYNALIGAFCKVNKFKNVHRV 328
Cdd:pfam17177 103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAY 182


                  .
gi 571460059  329 L 329
Cdd:pfam17177 183 L 183
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 269-318 2.60e-08

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: 50.05  E-value: 2.60e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 571460059  269 PTSFIYSVLVHTYGVEHRIEDAIDTFLEMAKKGIKADVVAYNALIGAFCK 318
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 60-417 5.25e-08

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 55.63  E-value: 5.25e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  60 VRVSPDlvenvlkrfENAGMPAFRFFEWaekQRGYSHSIRAYHLMIESLAKirqyqivwdlvsamrkkgmLNVETFCIMM 139
Cdd:PLN03077  80 LRVPVD---------EDAYVALFRLCEW---KRAVEEGSRVCSRALSSHPS-------------------LGVRLGNAML 128

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 140 RKYARANKVDEAVYTFNVMDKYDVVpnlaAFNGLLSALCKSNNVRKAQEIFDAMKGQFV-PDEKSYSILLEGWGKAPNLP 218
Cdd:PLN03077 129 SMFVRFGELVHAWYVFGKMPERDLF----SWNVLVGGYAKAGYFDEALCLYHRMLWAGVrPDVYTFPCVLRTCGGIPDLA 204

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 219 RAREVFREMVEAGCDPDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCrptsFIYSVLVHTYGVEHRIEDAIDTFLEMA 298
Cdd:PLN03077 205 RGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMR 280

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 299 KKGIKADVVAYNALIGAfckvNKFKNVHRVLKEMES----NGVAPNSRTCNVIISSMIGQGQTDRAFRVFCRMIKlcePD 374
Cdd:PLN03077 281 ELSVDPDLMTITSVISA----CELLGDERLGREMHGyvvkTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET---KD 353

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....
gi 571460059 375 ADTYTMMIKMfCEKNEL-EMALKIWKYMKSKQFVPSMHTFSALI 417
Cdd:PLN03077 354 AVSWTAMISG-YEKNGLpDKALETYALMEQDNVSPDEITIASVL 396
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 296-349 1.12e-07

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 48.51  E-value: 1.12e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 571460059  296 EMAKKGIKADVVAYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNSRTCNVIIS 349
Cdd:pfam13812   5 EMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PLN03077 PLN03077
Protein ECB2; Provisional
 166-479 2.32e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 53.31  E-value: 2.32e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 166 NLAAFNGLLSALCKSNNVRKAQEIFDAMKGQfvpDEKSYSILLEGWGKAPNLPRAREVFREMVEAGCDPDVVTYGIMVDV 245
Cdd:PLN03077 322 DVSVCNSLIQMYLSLGSWGEAEKVFSRMETK---DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSA 398

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 246 LCKAGRVDEAVEVVKEMDvgNCRPTSFIY--SVLVHTYGVEHRIEDAIDTFLEMAKKgikaDVVAYNALIGAFCKVNKFK 323
Cdd:PLN03077 399 CACLGDLDVGVKLHELAE--RKGLISYVVvaNALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCF 472

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 324 NVHRVLKEMESNgVAPNSRT-------CNVIISSMIGQ----------------------------GQTDRAFRVFCrmi 368
Cdd:PLN03077 473 EALIFFRQMLLT-LKPNSVTliaalsaCARIGALMCGKeihahvlrtgigfdgflpnalldlyvrcGRMNYAWNQFN--- 548

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059 369 kLCEPDADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIKGLCEKDNAAKACVVMEEMIEK-GIRPSRIT 447
Cdd:PLN03077 549 -SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKH 627

                        330       340       350
                 ....*....|....*....|....*....|..
gi 571460059 448 FGRLRQLLIKEGRedvlkfLHEKMNLLVKEPL 479
Cdd:PLN03077 628 YACVVDLLGRAGK------LTEAYNFINKMPI 653
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 286-469 2.17e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 50.26  E-value: 2.17e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  286 RIEDAIDTFLEMAKKGIKA--------------------DVVA------------YNALIGAFCKVNKFKNVHRVLKEME 333
Cdd:PLN03218  385 RIKDCIDLLEDMEKRGLLDmdkiyhakffkackkqravkEAFRfaklirnptlstFNMLMSVCASSQDIDGALRVLRLVQ 464

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  334 SNGVAPNSRTCNVIISSMIGQGQTDRAFRVFCRMIKL-CEPDADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHT 412
Cdd:PLN03218  465 EAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAgVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 571460059  413 FSALIKGLCEKDNAAKACVVMEEMI--EKGIRPSRITFGRLRQLLIKEGRED----VLKFLHE 469
Cdd:PLN03218  545 FNALISACGQSGAVDRAFDVLAEMKaeTHPIDPDHITVGALMKACANAGQVDrakeVYQMIHE 607
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 131-179 2.30e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 44.28  E-value: 2.30e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 571460059  131 NVETFCIMMRKYARANKVDEAVYTFNVMDKYDVVPNLAAFNGLLSALCK 179
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 237-271 8.15e-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: 8.15e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 571460059  237 VTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTS 271
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 327-385 2.06e-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: 42.35  E-value: 2.06e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  327 RVLKEMESNGVAPNSRTCNVIISSMIGQGQTDRAFRVFCRMIKL-CEPDADTYTMMIKMF 385
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKgIKPTLDTYNAILGVI 60
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 408-448 2.13e-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: 41.58  E-value: 2.13e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 571460059  408 PSMHTFSALIKGLCEKDNAAKACVVMEEMIEKGIRPSRITF 448
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTY 41
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 300-333 3.72e-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: 40.41  E-value: 3.72e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 571460059  300 KGIKADVVAYNALIGAFCKVNKFKNVHRVLKEME 333
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 258-316 4.99e-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: 41.19  E-value: 4.99e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 571460059  258 VVKEMDVGNCRPTSFIYSVLVHTYGVEHRIEDAIDTFLEMAKKGIKADVVAYNALIGAF 316
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 307-341 5.75e-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: 40.13  E-value: 5.75e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 571460059  307 VAYNALIGAFCKVNKFKNVHRVLKEMESNGVAPNS 341
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 123-209 9.87e-05

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 43.54  E-value: 9.87e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  123 AMRKKGML-NVETFCIMMRKYARANKVDEAVYTFNVMDKYDVVPNLAAFNGLLSALCKSNNVRKAQEIFDAMKGQFV-PD 200
Cdd:pfam17177  80 AMKAQGVSpNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVeLE 159


                  ....*....
gi 571460059  201 EKSYSILLE 209
Cdd:pfam17177 160 EPELAALLK 168
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 237-262 1.46e-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: 1.46e-04
                          10        20
                  ....*....|....*....|....*.
gi 571460059  237 VTYGIMVDVLCKAGRVDEAVEVVKEM 262
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEM 26
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 371-402 1.72e-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: 1.72e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 571460059  371 CEPDADTYTMMIKMFCEKNELEMALKIWKYMK 402
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 223-282 2.12e-04

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 39.26  E-value: 2.12e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 571460059  223 VFREMVEAGCDPDVVTYGIMVDVLCKAGRVDEAVEVVKEMDVGNCRPTSFIYSVLVHTYG 282
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 163-194 3.33e-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: 38.10  E-value: 3.33e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 571460059  163 VVPNLAAFNGLLSALCKSNNVRKAQEIFDAMK 194
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 411-444 4.26e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.82  E-value: 4.26e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 571460059  411 HTFSALIKGLCEKDNAAKACVVMEEMIEKGIRPS 444
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 377-409 5.29e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.43  E-value: 5.29e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 571460059  377 TYTMMIKMFCEKNELEMALKIWKYMKSKQFVPS 409
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 307-337 8.38e-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: 36.67  E-value: 8.38e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 571460059  307 VAYNALIGAFCKVNKFKNVHRVLKEMESNGV 337
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 134-166 2.93e-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: 35.12  E-value: 2.93e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 571460059  134 TFCIMMRKYARANKVDEAVYTFNVMDKYDVVPN 166
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 404-436 5.28e-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: 5.28e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 571460059  404 KQFVPSMHTFSALIKGLCEKDNAAKACVVMEEM 436
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 372-418 6.57e-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: 6.57e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 571460059  372 EPDADTYTMMIKMFCEKNELEMALKIWKYMKSKQFVPSMHTFSALIK 418
Cdd:pfam13812  12 QLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 377-406 7.30e-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: 7.30e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 571460059  377 TYTMMIKMFCEKNELEMALKIWKYMKSKQF 406
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 189-239 9.85e-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: 34.64  E-value: 9.85e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 571460059  189 IFDAMKGQ-FVPDEKSYSILLEGWGKAPNLPRAREVFREMVEAGCDPDVVTY 239
Cdd:pfam13812   2 ILREMVRDgIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTY 53
 
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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