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Conserved domains on  [gi|1063697382|ref|NP_001323334|]
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Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 349-660 1.39e-34

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 142.71  E-value: 1.39e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  349 LKRQPGFKHDGHTYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPD 428
Cdd:PLN03218   462 LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  429 RVTYCTLIDIHAKAGFLDIAMDMYQRMQ-EAG-LSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMI 506
Cdd:PLN03218   542 RVVFNALISACGQSGAVDRAFDVLAEMKaETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAV 621

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  507 ALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVD 586
Cdd:PLN03218   622 NSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK 701

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063697382  587 KAWQWYQAMLQAGLRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCCtDARSNFDMGF 660
Cdd:PLN03218   702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS-ERKDDADVGL 774
SMR smart00463
Small MutS-related domain;
753-834 5.11e-17

Small MutS-related domain;


:

Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 76.57  E-value: 5.11e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  753 WLINLHVMSEGTAVIALSRTLAWFRKQMLvsgdcPSRIDIVTGWGRRSRvTGTSMVRQAVEELLNIFNFPfFTENGNSGC 832
Cdd:smart00463   2 WSLDLHGLTVEEALTALDKFLNNARLKGL-----EQKLVIITGKGKHSL-GGKSGVKPALKEHLRVESFR-FAEEGNSGV 74


                   ..
gi 1063697382  833 FV 834
Cdd:smart00463  75 LV 76
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 349-660 1.39e-34

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 142.71  E-value: 1.39e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  349 LKRQPGFKHDGHTYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPD 428
Cdd:PLN03218   462 LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  429 RVTYCTLIDIHAKAGFLDIAMDMYQRMQ-EAG-LSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMI 506
Cdd:PLN03218   542 RVVFNALISACGQSGAVDRAFDVLAEMKaETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAV 621

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  507 ALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVD 586
Cdd:PLN03218   622 NSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK 701

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063697382  587 KAWQWYQAMLQAGLRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCCtDARSNFDMGF 660
Cdd:PLN03218   702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS-ERKDDADVGL 774
SMR smart00463
Small MutS-related domain;
753-834 5.11e-17

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 76.57  E-value: 5.11e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  753 WLINLHVMSEGTAVIALSRTLAWFRKQMLvsgdcPSRIDIVTGWGRRSRvTGTSMVRQAVEELLNIFNFPfFTENGNSGC 832
Cdd:smart00463   2 WSLDLHGLTVEEALTALDKFLNNARLKGL-----EQKLVIITGKGKHSL-GGKSGVKPALKEHLRVESFR-FAEEGNSGV 74


                   ..
gi 1063697382  833 FV 834
Cdd:smart00463  75 LV 76
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 392-437 4.38e-15

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 69.70  E-value: 4.38e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063697382 392 PNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPDRVTYCTLID 437
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 395-428 2.59e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 50.15  E-value: 2.59e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063697382 395 VTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPD 428
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 380-632 2.36e-06

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 50.11  E-value: 2.36e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 380 KLLDEMVRDgcKPNTV-TYNRLIHSYGRANYLKEAMNVFNQMQEAgcEPDRVTYC-TLIDIHAKAGFLDIAMDMYQRMQE 457
Cdd:COG2956    29 DLLEEALEL--DPETVeAHLALGNLYRRRGEYDRAIRIHQKLLER--DPDRAEALlELAQDYLKAGLLDRAEELLEKLLE 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 458 agLSPDTFT-YSVIINCLGKAGHLPAAHRLFCEMVGQGctPNLVTFNIMIA-LHAKARNYETALKLYRDMQNAgfQPDKV 535
Cdd:COG2956   105 --LDPDDAEaLRLLAEIYEQEGDWEKAIEVLERLLKLG--PENAHAYCELAeLYLEQGDYDEAIEALEKALKL--DPDCA 178

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 536 TYSIVM-EVLGHCGFLEEAEGVFAEMQRKNwvPD-EPVYGLLVDLWGKAGNVDKAWQWYQAMLQagLRPNVPTCNSLLST 613
Cdd:COG2956   179 RALLLLaELYLEQGDYEEAIAALERALEQD--PDyLPALPRLAELYEKLGDPEEALELLRKALE--LDPSDDLLLALADL 254

                         250
                  ....*....|....*....
gi 1063697382 614 FLRVHRMSEAYNLLQSMLA 632
Cdd:COG2956   255 LERKEGLEAALALLERQLR 273
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 349-660 1.39e-34

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 142.71  E-value: 1.39e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  349 LKRQPGFKHDGHTYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPD 428
Cdd:PLN03218   462 LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  429 RVTYCTLIDIHAKAGFLDIAMDMYQRMQ-EAG-LSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMI 506
Cdd:PLN03218   542 RVVFNALISACGQSGAVDRAFDVLAEMKaETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAV 621

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  507 ALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVD 586
Cdd:PLN03218   622 NSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK 701

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063697382  587 KAWQWYQAMLQAGLRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCCtDARSNFDMGF 660
Cdd:PLN03218   702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS-ERKDDADVGL 774
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 331-616 4.20e-20

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 96.10  E-value: 4.20e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  331 QVLKQMDNyanalgffywlkrqPGFKHDGHTYTTMVGNLGRAKQ----FGEINKLLDEMVrdgcKPNTVTYNRLIHSYGR 406
Cdd:PLN03218   493 EVFHEMVN--------------AGVEANVHTFGALIDGCARAGQvakaFGAYGIMRSKNV----KPDRVVFNALISACGQ 554

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  407 ANYLKEAMNVFNQMQ-EAG-CEPDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEA-------------------------- 458
Cdd:PLN03218   555 SGAVDRAFDVLAEMKaETHpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYnikgtpevytiavnscsqkgdwdfal 634

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  459 ---------GLSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMIALHAKARNYETALKLYRDMQNAG 529
Cdd:PLN03218   635 siyddmkkkGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIK 714

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  530 FQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAMLQAGLRPNVPTCNS 609
Cdd:PLN03218   715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRC 794


                   ....*..
gi 1063697382  610 LLSTFLR 616
Cdd:PLN03218   795 ITGLCLR 801
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 339-649 5.41e-18

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 88.77  E-value: 5.41e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 339 YANALGFFYWLKRQPGFKHDGHTYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFN 418
Cdd:PLN03081  103 HREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFD 182

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 419 QMqeagcePDR--VTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQG-- 494
Cdd:PLN03081  183 EM------PERnlASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGvv 256

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 495 ---------------------------CTP--NLVTFNIMIALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLG 545
Cdd:PLN03081  257 gdtfvscalidmyskcgdiedarcvfdGMPekTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS 336

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 546 HCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAMlqagLRPNVPTCNSLLSTFLRVHRMSEAYN 625
Cdd:PLN03081  337 RLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM----PRKNLISWNALIAGYGNHGRGTKAVE 412

                         330       340
                  ....*....|....*....|....
gi 1063697382 626 LLQSMLALGLHPSLQTYTLLLSCC 649
Cdd:PLN03081  413 MFERMIAEGVAPNHVTFLAVLSAC 436
SMR smart00463
Small MutS-related domain;
753-834 5.11e-17

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 76.57  E-value: 5.11e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  753 WLINLHVMSEGTAVIALSRTLAWFRKQMLvsgdcPSRIDIVTGWGRRSRvTGTSMVRQAVEELLNIFNFPfFTENGNSGC 832
Cdd:smart00463   2 WSLDLHGLTVEEALTALDKFLNNARLKGL-----EQKLVIITGKGKHSL-GGKSGVKPALKEHLRVESFR-FAEEGNSGV 74


                   ..
gi 1063697382  833 FV 834
Cdd:smart00463  75 LV 76
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 426-653 1.63e-16

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 84.54  E-value: 1.63e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  426 EPDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIM 505
Cdd:PLN03218   434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  506 IALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEM--QRKNWVPDEPVYGLLVDLWGKAG 583
Cdd:PLN03218   514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAG 593

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  584 NVDKAWQWYQAMLQAGLR--PNVPT-----CNS------------------------LLSTFLRV--H--RMSEAYNLLQ 628
Cdd:PLN03218   594 QVDRAKEVYQMIHEYNIKgtPEVYTiavnsCSQkgdwdfalsiyddmkkkgvkpdevFFSALVDVagHagDLDKAFEILQ 673

                          250       260
                   ....*....|....*....|....*
gi 1063697382  629 SMLALGLHPSLQTYTLLLSCCTDAR 653
Cdd:PLN03218   674 DARKQGIKLGTVSYSSLMGACSNAK 698
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 392-437 4.38e-15

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 69.70  E-value: 4.38e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063697382 392 PNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPDRVTYCTLID 437
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 436-587 2.62e-13

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: 69.73  E-value: 2.62e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 436 IDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTYSVIINCLGKAGHLPAAH---------RLFCEMVGQGCTPNLVTFNIMI 506
Cdd:pfam17177  18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKpqlaadrgfEVFEAMKAQGVSPNEATYTAVA 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 507 ALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVD 586
Cdd:pfam17177  98 RLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRAD 177


                  .
gi 1063697382 587 K 587
Cdd:pfam17177 178 K 178
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 400-647 3.00e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 73.75  E-value: 3.00e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 400 LIHSYGRANYLKEAMNVFNQMQEAGCepdrVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTYSVIINC---LGK 476
Cdd:PLN03081  265 LIDMYSKCGDIEDARCVFDGMPEKTT----VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIfsrLAL 340

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 477 AGHLPAAHR------LFCEMVGQGC----------------------TPNLVTFNIMIALHAKARNYETALKLYRDMQNA 528
Cdd:PLN03081  341 LEHAKQAHAglirtgFPLDIVANTAlvdlyskwgrmedarnvfdrmpRKNLISWNALIAGYGNHGRGTKAVEMFERMIAE 420

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 529 GFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWV-PDEPVYGLLVDLWGKAGNVDKAwqwYQAMLQAGLRPNVPTC 607
Cdd:PLN03081  421 GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIkPRAMHYACMIELLGREGLLDEA---YAMIRRAPFKPTVNMW 497

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 1063697382 608 NSLLsTFLRVHRMSEAYNLLQSMLaLGLHPS-LQTYTLLLS 647
Cdd:PLN03081  498 AALL-TACRIHKNLELGRLAAEKL-YGMGPEkLNNYVVLLN 536
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 380-436 1.18e-12

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: 63.53  E-value: 1.18e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063697382 380 KLLDEMVRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPDRVTYCTLI 436
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 ...
 462-506 1.22e-12

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.77  E-value: 1.22e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1063697382 462 PDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMI 506
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 ...
 497-546 1.77e-12

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.38  E-value: 1.77e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063697382 497 PNLVTFNIMIALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGH 546
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 386-652 4.38e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 69.88  E-value: 4.38e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 386 VRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAgcepDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTF 465
Cdd:PLN03077  315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEI 390

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 466 TYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMIALHAKARNYETALKLYRDMQN----------AGF----- 530
Cdd:PLN03077  391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEkdviswtsiiAGLrlnnr 470

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 531 ---------------QPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAM 595
Cdd:PLN03077  471 cfealiffrqmlltlKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH 550

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063697382 596 lqaglRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCCTDA 652
Cdd:PLN03077  551 -----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS 602
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 441-652 2.15e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 67.98  E-value: 2.15e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  441 KAGFLDIAMDMYQRMQEAG-LSPDTFTYSVIINCLGKAGHLPAAHRlFCEMVGqgcTPNLVTFNIMIALHAKARNYETAL 519
Cdd:PLN03218   382 RDGRIKDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFR-FAKLIR---NPTLSTFNMLMSVCASSQDIDGAL 457

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  520 KLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAMLQAG 599
Cdd:PLN03218   458 RVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1063697382  600 LRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALG--LHPSLQTYTLLLSCCTDA 652
Cdd:PLN03218   538 VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANA 592
PLN03077 PLN03077
Protein ECB2; Provisional
 398-612 1.43e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 65.26  E-value: 1.43e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 398 NRLIHSYGRANYLKEAMNVFNQMQEAgcepDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTY-SVIINCLG- 475
Cdd:PLN03077  125 NAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFpCVLRTCGGi 200

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 476 ---------------------------------KAGHLPAAHRLFCEMVGQGCtpnlVTFNIMIALHAKARNYETALKLY 522
Cdd:PLN03077  201 pdlargrevhahvvrfgfeldvdvvnalitmyvKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELF 276

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 523 RDMQNAGFQPDKVTYSIVM---EVLGHCGF--------------------------------LEEAEGVFAEMQRKNWVP 567
Cdd:PLN03077  277 FTMRELSVDPDLMTITSVIsacELLGDERLgremhgyvvktgfavdvsvcnsliqmylslgsWGEAEKVFSRMETKDAVS 356

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*
gi 1063697382 568 depvYGLLVDLWGKAGNVDKAWQWYQAMLQAGLRPNVPTCNSLLS 612
Cdd:PLN03077  357 ----WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397
PLN03077 PLN03077
Protein ECB2; Provisional
 393-619 6.38e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 62.94  E-value: 6.38e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 393 NTVTYNRLIHSYGRANYLKEAMNVFNQMQeAGCEPDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTYSVIIN 472
Cdd:PLN03077  454 DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLD 532

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 473 CLGKAGHLPAAHRLFCEmvgqgCTPNLVTFNIMIALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEE 552
Cdd:PLN03077  533 LYVRCGRMNYAWNQFNS-----HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQ 607

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1063697382 553 AEGVFAEMQRK-NWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAMlqaGLRPNVPTCNSLLSTfLRVHR 619
Cdd:PLN03077  608 GLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA-CRIHR 671
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 388-420 1.07e-09

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 54.27  E-value: 1.07e-09
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063697382 388 DGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQM 420
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PLN03077 PLN03077
Protein ECB2; Provisional
 410-649 1.13e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 62.17  E-value: 1.13e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 410 LKEAMNVFNQMQEAGCEPDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTYSVIINCLGKAGHLPAAHRLFCE 489
Cdd:PLN03077   67 LEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGK 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 490 MVGQgctpNLVTFNIMIALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDE 569
Cdd:PLN03077  147 MPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDV 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 570 PVYGLLVDLWGKAGNVDKAWQWYQAMlqagLRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCC 649
Cdd:PLN03077  223 DVVNALITMYVKCGDVVSARLVFDRM----PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC 298
PLN03077 PLN03077
Protein ECB2; Provisional
 302-678 6.56e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 59.86  E-value: 6.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 302 SILRRFKWGHAAEEALH----------NFGFRMdayqANQVLKQMDNYANALGFFYWLKRQPgfKHDGHTYTTMVGNLGR 371
Cdd:PLN03077   91 ALFRLCEWKRAVEEGSRvcsralsshpSLGVRL----GNAMLSMFVRFGELVHAWYVFGKMP--ERDLFSWNVLVGGYAK 164

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 372 AKQFGEINKLLDEMVRDGCKPNTVTY-----------------------------------NRLIHSYGRANYLKEAMNV 416
Cdd:PLN03077  165 AGYFDEALCLYHRMLWAGVRPDVYTFpcvlrtcggipdlargrevhahvvrfgfeldvdvvNALITMYVKCGDVVSARLV 244

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 417 FNQMQEAgcepDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDTFTY-SVIINC-------LGK------------ 476
Cdd:PLN03077  245 FDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTItSVISACellgderLGRemhgyvvktgfa 320

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 477 ---------------AGHLPAAHRLFCEMVgqgcTPNLVTFNIMIALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVM 541
Cdd:PLN03077  321 vdvsvcnsliqmylsLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL 396

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 542 EVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAMlqagLRPNVPTCNSLLSTFLRVHRMS 621
Cdd:PLN03077  397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI----PEKDVISWTSIIAGLRLNNRCF 472

                         410       420       430       440       450
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063697382 622 EAYNLLQSMLaLGLHPSLQTYTLLLSCCtdARSnfdmgfcGQLMavSGHPAHMFLLK 678
Cdd:PLN03077  473 EALIFFRQML-LTLKPNSVTLIAALSAC--ARI-------GALM--CGKEIHAHVLR 517
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 361-406 6.68e-09

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 52.37  E-value: 6.68e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063697382 361 TYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYGR 406
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 379-490 9.87e-09

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 59.09  E-value: 9.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 379 NKLLDEMVRDG-----------CKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPDRVTYCTLIDIHAKAGFLDI 447
Cdd:PLN03077  528 NALLDLYVRCGrmnyawnqfnsHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQ 607

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1063697382 448 AMDMYQRMQEA-GLSPDTFTYSVIINCLGKAGHLPAAHRLFCEM 490
Cdd:PLN03077  608 GLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 395-428 2.59e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 50.15  E-value: 2.59e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063697382 395 VTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPD 428
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 393-563 7.05e-08

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 56.42  E-value: 7.05e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 393 NTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPDRVTYCTLIDIHAKAGFLDIAMDMYQRMQEA-GLSPDTFTYSVII 471
Cdd:PLN03081  390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMI 469

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 472 NCLGKAGHLPAAHRLFCEmvgqgcTPNLVTFNIMIALHAKAR---NYE----TALKLYrdmqnaGFQPDKV-TYSIVMEV 543
Cdd:PLN03081  470 ELLGREGLLDEAYAMIRR------APFKPTVNMWAALLTACRihkNLElgrlAAEKLY------GMGPEKLnNYVVLLNL 537

                         170       180
                  ....*....|....*....|
gi 1063697382 544 LGHCGFLEEAEGVFAEMQRK 563
Cdd:PLN03081  538 YNSSGRQAEAAKVVETLKRK 557
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 602-649 1.36e-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: 48.51  E-value: 1.36e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1063697382 602 PNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCC 649
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 500-533 5.29e-07

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: 46.68  E-value: 5.29e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063697382 500 VTFNIMIALHAKARNYETALKLYRDMQNAGFQPD 533
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 381-497 6.56e-07

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 50.86  E-value: 6.56e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 381 LLDEMVRDGCKPNTVTYNRLIH---------SYGRANYLKEAMNVFNQMQEAGCEPDRVTYCTLIDIHAKAGFLDIAMDM 451
Cdd:pfam17177  33 LYDAAKAEGVRLAQYHYNVLLYlcskaadatDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDL 112

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1063697382 452 YQRMQEAGLSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTP 497
Cdd:pfam17177 113 VKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVEL 158
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 395-425 1.22e-06

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 45.53  E-value: 1.22e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063697382 395 VTYNRLIHSYGRANYLKEAMNVFNQMQEAGC 425
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 465-498 1.80e-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: 45.14  E-value: 1.80e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063697382 465 FTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPN 498
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 459-491 2.12e-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: 2.12e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063697382 459 GLSPDTFTYSVIINCLGKAGHLPAAHRLFCEMV 491
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 380-632 2.36e-06

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 50.11  E-value: 2.36e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 380 KLLDEMVRDgcKPNTV-TYNRLIHSYGRANYLKEAMNVFNQMQEAgcEPDRVTYC-TLIDIHAKAGFLDIAMDMYQRMQE 457
Cdd:COG2956    29 DLLEEALEL--DPETVeAHLALGNLYRRRGEYDRAIRIHQKLLER--DPDRAEALlELAQDYLKAGLLDRAEELLEKLLE 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 458 agLSPDTFT-YSVIINCLGKAGHLPAAHRLFCEMVGQGctPNLVTFNIMIA-LHAKARNYETALKLYRDMQNAgfQPDKV 535
Cdd:COG2956   105 --LDPDDAEaLRLLAEIYEQEGDWEKAIEVLERLLKLG--PENAHAYCELAeLYLEQGDYDEAIEALEKALKL--DPDCA 178

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 536 TYSIVM-EVLGHCGFLEEAEGVFAEMQRKNwvPD-EPVYGLLVDLWGKAGNVDKAWQWYQAMLQagLRPNVPTCNSLLST 613
Cdd:COG2956   179 RALLLLaELYLEQGDYEEAIAALERALEQD--PDyLPALPRLAELYEKLGDPEEALELLRKALE--LDPSDDLLLALADL 254

                         250
                  ....*....|....*....
gi 1063697382 614 FLRVHRMSEAYNLLQSMLA 632
Cdd:COG2956   255 LERKEGLEAALALLERQLR 273
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 430-464 3.18e-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: 44.37  E-value: 3.18e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063697382 430 VTYCTLIDIHAKAGFLDIAMDMYQRMQEAGLSPDT 464
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 354-405 4.26e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.04  E-value: 4.26e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1063697382 354 GFKHDGHTYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYG 405
Cdd:pfam13812  10 GIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 485-545 6.24e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 44.27  E-value: 6.24e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1063697382 485 RLFCEMVGQGCTPNLVTFNIMIALHAKARNYETALKLYRDMQNAGFQPDKVTYSIVMEVLG 545
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 360-394 8.07e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.21  E-value: 8.07e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063697382 360 HTYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNT 394
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 535-569 8.82e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.21  E-value: 8.82e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063697382 535 VTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDE 569
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 424-455 2.49e-05

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 41.95  E-value: 2.49e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1063697382 424 GCEPDRVTYCTLIDIHAKAGFLDIAMDMYQRM 455
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 453-508 6.34e-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: 41.57  E-value: 6.34e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1063697382 453 QRMQEAGLSPDTFTYSVIINCLGKAGHLPAAHRLFCEMVGQGCTPNLVTFNIMIAL 508
Cdd:pfam13812   4 REMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 430-460 8.32e-05

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 40.14  E-value: 8.32e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063697382 430 VTYCTLIDIHAKAGFLDIAMDMYQRMQEAGL 460
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 500-530 8.66e-05

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 40.14  E-value: 8.66e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063697382 500 VTFNIMIALHAKARNYETALKLYRDMQNAGF 530
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 567-616 1.30e-04

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: 1.30e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063697382 567 PDEPVYGLLVDLWGKAGNVDKAWQWYQAMLQAGLRPNVPTCNSLLSTFLR 616
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 ...
 535-564 2.52e-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: 2.52e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 1063697382 535 VTYSIVMEVLGHCGFLEEAEGVFAEMQRKN 564
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 532-577 3.73e-04

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: 38.88  E-value: 3.73e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1063697382 532 PDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVD 577
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 465-495 3.89e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 38.22  E-value: 3.89e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063697382 465 FTYSVIINCLGKAGHLPAAHRLFCEMVGQGC 495
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 507-633 5.24e-04

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 40.95  E-value: 5.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382 507 ALHAKARNYETALKLYRDMQNAgfQPDkvtYSIVMEVLGHCGF----LEEAEGVFAEMQRKNwvPDEP-VYGLLVDLWGK 581
Cdd:COG4783    12 QALLLAGDYDEAEALLEKALEL--DPD---NPEAFALLGEILLqlgdLDEAIVLLHEALELD--PDEPeARLNLGLALLK 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1063697382 582 AGNVDKAWQWYQAMLQagLRPNVPTCNSLLS-TFLRVHRMSEAYNLLQSMLAL 633
Cdd:COG4783    85 AGDYDEALALLEKALK--LDPEHPEAYLRLArAYRALGRPDEAIAALEKALEL 135
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 494-525 5.28e-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: 5.28e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1063697382 494 GCTPNLVTFNIMIALHAKARNYETALKLYRDM 525
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 571-604 1.34e-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: 37.05  E-value: 1.34e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063697382 571 VYGLLVDLWGKAGNVDKAWQWYQAMLQAGLRPNV 604
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 529-560 2.76e-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: 36.17  E-value: 2.76e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063697382 529 GFQPDKVTYSIVMEvlGHC--GFLEEAEGVFAEM 560
Cdd:pfam12854   2 GLKPDVVTYNTLIN--GLCraGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 593-651 3.72e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 36.57  E-value: 3.72e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1063697382 593 QAMLQAGLRPNVPTCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPSLQTYTLLLSCCTD 651
Cdd:pfam13812   4 REMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 556-614 4.31e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 36.57  E-value: 4.31e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1063697382 556 VFAEMQRKNWVPDEPVYGLLVDLWGKAGNVDKAWQWYQAMLQAGLRPNVPTCNSLLSTF 614
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 361-474 5.08e-03

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 40.63  E-value: 5.08e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697382  361 TYTTMVGNLGRAKQFGEINKLLDEMVRDGCKPNTVTYNRLIHSYGRANYLKEAMNVFNQMQEAGCEPDRV---------- 430
Cdd:PLN03218   721 TMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVmcrcitglcl 800

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063697382  431 ----TYCTL--IDIHAKAGFLDI-------AMDMYQRMQEAGLSPDTFTYSVIINCL 474
Cdd:PLN03218   801 rrfeKACALgePVVSFDSGRPQIenkwtswALMVYRETISAGTLPTMEVLSQVLGCL 857
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 520-581 6.27e-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: 35.80  E-value: 6.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063697382 520 KLYRDMQNAGFQPDKVTYSIVMEVLGHCGFLEEAEGVFAEMQRKNWVPDEPVYGLLVDLWGK 581
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 606-638 6.58e-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: 6.58e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063697382 606 TCNSLLSTFLRVHRMSEAYNLLQSMLALGLHPS 638
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 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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