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Conserved domains on  [gi|15231402|ref|NP_188004|]
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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
 39-729 3.51e-133

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 415.02  E-value: 3.51e-133
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   39 QPKNTALDSEGYKILFQTAAKSGSVVLGKLAHGHMIKSSLNPCLYLLNNLLNMYCKCRELGFARQLFDRMPERNIISFNS 118
Cdd:PLN03077  78 QELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNV 157

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  119 LISGYTQMGFYEQAMELFLEAREANLKLDKFTYAGALGFCGERCDLDLGELLHGLVVVNGLSQQVFLINVLIDMYSKCGK 198
Cdd:PLN03077 158 LVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGD 237

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  199 LDQAMSLFDRCDERDQVSWNSLISGYVRVGAAEEPLNLLAKMHRDGLNLTTYALGSVLKACCINLNEGFiekGMAIHCYT 278
Cdd:PLN03077 238 VVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERL---GREMHGYV 314

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  279 AKLGMEFDIVVRTALLDMYAKNGSLKEAIKLFSLMPSKNVVTYNAMISGFlqMDEITDEASSEAFKLfmdMQRRGLEPSP 358
Cdd:PLN03077 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY--EKNGLPDKALETYAL---MEQDNVSPDE 389

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  359 STFSVVLKACSAAKTLEYGRQIHALICKNNFQSDEFIGSALIELYALMGSTEDGMQCFASTSKQDIASWTSMIDCHVQNE 438
Cdd:PLN03077 390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN 469

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  439 QLESAFDLFRQLFSsHIRPEEYTVSLMMSACADFAALSSGEQIQGYAIKSGIDAFTSVKTSSISMYAKSGNMPLANQVFi 518
Cdd:PLN03077 470 RCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF- 547

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  519 EVQNPDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCHGGLVTQGLKYFQCMKNDYRINPNEKH 598
Cdd:PLN03077 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH 627

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  599 FTCLVDLLGRTGRLSDAENLILSSGFQDHPVTWRALLSSCRVYKDSVIGKRVAERLMELEPEASGSYVLLHNIYNDSGVN 678
Cdd:PLN03077 628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKW 707

                        650       660       670       680       690
                 ....*....|....*....|....*....|....*....|....*....|.
gi 15231402  679 SSAEEVRELMRDRGVKKEPALSWIVIGNQTHSFAVADLSHPSSQMIYTMLE 729
Cdd:PLN03077 708 DEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 39-729 3.51e-133

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 415.02  E-value: 3.51e-133
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   39 QPKNTALDSEGYKILFQTAAKSGSVVLGKLAHGHMIKSSLNPCLYLLNNLLNMYCKCRELGFARQLFDRMPERNIISFNS 118
Cdd:PLN03077  78 QELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNV 157

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  119 LISGYTQMGFYEQAMELFLEAREANLKLDKFTYAGALGFCGERCDLDLGELLHGLVVVNGLSQQVFLINVLIDMYSKCGK 198
Cdd:PLN03077 158 LVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGD 237

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  199 LDQAMSLFDRCDERDQVSWNSLISGYVRVGAAEEPLNLLAKMHRDGLNLTTYALGSVLKACCINLNEGFiekGMAIHCYT 278
Cdd:PLN03077 238 VVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERL---GREMHGYV 314

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  279 AKLGMEFDIVVRTALLDMYAKNGSLKEAIKLFSLMPSKNVVTYNAMISGFlqMDEITDEASSEAFKLfmdMQRRGLEPSP 358
Cdd:PLN03077 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY--EKNGLPDKALETYAL---MEQDNVSPDE 389

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  359 STFSVVLKACSAAKTLEYGRQIHALICKNNFQSDEFIGSALIELYALMGSTEDGMQCFASTSKQDIASWTSMIDCHVQNE 438
Cdd:PLN03077 390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN 469

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  439 QLESAFDLFRQLFSsHIRPEEYTVSLMMSACADFAALSSGEQIQGYAIKSGIDAFTSVKTSSISMYAKSGNMPLANQVFi 518
Cdd:PLN03077 470 RCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF- 547

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  519 EVQNPDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCHGGLVTQGLKYFQCMKNDYRINPNEKH 598
Cdd:PLN03077 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH 627

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  599 FTCLVDLLGRTGRLSDAENLILSSGFQDHPVTWRALLSSCRVYKDSVIGKRVAERLMELEPEASGSYVLLHNIYNDSGVN 678
Cdd:PLN03077 628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKW 707

                        650       660       670       680       690
                 ....*....|....*....|....*....|....*....|....*....|.
gi 15231402  679 SSAEEVRELMRDRGVKKEPALSWIVIGNQTHSFAVADLSHPSSQMIYTMLE 729
Cdd:PLN03077 708 DEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 641-702 8.45e-13

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: 63.72  E-value: 8.45e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15231402   641 YKDSVIGKRVAERLMELEPEASGSYVLLHNIYNDSGVNSSAEEVRELMRDRGVKKEPALSWI 702
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSWI 62
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 527-559 4.61e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.90  E-value: 4.61e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15231402   527 TYSAMISSLAQHGSANEALNIFESMKTHGIKPN 559
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 39-729 3.51e-133

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 415.02  E-value: 3.51e-133
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   39 QPKNTALDSEGYKILFQTAAKSGSVVLGKLAHGHMIKSSLNPCLYLLNNLLNMYCKCRELGFARQLFDRMPERNIISFNS 118
Cdd:PLN03077  78 QELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNV 157

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  119 LISGYTQMGFYEQAMELFLEAREANLKLDKFTYAGALGFCGERCDLDLGELLHGLVVVNGLSQQVFLINVLIDMYSKCGK 198
Cdd:PLN03077 158 LVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGD 237

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  199 LDQAMSLFDRCDERDQVSWNSLISGYVRVGAAEEPLNLLAKMHRDGLNLTTYALGSVLKACCINLNEGFiekGMAIHCYT 278
Cdd:PLN03077 238 VVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERL---GREMHGYV 314

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  279 AKLGMEFDIVVRTALLDMYAKNGSLKEAIKLFSLMPSKNVVTYNAMISGFlqMDEITDEASSEAFKLfmdMQRRGLEPSP 358
Cdd:PLN03077 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY--EKNGLPDKALETYAL---MEQDNVSPDE 389

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  359 STFSVVLKACSAAKTLEYGRQIHALICKNNFQSDEFIGSALIELYALMGSTEDGMQCFASTSKQDIASWTSMIDCHVQNE 438
Cdd:PLN03077 390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN 469

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  439 QLESAFDLFRQLFSsHIRPEEYTVSLMMSACADFAALSSGEQIQGYAIKSGIDAFTSVKTSSISMYAKSGNMPLANQVFi 518
Cdd:PLN03077 470 RCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF- 547

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  519 EVQNPDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCHGGLVTQGLKYFQCMKNDYRINPNEKH 598
Cdd:PLN03077 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH 627

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  599 FTCLVDLLGRTGRLSDAENLILSSGFQDHPVTWRALLSSCRVYKDSVIGKRVAERLMELEPEASGSYVLLHNIYNDSGVN 678
Cdd:PLN03077 628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKW 707

                        650       660       670       680       690
                 ....*....|....*....|....*....|....*....|....*....|.
gi 15231402  679 SSAEEVRELMRDRGVKKEPALSWIVIGNQTHSFAVADLSHPSSQMIYTMLE 729
Cdd:PLN03077 708 DEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 256-731 1.66e-89

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 295.63  E-value: 1.66e-89
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  256 LKACCINLNEgfIEKGMAIHCYTAKLGMEFDIVVRTALLDMYAKNGSLKEAIKLFSLMPSKNVVTYNAMISGFLQMDEit 335
Cdd:PLN03081 129 LVEACIALKS--IRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN-- 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  336 deaSSEAFKLFMDMQRRGLEPSPSTFSVVLKACSAAKTLEYGRQIHALICKNNFQSDEFIGSALIELYALMGSTEDGMQC 415
Cdd:PLN03081 205 ---YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCV 281

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  416 FASTSKQDIASWTSMIDCHVQNEQLESAFDLFRQLFSSHIRPEEYTVSLMMSACADFAALSSGEQIQGYAIKSGIDAFTS 495
Cdd:PLN03081 282 FDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIV 361

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  496 VKTSSISMYAKSGNMPLANQVFIEVQNPDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCHGGL 575
Cdd:PLN03081 362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL 441

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  576 VTQGLKYFQCMKNDYRINPNEKHFTCLVDLLGRTGRLSDAENLILSSGFQDHPVTWRALLSSCRVYKDSVIGKRVAERLM 655
Cdd:PLN03081 442 SEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLY 521

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15231402  656 ELEPEASGSYVLLHNIYNDSGVNSSAEEVRELMRDRGVKKEPALSWIVIGNQTHSFAVADLSHPSSQMIYTMLETM 731
Cdd:PLN03081 522 GMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDEL 597
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 52-319 5.45e-31

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 129.61  E-value: 5.45e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   52 ILFQTAAKSGSVVLGKLAHGHMIKSSLNPCLYLLNNLLNMYCKCRELGFARQLFDRMPERNIISFNSLISGYTQMGFYEQ 131
Cdd:PLN03081 229 VMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEE 308

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  132 AMELFLEAREANLKLDKFTYAGALGFCGERCDLDLGELLHGLVVVNGLSQQVFLINVLIDMYSKCGKLDQAMSLFDRCDE 211
Cdd:PLN03081 309 ALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR 388

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402  212 RDQVSWNSLISGYVRVGAAEEPLNLLAKMHRDGL--NLTTYAlgSVLKACCINlneGFIEKGMAI-HCYTAKLGMEFDIV 288
Cdd:PLN03081 389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVapNHVTFL--AVLSACRYS---GLSEQGWEIfQSMSENHRIKPRAM 463

                        250       260       270
                 ....*....|....*....|....*....|.
gi 15231402  289 VRTALLDMYAKNGSLKEAIKLFSLMPSKNVV 319
Cdd:PLN03081 464 HYACMIELLGREGLLDEAYAMIRRAPFKPTV 494
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 294-662 4.18e-14

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 76.45  E-value: 4.18e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   294 LDMYA---KNGSLKEAIKLFSLMPSKnvvtynamisGFLQMDEI----------TDEASSEAFKLFMDMqrrgLEPSPST 360
Cdd:PLN03218  374 IDAYNrllRDGRIKDCIDLLEDMEKR----------GLLDMDKIyhakffkackKQRAVKEAFRFAKLI----RNPTLST 439

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   361 FSVVLKACSAAKTLEYGRQIHALICKNNFQSDEFIGSALIELYALMGSTEDGMQCFASTSKQDIA----SWTSMIDCHVQ 436
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEanvhTFGALIDGCAR 519

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   437 NEQLESAFDLFRQLFSSHIRPEEYTVSLMMSACAdfaalssgeqiQGYAIKSGIDAFTSVKTSSismyaksgnMPLanqv 516
Cdd:PLN03218  520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG-----------QSGAVDRAFDVLAEMKAET---------HPI---- 575

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   517 fievqNPDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCHGGLVTQGLKYFQCMKNDyRINPNE 596
Cdd:PLN03218  576 -----DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDE 649

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15231402   597 KHFTCLVDLLGRTGRLSDAENLI---LSSGFQDHPVTWRALLSSCRVYKDSVIGKRVAE--RLMELEPEAS 662
Cdd:PLN03218  650 VFFSALVDVAGHAGDLDKAFEILqdaRKQGIKLGTVSYSSLMGACSNAKNWKKALELYEdiKSIKLRPTVS 720
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 641-702 8.45e-13

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: 63.72  E-value: 8.45e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15231402   641 YKDSVIGKRVAERLMELEPEASGSYVLLHNIYNDSGVNSSAEEVRELMRDRGVKKEPALSWI 702
Cdd:pfam20431   1 YSNVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSWI 62
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 282-605 4.23e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 69.91  E-value: 4.23e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   282 GMEFDIVVRTALLDMYAKNGSLKEAIKLFSLMPSKNV----VTYNAMISGFLQMDeitdeASSEAFKLFMDM--QRRGLE 355
Cdd:PLN03218  502 GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVkpdrVVFNALISACGQSG-----AVDRAFDVLAEMkaETHPID 576

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   356 PSPSTFSVVLKACSAAKTLEYGRQIHALICKNNFQSDEFIGSALIELYALMGSTEDGMQCFASTSKQDIAS----WTSMI 431
Cdd:PLN03218  577 PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPdevfFSALV 656

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   432 DCHVQNEQLESAFDLFRQLFSSHIRPEEYTVSLMMSACADfaalsSGEQiqgyaiKSGIDAFTSVKTSSIsmyaksgnmp 511
Cdd:PLN03218  657 DVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSN-----AKNW------KKALELYEDIKSIKL---------- 715

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   512 lanqvfievqNPDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCHGGLVTQGLKYFQCMKNDyR 591
Cdd:PLN03218  716 ----------RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-G 784

                         330
                  ....*....|....
gi 15231402   592 INPNEKHFTCLVDL 605
Cdd:PLN03218  785 IKPNLVMCRCITGL 798
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 316-368 1.02e-11

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 60.07  E-value: 1.02e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 15231402   316 KNVVTYNAMISGFLQMDEItdeasSEAFKLFMDMQRRGLEPSPSTFSVVLKAC 368
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKV-----EEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 114-377 1.69e-08

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 58.35  E-value: 1.69e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   114 ISFNSLISGYTQMGFYEQAMELFLEAREANLKLDKFTYAGALGFCGERCDLDLGELLHGLVVVNGLS-QQVFLiNVLIDM 192
Cdd:PLN03218  580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKpDEVFF-SALVDV 658

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   193 YSKCGKLDQAMSlfdrcderdqvswnslisgyvrvgaaeeplnLLAKMHRDGLNLTTYALGSVLKACCinlNEGFIEKGm 272
Cdd:PLN03218  659 AGHAGDLDKAFE-------------------------------ILQDARKQGIKLGTVSYSSLMGACS---NAKNWKKA- 703

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15231402   273 aihcytaklgmefdivvrtalLDMYakngslkEAIKLFSLMPSknVVTYNAMISGFLQMDEITdeassEAFKLFMDMQRR 352
Cdd:PLN03218  704 ---------------------LELY-------EDIKSIKLRPT--VSTMNALITALCEGNQLP-----KALEVLSEMKRL 748

                         250       260
                  ....*....|....*....|....*
gi 15231402   353 GLEPSPSTFSVVLKACSAAKTLEYG 377
Cdd:PLN03218  749 GLCPNTITYSILLVASERKDDADVG 773
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 523-572 2.28e-08

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 50.82  E-value: 2.28e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15231402   523 PDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIACCH 572
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 ...
 286-328 1.24e-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: 1.24e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15231402   286 DIVVRTALLDMYAKNGSLKEAIKLFSLMPSK----NVVTYNAMISGF 328
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 423-471 1.08e-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: 45.82  E-value: 1.08e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 15231402   423 DIASWTSMIDCHVQNEQLESAFDLFRQLFSSHIRPEEYTVSLMMSACAD 471
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 111-151 1.49e-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: 42.74  E-value: 1.49e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 15231402   111 RNIISFNSLISGYTQMGFYEQAMELFLEAREANLKLDKFTY 151
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTY 41
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 212-260 4.18e-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: 4.18e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 15231402   212 RDQVSWNSLISGYVRVGAAEEPLNLLAKMHRDGLNLTTYALGSVLKACC 260
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 527-559 4.61e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.90  E-value: 4.61e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 15231402   527 TYSAMISSLAQHGSANEALNIFESMKTHGIKPN 559
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 527-556 1.61e-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: 39.37  E-value: 1.61e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 15231402   527 TYSAMISSLAQHGSANEALNIFESMKTHGI 556
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 319-357 1.84e-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: 1.84e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15231402   319 VTYNAMISGFLQMDEItdeasSEAFKLFMDMQRRGLEPS 357
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRV-----EEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 281-331 3.47e-04

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 39.26  E-value: 3.47e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 15231402   281 LGMEFDIVVRTALLDMYAKNGSLKEAIKLFSLMPSK----NVVTYNAMISGFLQM 331
Cdd:pfam13812   9 DGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKgikpTLDTYNAILGVIGGR 63
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 522-552 4.36e-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: 4.36e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15231402   522 NPDVATYSAMISSLAQHGSANEALNIFESMK 552
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 521-605 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 15231402   521 QNPDvATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFlGVLIACCHGGLVTQGLKYFQCMKNDYRI-------- 592
Cdd:pfam17177   8 QTPE-SELRFQLDKCSKHADATGALALYDAAKAEGVRLAQYHY-NVLLYLCSKAADATDLKPQLAADRGFEVfeamkaqg 85

                          90
                  ....*....|....
gi 15231402   593 -NPNEKHFTCLVDL 605
Cdd:pfam17177  86 vSPNEATYTAVARL 99
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 319-354 7.48e-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: 37.44  E-value: 7.48e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 15231402   319 VTYNAMISGFLQMDEItdeasSEAFKLFMDMQRRGL 354
Cdd:pfam01535   1 VTYNSLISGYCKNGKL-----EEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 114-144 1.26e-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: 36.67  E-value: 1.26e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15231402   114 ISFNSLISGYTQMGFYEQAMELFLEAREANL 144
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 ...
 215-245 1.50e-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: 36.67  E-value: 1.50e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15231402   215 VSWNSLISGYVRVGAAEEPLNLLAKMHRDGL 245
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 ...
 187-226 1.64e-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: 1.64e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 15231402   187 NVLIDMYSKCGKLDQAMSLFDRCDER----DQVSWNSLISGYVR 226
Cdd:pfam13041   7 NTLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 317-368 2.21e-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: 36.95  E-value: 2.21e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 15231402   317 NVVTYNAMISGFLQMDEITDeasseAFKLFMDMQRRGLEPSPSTFSVVLKAC 368
Cdd:pfam13812  14 NVNTYTHLLHAYANVGNLKL-----ALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 114-147 4.41e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.51  E-value: 4.41e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 15231402   114 ISFNSLISGYTQMGFYEQAMELFLEAREANLKLD 147
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 523-570 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
                  ....*....|....*....|....*....|....*....|....*...
gi 15231402   523 PDVATYSAMISSLAQHGSANEALNIFESMKTHGIKPNQQAFLGVLIAC 570
Cdd:pfam13812  13 LNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 291-318 7.04e-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: 34.75  E-value: 7.04e-03
                          10        20
                  ....*....|....*....|....*...
gi 15231402   291 TALLDMYAKNGSLKEAIKLFSLMPSKNV 318
Cdd:pfam01535   4 NSLISGYCKNGKLEEALELFKEMKEKGI 31
 
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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