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Conserved domains on  [gi|15231592|ref|NP_189297|]
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Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000585)

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
PLN03077 super family cl33629
Protein ECB2; Provisional
 27-420 6.76e-76

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 254.00  E-value: 6.76e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   27 LRTCSNFSQL---KQIHTKIIKHNLTNDQLLVRQLISVSSSFGETQYASLVFNQLQSPSTFTWNLMIRSLSVNHKPREAL 103
Cdd:PLN03077 194 LRTCGGIPDLargREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGL 273

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  104 LLFiLMMISHQSQFDKFTFPFVIKACLASSSIRLGTQVHGLAIKAGFFNDVFFQNTLMDLYFKCGKPDSGRKVFDKMPGR 183
Cdd:PLN03077 274 ELF-FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK 352

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  184 SIVSWTTML-------------------------------------------------------------YGLVSNSQL- 201
Cdd:PLN03077 353 DAVSWTAMIsgyeknglpdkaletyalmeqdnvspdeitiasvlsacaclgdldvgvklhelaerkglisYVVVANALIe 432

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  202 --------DSAEIVFNQMPMRNVVSWTAMITAYVKNRRPDEAFQLFRRMQVDdVKPNEFTIVNLLQASTQLGSLSMGRWV 273
Cdd:PLN03077 433 myskckciDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEI 511

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  274 HDYAHKNGFVLDCFLGTALIDMYSKCGSLQDARKVFDVmQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEeASVEPDA 353
Cdd:PLN03077 512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVE-SGVNPDE 589

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15231592  354 ITFVGVLSACANTGNVKDGLRYFTRMIQVYGISPIREHNACMIQLLEQALEVEKASNLVESMDSDPD 420
Cdd:PLN03077 590 VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD 656
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 27-420 6.76e-76

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 254.00  E-value: 6.76e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   27 LRTCSNFSQL---KQIHTKIIKHNLTNDQLLVRQLISVSSSFGETQYASLVFNQLQSPSTFTWNLMIRSLSVNHKPREAL 103
Cdd:PLN03077 194 LRTCGGIPDLargREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGL 273

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  104 LLFiLMMISHQSQFDKFTFPFVIKACLASSSIRLGTQVHGLAIKAGFFNDVFFQNTLMDLYFKCGKPDSGRKVFDKMPGR 183
Cdd:PLN03077 274 ELF-FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK 352

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  184 SIVSWTTML-------------------------------------------------------------YGLVSNSQL- 201
Cdd:PLN03077 353 DAVSWTAMIsgyeknglpdkaletyalmeqdnvspdeitiasvlsacaclgdldvgvklhelaerkglisYVVVANALIe 432

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  202 --------DSAEIVFNQMPMRNVVSWTAMITAYVKNRRPDEAFQLFRRMQVDdVKPNEFTIVNLLQASTQLGSLSMGRWV 273
Cdd:PLN03077 433 myskckciDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEI 511

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  274 HDYAHKNGFVLDCFLGTALIDMYSKCGSLQDARKVFDVmQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEeASVEPDA 353
Cdd:PLN03077 512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVE-SGVNPDE 589

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15231592  354 ITFVGVLSACANTGNVKDGLRYFTRMIQVYGISPIREHNACMIQLLEQALEVEKASNLVESMDSDPD 420
Cdd:PLN03077 590 VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD 656
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 214-253 3.41e-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: 3.41e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 15231592   214 RNVVSWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPNEFT 253
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYT 40
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 217-251 2.24e-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: 2.24e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15231592   217 VSWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPNE 251
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 27-420 6.76e-76

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 254.00  E-value: 6.76e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   27 LRTCSNFSQL---KQIHTKIIKHNLTNDQLLVRQLISVSSSFGETQYASLVFNQLQSPSTFTWNLMIRSLSVNHKPREAL 103
Cdd:PLN03077 194 LRTCGGIPDLargREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGL 273

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  104 LLFiLMMISHQSQFDKFTFPFVIKACLASSSIRLGTQVHGLAIKAGFFNDVFFQNTLMDLYFKCGKPDSGRKVFDKMPGR 183
Cdd:PLN03077 274 ELF-FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK 352

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  184 SIVSWTTML-------------------------------------------------------------YGLVSNSQL- 201
Cdd:PLN03077 353 DAVSWTAMIsgyeknglpdkaletyalmeqdnvspdeitiasvlsacaclgdldvgvklhelaerkglisYVVVANALIe 432

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  202 --------DSAEIVFNQMPMRNVVSWTAMITAYVKNRRPDEAFQLFRRMQVDdVKPNEFTIVNLLQASTQLGSLSMGRWV 273
Cdd:PLN03077 433 myskckciDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEI 511

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  274 HDYAHKNGFVLDCFLGTALIDMYSKCGSLQDARKVFDVmQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEeASVEPDA 353
Cdd:PLN03077 512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVE-SGVNPDE 589

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15231592  354 ITFVGVLSACANTGNVKDGLRYFTRMIQVYGISPIREHNACMIQLLEQALEVEKASNLVESMDSDPD 420
Cdd:PLN03077 590 VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD 656
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 71-401 3.43e-61

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 211.27  E-value: 3.43e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   71 ASLVFNQLQSPSTFTWNLMIRSLSVNHKPREALLLFiLMMISHQSQFDKFTFPFVIKACLASSSIRLGTQVHGLAIKAGF 150
Cdd:PLN03081 177 ARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALF-REMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGV 255

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  151 FNDVFFQNTLMDLYFKCGKPDSGRKVFDkmpgrsivswttmlyglvsnsqldsaeivfnQMPMRNVVSWTAMITAYVKNR 230
Cdd:PLN03081 256 VGDTFVSCALIDMYSKCGDIEDARCVFD-------------------------------GMPEKTTVAWNSMLAGYALHG 304

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  231 RPDEAFQLFRRMQVDDVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALIDMYSKCGSLQDARKVFD 310
Cdd:PLN03081 305 YSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFD 384

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  311 VMQGKSLATWNSMITSLGVHGCGEEALSLFeEMEEEASVEPDAITFVGVLSACANTGNVKDGLRYFTRMIQVYGISPIRE 390
Cdd:PLN03081 385 RMPRKNLISWNALIAGYGNHGRGTKAVEMF-ERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAM 463

                        330
                 ....*....|.
gi 15231592  391 HNACMIQLLEQ 401
Cdd:PLN03081 464 HYACMIELLGR 474
PLN03077 PLN03077
Protein ECB2; Provisional
 58-374 9.25e-47

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 173.11  E-value: 9.25e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   58 LISVSSSFGETQYASLVFNQLQSPSTFTWNLMIRSLSVNHKPREALLLFILMMISHQSQfDKFTFPFVIKACLASSSIRL 137
Cdd:PLN03077 127 MLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRP-DVYTFPCVLRTCGGIPDLAR 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  138 GTQVHGLAIKAGFFNDVFFQNTLMDLYFKCGKPDSGRKVFDKMPgrsivswttmlyglvsnsqldsaeivfnqmpMRNVV 217
Cdd:PLN03077 206 GREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP-------------------------------RRDCI 254

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  218 SWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALIDMYS 297
Cdd:PLN03077 255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYL 334

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15231592  298 KCGSLQDARKVFDVMQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEEaSVEPDAITFVGVLSACANTGNVKDGLR 374
Cdd:PLN03077 335 SLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQD-NVSPDEITIASVLSACACLGDLDVGVK 410
PLN03077 PLN03077
Protein ECB2; Provisional
 176-372 4.42e-28

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 117.64  E-value: 4.42e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  176 VFDKMPGRSIVSWTTMLYGLVSNSQLDSAEIVFNQMPMRNVVSWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPNEFTIV 255
Cdd:PLN03077 112 ALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  256 NLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALIDMYSKCGSLQDARKVFDVMQGKSLATWNSMITSLGVHGCGEE 335
Cdd:PLN03077 192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLE 271

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 15231592  336 ALSLFEEMEEEaSVEPDAITFVGVLSACANTGNVKDG 372
Cdd:PLN03077 272 GLELFFTMREL-SVDPDLMTITSVISACELLGDERLG 307
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 217-372 6.64e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 73.75  E-value: 6.64e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  217 VSWTAMITAYVKNRRPDEAFQLFRRMQVD-DVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALIDM 295
Cdd:PLN03081  88 VSLCSQIEKLVACGRHREALELFEILEAGcPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLM 167

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15231592  296 YSKCGSLQDARKVFDVMQGKSLATWNSMITSLGVHGCGEEALSLFEEMEEEASvEPDAITFVGVLSACANTGNVKDG 372
Cdd:PLN03081 168 HVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS-DAEPRTFVVMLRASAGLGSARAG 243
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 121-405 1.38e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 63.74  E-value: 1.38e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   121 TFPFVIKACLASSSIRLGTQVHGLAIKAGFFNDVFFQNTLMDLYFKCGKPDSGRKVFDKMPGRSIV----SWTTMLYGLV 196
Cdd:PLN03218  439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEanvhTFGALIDGCA 518

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   197 SNSQLDSAEIVFNQMPMRNV----VSWTAMITAYVKNRRPDEAFQLFRRMQVDD--VKPNEFTIVNLLQASTQLGSLSMG 270
Cdd:PLN03218  519 RAGQVAKAFGAYGIMRSKNVkpdrVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRA 598

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   271 RWVHDYAHKNGF--VLDCFlgTALIDMYSKCGSLQDARKVFDVMQGKSLAT----WNSMITSLGVHGCGEEALSLFEEME 344
Cdd:PLN03218  599 KEVYQMIHEYNIkgTPEVY--TIAVNSCSQKGDWDFALSIYDDMKKKGVKPdevfFSALVDVAGHAGDLDKAFEILQDAR 676

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15231592   345 EEAsVEPDAITFVGVLSACANTGNVKDGLRYFTRmIQVYGISP-IREHNACMIQL-----LEQALEV 405
Cdd:PLN03218  677 KQG-IKLGTVSYSSLMGACSNAKNWKKALELYED-IKSIKLRPtVSTMNALITALcegnqLPKALEV 741
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 214-253 3.41e-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: 3.41e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 15231592   214 RNVVSWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPNEFT 253
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYT 40
PLN03077 PLN03077
Protein ECB2; Provisional
 233-364 4.63e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 61.79  E-value: 4.63e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592  233 DEAFQLFRRMQVDDVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALIDMYSKCGSLQDARKVFDVM 312
Cdd:PLN03077  68 EQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKM 147

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 15231592  313 QGKSLATWNSMITSLGVHGCGEEALSLFeEMEEEASVEPDAITFVGVLSACA 364
Cdd:PLN03077 148 PERDLFSWNVLVGGYAKAGYFDEALCLY-HRMLWAGVRPDVYTFPCVLRTCG 198
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 217-251 2.24e-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: 2.24e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15231592   217 VSWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPNE 251
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 217-247 1.13e-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: 44.76  E-value: 1.13e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15231592   217 VSWTAMITAYVKNRRPDEAFQLFRRMQVDDV 247
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 ...
 183-228 1.56e-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: 41.97  E-value: 1.56e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15231592   183 RSIVSWTTMLYGLVSNSQLDSAEIVFNQMPMR----NVVSWTAMITAYVK 228
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 215-242 2.80e-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: 2.80e-04
                          10        20
                  ....*....|....*....|....*...
gi 15231592   215 NVVSWTAMITAYVKNRRPDEAFQLFRRM 242
Cdd:pfam12854   6 DVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 153-195 2.84e-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: 38.50  E-value: 2.84e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15231592   153 DVFFQNTLMDLYFKCGKPDSGRKVFDKMPGRSI----VSWTTMLYGL 195
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVkpnvYTYTILINGL 48
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 176-312 8.90e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.46  E-value: 8.90e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231592   176 VFDKMPGRSIV----SWTTMLYgLVSNSQLDSAEI----------VFNQMPMRNVVSWTAMITAY----VKNRRPDEAFQ 237
Cdd:pfam17177  33 LYDAAKAEGVRlaqyHYNVLLY-LCSKAADATDLKpqlaadrgfeVFEAMKAQGVSPNEATYTAVarlaAAKGDGDLAFD 111

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15231592   238 LFRRMQVDDVKPNEFTIVNLLQASTQLGSLSMGRWVHDYAHKNGFVLDCFLGTALIDMYSKCGslqDARKVFDVM 312
Cdd:pfam17177 112 LVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG---RADKVYAYL 183
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 349-387 3.18e-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: 3.18e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15231592   349 VEPDAITFVGVLSACANTGNVKDGLRYFTRMIQVyGISP 387
Cdd:pfam13812  11 IQLNVNTYTHLLHAYANVGNLKLALEIFERMKKK-GIKP 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 319-365 3.94e-03

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 35.42  E-value: 3.94e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15231592   319 TWNSMITSLGVHGCGEEALSLFEEMEEEaSVEPDAITFVGVLSACAN 365
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKR-GVKPNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 319-340 5.24e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 34.36  E-value: 5.24e-03
                          10        20
                  ....*....|....*....|..
gi 15231592   319 TWNSMITSLGVHGCGEEALSLF 340
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELF 23
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 215-250 7.56e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 35.03  E-value: 7.56e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 15231592   215 NVVSWTAMITAYVKNRRPDEAFQLFRRMQVDDVKPN 250
Cdd:pfam13812  14 NVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPT 49
 
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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