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Conserved domains on  [gi|1063705665|ref|NP_001323755|]
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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
91-780 2.82e-147

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 453.15  E-value: 2.82e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  91 QRNLVAGRAVHGQIIRTGASTCIQHANVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSSytvMQLF 170
Cdd:PLN03077   99 KRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEA---LCLY 175
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 171 REMRAQDILPNAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSLVGMYCKAGLVEDGLKVFAYMPERNTYT 250
Cdd:PLN03077  176 HRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS 255
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 251 WSTMVSGYATRGRVEEAIKvfnLFLREKEEGSDSDYV-FTAVLSSLAATIYVGLGRQIHCITIKNGLLGFVALSNALVTM 329
Cdd:PLN03077  256 WNAMISGYFENGECLEGLE---LFFTMRELSVDPDLMtITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQM 332
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 330 YSKCESLNEACKMFDSSGDRNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLH 409
Cdd:PLN03077  333 YLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLH 412
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 410 SFLLKLGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILYRRMKtAGIIPNDPT 489
Cdd:PLN03077  413 ELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVT 491
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 490 MASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRrTPNKDVVSWNAMISGLSHNGQG 569
Cdd:PLN03077  492 LIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKG 570
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 570 DEALELFEEMLAEGMEPDDVTFVNIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIES 649
Cdd:PLN03077  571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK 650
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 650 ANIDHGLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWKHMRANGVSKEVGCSW 729
Cdd:PLN03077  651 MPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730
                         650       660       670       680       690
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1063705665 730 IELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEGFVTVLDSSFVEEE 780
Cdd:PLN03077  731 VEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIE 781
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
91-780 2.82e-147

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 453.15  E-value: 2.82e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  91 QRNLVAGRAVHGQIIRTGASTCIQHANVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSSytvMQLF 170
Cdd:PLN03077   99 KRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEA---LCLY 175
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 171 REMRAQDILPNAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSLVGMYCKAGLVEDGLKVFAYMPERNTYT 250
Cdd:PLN03077  176 HRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS 255
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 251 WSTMVSGYATRGRVEEAIKvfnLFLREKEEGSDSDYV-FTAVLSSLAATIYVGLGRQIHCITIKNGLLGFVALSNALVTM 329
Cdd:PLN03077  256 WNAMISGYFENGECLEGLE---LFFTMRELSVDPDLMtITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQM 332
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 330 YSKCESLNEACKMFDSSGDRNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLH 409
Cdd:PLN03077  333 YLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLH 412
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 410 SFLLKLGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILYRRMKtAGIIPNDPT 489
Cdd:PLN03077  413 ELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVT 491
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 490 MASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRrTPNKDVVSWNAMISGLSHNGQG 569
Cdd:PLN03077  492 LIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKG 570
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 570 DEALELFEEMLAEGMEPDDVTFVNIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIES 649
Cdd:PLN03077  571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK 650
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 650 ANIDHGLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWKHMRANGVSKEVGCSW 729
Cdd:PLN03077  651 MPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730
                         650       660       670       680       690
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1063705665 730 IELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEGFVTVLDSSFVEEE 780
Cdd:PLN03077  731 VEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIE 781
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
551-600 6.61e-14

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: 66.23  E-value: 6.61e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063705665 551 KDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNIISACSH 600
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
554-588 3.38e-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: 49.76  E-value: 3.38e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063705665 554 VSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDD 588
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
91-780 2.82e-147

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 453.15  E-value: 2.82e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  91 QRNLVAGRAVHGQIIRTGASTCIQHANVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSSytvMQLF 170
Cdd:PLN03077   99 KRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEA---LCLY 175
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 171 REMRAQDILPNAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSLVGMYCKAGLVEDGLKVFAYMPERNTYT 250
Cdd:PLN03077  176 HRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS 255
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 251 WSTMVSGYATRGRVEEAIKvfnLFLREKEEGSDSDYV-FTAVLSSLAATIYVGLGRQIHCITIKNGLLGFVALSNALVTM 329
Cdd:PLN03077  256 WNAMISGYFENGECLEGLE---LFFTMRELSVDPDLMtITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQM 332
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 330 YSKCESLNEACKMFDSSGDRNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLH 409
Cdd:PLN03077  333 YLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLH 412
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 410 SFLLKLGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILYRRMKtAGIIPNDPT 489
Cdd:PLN03077  413 ELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVT 491
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 490 MASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRrTPNKDVVSWNAMISGLSHNGQG 569
Cdd:PLN03077  492 LIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKG 570
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 570 DEALELFEEMLAEGMEPDDVTFVNIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIES 649
Cdd:PLN03077  571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK 650
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 650 ANIDHGLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWKHMRANGVSKEVGCSW 729
Cdd:PLN03077  651 MPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730
                         650       660       670       680       690
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1063705665 730 IELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEGFVTVLDSSFVEEE 780
Cdd:PLN03077  731 VEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIE 781
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
262-769 1.54e-115

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 365.73  E-value: 1.54e-115
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 262 GRVEEAIKVFNLfLREKEEGSDSDYVFTAVLSSLAATIYVGLGRQIHCITIKNGLLGFVALSNALVTMYSKCESLNEACK 341
Cdd:PLN03081  101 GRHREALELFEI-LEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARR 179
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 342 MFDSSGDRNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSFLLKLGFERHL 421
Cdd:PLN03081  180 LFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDT 259
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 422 FATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILYRRMKTAGIIPNDPTMASVLKACSSLA 501
Cdd:PLN03081  260 FVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA 339
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 502 TLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLA 581
Cdd:PLN03081  340 LLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIA 419
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 582 EGMEPDDVTFVNIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIESANIDHGLCLWRI 661
Cdd:PLN03081  420 EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAA 499
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 662 LLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWKHMRANGVSKEVGCSWIELKNQYHVFVV 741
Cdd:PLN03081  500 LLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFS 579
                         490       500
                  ....*....|....*....|....*...
gi 1063705665 742 GDTMHPMIEETKDLVCLVSRQMIEEGFV 769
Cdd:PLN03081  580 GDRLHPQSREIYQKLDELMKEISEYGYV 607
PLN03077 PLN03077
Protein ECB2; Provisional
345-598 5.49e-43

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 168.10  E-value: 5.49e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 345 SSGDRNSitwsaMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSFLLKLGFERHLFAT 424
Cdd:PLN03077   50 STHDSNS-----QLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 425 TALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILYRRMKTAGIIPNDPTMASVLKACSSLATLE 504
Cdd:PLN03077  125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLA 204
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 505 LGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLAEGM 584
Cdd:PLN03077  205 RGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV 284
                         250
                  ....*....|....
gi 1063705665 585 EPDDVTFVNIISAC 598
Cdd:PLN03077  285 DPDLMTITSVISAC 298
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
551-600 6.61e-14

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: 66.23  E-value: 6.61e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063705665 551 KDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNIISACSH 600
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
669-731 2.95e-12

E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) proteins which contain a DYW deaminase domain. The DYW domain is required for RNA editing, a process that deaminates specific cytidines to uridines. This motif, together with the E+ motif, precedes the DYW domain and, although their role is not clear, they are essential in the RNA editing reaction. The E/E+ motifs may contain two degenerate PPR motifs that could be involved in RNA or protein binding.


Pssm-ID: 466580 [Multi-domain]  Cd Length: 63  Bit Score: 62.18  E-value: 2.95e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1063705665 669 HGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWKHMRANGVSKEVGCSWIE 731
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSWIE 63
PLN03077 PLN03077
Protein ECB2; Provisional
74-272 1.20e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 68.34  E-value: 1.20e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  74 LNPHTSTLLKKLTHHSQQRNLVAGRAVHGQIIRTGASTCIQHANVLVNFYAKCGKLAKAHSIFNAiICKDVVSWNSLITG 153
Cdd:PLN03077  485 LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-HEKDVVSWNILLTG 563
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 154 YSQNGGISssyTVMQLFREMRAQDILPNAYTLagifkaesslqsstvgrqahalvvkmssfgdiyvdTSLVGMYCKAGLV 233
Cdd:PLN03077  564 YVAHGKGS---MAVELFNRMVESGVNPDEVTF-----------------------------------ISLLCACSRSGMV 605
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1063705665 234 EDGLKVFAYMPER-----NTYTWSTMVSGYATRGRVEEAIKVFN 272
Cdd:PLN03077  606 TQGLEYFHSMEEKysitpNLKHYACVVDLLGRAGKLTEAYNFIN 649
PLN03218 PLN03218
maturation of RBCL 1; Provisional
416-675 4.30e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 63.36  E-value: 4.30e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  416 GFERHLFATTALVDMYAKAGCLADARKGFDCLQERDV----ALWTSLISGYVQNSDNEEALILYRRMK--TAGIIPNDPT 489
Cdd:PLN03218   502 GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVkpdrVVFNALISACGQSGAVDRAFDVLAEMKaeTHPIDPDHIT 581
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  490 MASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRRTPNKDV----VSWNAMISGLSH 565
Cdd:PLN03218   582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVkpdeVFFSALVDVAGH 661
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  566 NGQGDEALELFEEMLAEGMEPDDVTFVNIISACSHKGFVERGW-FYFNMMSdqIGLDPKVDHYACMVDLLSRAGQLKEAK 644
Cdd:PLN03218   662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALeLYEDIKS--IKLRPTVSTMNALITALCEGNQLPKAL 739
                          250       260       270
                   ....*....|....*....|....*....|....*
gi 1063705665  645 EFIESANiDHGLC----LWRILLSACKNHGKCELG 675
Cdd:PLN03218   740 EVLSEMK-RLGLCpntiTYSILLVASERKDDADVG 773
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
554-588 3.38e-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: 49.76  E-value: 3.38e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063705665 554 VSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDD 588
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 ...
554-584 1.20e-07

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: 48.23  E-value: 1.20e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063705665 554 VSWNAMISGLSHNGQGDEALELFEEMLAEGM 584
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 ...
349-398 1.21e-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: 1.21e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063705665 349 RNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSD 398
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
450-497 7.59e-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: 46.59  E-value: 7.59e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1063705665 450 RDVALWTSLISGYVQNSDNEEALILYRRMKTAGIIPNDPTMASVLKAC 497
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03218 PLN03218
maturation of RBCL 1; Provisional
481-721 1.52e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 51.80  E-value: 1.52e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  481 AGIIPNdPTMAS---VLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKCGSLEDGNLVFRRTPNK----DV 553
Cdd:PLN03218   429 AKLIRN-PTLSTfnmLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAgveaNV 507
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  554 VSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNIISACSHKGFVERGwfyFNMMSDQIG----LDPkvDH--Y 627
Cdd:PLN03218   508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAethpIDP--DHitV 582
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  628 ACMVDLLSRAGQLKEAKE---FIESANIDHGLCLWRILLSACKNHGKCE--LGVYAGEKLMALGSREsstyVQLSGIYTA 702
Cdd:PLN03218   583 GALMKACANAGQVDRAKEvyqMIHEYNIKGTPEVYTIAVNSCSQKGDWDfaLSIYDDMKKKGVKPDE----VFFSALVDV 658
                          250       260
                   ....*....|....*....|..
gi 1063705665  703 LGRMRDVER---VWKHMRANGV 721
Cdd:PLN03218   659 AGHAGDLDKafeILQDARKQGI 680
PLN03218 PLN03218
maturation of RBCL 1; Provisional
221-598 2.08e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 51.42  E-value: 2.08e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  221 TSLVGMYCKAGLVEDGLKVFAYMP----ERNTYTWSTMVSGYATRGRVEEAIKVFNLfLREKEEGSDSdYVFTAVLSSla 296
Cdd:PLN03218   476 TTLISTCAKSGKVDAMFEVFHEMVnagvEANVHTFGALIDGCARAGQVAKAFGAYGI-MRSKNVKPDR-VVFNALISA-- 551
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  297 atiyvglgrqihCitiknGLLGFVALS-NALVTMYSKCESLneackmfdssgDRNSITWSAMVTGYSQNGESLEAVKLFS 375
Cdd:PLN03218   552 ------------C-----GQSGAVDRAfDVLAEMKAETHPI-----------DPDHITVGALMKACANAGQVDRAKEVYQ 603
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  376 RMFSAGIK--PSEYTIVgvLNACSDICYLEEGKQLHSFLLKLGFERHLFATTALVDMYAKAGclaDARKGFDCLQERD-- 451
Cdd:PLN03218   604 MIHEYNIKgtPEVYTIA--VNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAG---DLDKAFEILQDARkq 678
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665  452 -----VALWTSLIsGYVQNSDN-EEALILYRRMKTAGIIPNDPTMASVLKA-CSslatlelGKQVHGhtikhgfGLEVpi 524
Cdd:PLN03218   679 giklgTVSYSSLM-GACSNAKNwKKALELYEDIKSIKLRPTVSTMNALITAlCE-------GNQLPK-------ALEV-- 741
                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063705665  525 gsaLSTMYSkcgsledgnlvFRRTPNkdVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNIISAC 598
Cdd:PLN03218   742 ---LSEMKR-----------LGLCPN--TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
142-191 3.00e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 44.66  E-value: 3.00e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1063705665 142 KDVVSWNSLITGYSQNGGISSsytVMQLFREMRAQDILPNAYTLAGIFKA 191
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEE---AFKLFNEMKKRGVKPNVYTYTILING 47
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
221-259 4.01e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.58  E-value: 4.01e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1063705665 221 TSLVGMYCKAGLVEDGLKVFAYMPER----NTYTWSTMVSGYA 259
Cdd:pfam13041   7 NTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLC 49
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
352-382 1.11e-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: 39.76  E-value: 1.11e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063705665 352 ITWSAMVTGYSQNGESLEAVKLFSRMFSAGI 382
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
552-579 1.43e-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: 39.64  E-value: 1.43e-04
                          10        20
                  ....*....|....*....|....*...
gi 1063705665 552 DVVSWNAMISGLSHNGQGDEALELFEEM 579
Cdd:pfam12854   6 DVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
352-386 1.61e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.36  E-value: 1.61e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063705665 352 ITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSE 386
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 ...
455-483 3.26e-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: 38.60  E-value: 3.26e-04
                          10        20
                  ....*....|....*....|....*....
gi 1063705665 455 WTSLISGYVQNSDNEEALILYRRMKTAGI 483
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
245-272 3.94e-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: 38.48  E-value: 3.94e-04
                          10        20
                  ....*....|....*....|....*...
gi 1063705665 245 ERNTYTWSTMVSGYATRGRVEEAIKVFN 272
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLD 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
362-537 5.59e-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: 42.00  E-value: 5.59e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 362 SQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSflLKLGFErhLFAttalvDMYAKAgclADAR 441
Cdd:pfam17177  22 SKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLA--ADRGFE--VFE-----AMKAQG---VSPN 89
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063705665 442 KgfdclqerdvALWTSLISGYVQNSDNEEALILYRRMKTAGIIPNDPTMASVLKACSSLATLELGKQVHGHTIKHGFGLE 521
Cdd:pfam17177  90 E----------ATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELE 159
                         170
                  ....*....|....*.
gi 1063705665 522 VPIGSALSTMYSKCGS 537
Cdd:pfam17177 160 EPELAALLKVSAKAGR 175
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
552-598 1.35e-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: 37.72  E-value: 1.35e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1063705665 552 DVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNIISAC 598
Cdd:pfam13812  14 NVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
246-272 1.53e-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: 36.96  E-value: 1.53e-03
                          10        20
                  ....*....|....*....|....*..
gi 1063705665 246 RNTYTWSTMVSGYATRGRVEEAIKVFN 272
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFN 27
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
249-278 2.97e-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: 35.89  E-value: 2.97e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1063705665 249 YTWSTMVSGYATRGRVEEAIKVFNLFLREK 278
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG 30
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
249-277 5.70e-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: 35.13  E-value: 5.70e-03
                          10        20
                  ....*....|....*....|....*....
gi 1063705665 249 YTWSTMVSGYATRGRVEEAIKVFNLFLRE 277
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
441-497 7.55e-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: 35.41  E-value: 7.55e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063705665 441 RKGFdclqERDVALWTSLISGYVQNSDNEEALILYRRMKTAGIIPNDPTMASVLKAC 497
Cdd:pfam13812   8 RDGI----QLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
 
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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