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Conserved domains on  [gi|2085706631|gb|QZJ84453|]
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pentatricopeptide repeat-containing protein 81, partial [Lippia florida]

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
 7-375 5.35e-75

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 248.61  E-value: 5.35e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631   7 DANKVFKYMRERNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLTLLNDAESYDLARQLHGKIMKHGL 86
Cdd:PLN03077  139 HAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGF 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  87 EYENTVLNATITAYAECGCIEDAKRVFDSSdGYRDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYTLSSVISA 166
Cdd:PLN03077  219 ELDVDVVNALITMYVKCGDVVSARLVFDRM-PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISA 297

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 167 CFEDTQQSLGKSLHGFVIKKGLDQVTQISNALVSMYLKSNSrnVEDALKIFEHINVKDLVSWNTILTGLSQNGLSENALR 246
Cdd:PLN03077  298 CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS--WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE 375

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 247 LFKNIYLDHLVTDQYTFASVLRSCSDLATLHLGRQIHVLVVKSGFEGNEYVASALIFMYSKCGIIEDARESFESSLKETS 326
Cdd:PLN03077  376 TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 2085706631 327 VTWNSIIFAYAQHGQGKIALDLFYLMTeRSIKLDHVTFVAALTACSHIG 375
Cdd:PLN03077  456 ISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIG 503
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 7-375 5.35e-75

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 248.61  E-value: 5.35e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631   7 DANKVFKYMRERNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLTLLNDAESYDLARQLHGKIMKHGL 86
Cdd:PLN03077  139 HAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGF 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  87 EYENTVLNATITAYAECGCIEDAKRVFDSSdGYRDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYTLSSVISA 166
Cdd:PLN03077  219 ELDVDVVNALITMYVKCGDVVSARLVFDRM-PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISA 297

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 167 CFEDTQQSLGKSLHGFVIKKGLDQVTQISNALVSMYLKSNSrnVEDALKIFEHINVKDLVSWNTILTGLSQNGLSENALR 246
Cdd:PLN03077  298 CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS--WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE 375

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 247 LFKNIYLDHLVTDQYTFASVLRSCSDLATLHLGRQIHVLVVKSGFEGNEYVASALIFMYSKCGIIEDARESFESSLKETS 326
Cdd:PLN03077  376 TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 2085706631 327 VTWNSIIFAYAQHGQGKIALDLFYLMTeRSIKLDHVTFVAALTACSHIG 375
Cdd:PLN03077  456 ISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIG 503
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 325-373 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: 45.05  E-value: 1.08e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2085706631 325 TSVTWNSIIFAYAQHGQGKIALDLFYLMTERSIKLDHVTFVAALTACSH 373
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 21-55 1.69e-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: 1.69e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2085706631  21 VSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDD 55
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 7-375 5.35e-75

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 248.61  E-value: 5.35e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631   7 DANKVFKYMRERNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLTLLNDAESYDLARQLHGKIMKHGL 86
Cdd:PLN03077  139 HAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGF 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  87 EYENTVLNATITAYAECGCIEDAKRVFDSSdGYRDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYTLSSVISA 166
Cdd:PLN03077  219 ELDVDVVNALITMYVKCGDVVSARLVFDRM-PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISA 297

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 167 CFEDTQQSLGKSLHGFVIKKGLDQVTQISNALVSMYLKSNSrnVEDALKIFEHINVKDLVSWNTILTGLSQNGLSENALR 246
Cdd:PLN03077  298 CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS--WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE 375

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 247 LFKNIYLDHLVTDQYTFASVLRSCSDLATLHLGRQIHVLVVKSGFEGNEYVASALIFMYSKCGIIEDARESFESSLKETS 326
Cdd:PLN03077  376 TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 2085706631 327 VTWNSIIFAYAQHGQGKIALDLFYLMTeRSIKLDHVTFVAALTACSHIG 375
Cdd:PLN03077  456 ISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIG 503
PLN03077 PLN03077
Protein ECB2; Provisional
 1-375 3.53e-65

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 222.03  E-value: 3.53e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631   1 KCRRVEDANKVFKYMRERNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLT---LLNDAEsydLARQL 77
Cdd:PLN03077  234 KCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISaceLLGDER---LGREM 310

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  78 HGKIMKHGLEYENTVLNATITAYAECGCIEDAKRVFDSSDgYRDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDA 157
Cdd:PLN03077  311 HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE 389

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 158 YTLSSVISACFEDTQQSLGKSLHGFVIKKGLDQVTQISNALVSMYlkSNSRNVEDALKIFEHINVKDLVSWNTILTGLSQ 237
Cdd:PLN03077  390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY--SKCKCIDKALEVFHNIPEKDVISWTSIIAGLRL 467

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 238 NGLSENALRLFKNIYLdHLVTDQYTFASVLRSCSDLATLHLGRQIHVLVVKSGFEGNEYVASALIFMYSKCGIIEDARES 317
Cdd:PLN03077  468 NNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQ 546

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2085706631 318 FESSLKETsVTWNSIIFAYAQHGQGKIALDLFYLMTERSIKLDHVTFVAALTACSHIG 375
Cdd:PLN03077  547 FNSHEKDV-VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSG 603
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 42-375 5.98e-52

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 183.53  E-value: 5.98e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  42 LFVGMEMEG-VRVDDATFAPLLTLLNDAESYDLARQLHGKIMKHGLEYENTVLNATITAYAECGCIEDAKRVFDSSDGyR 120
Cdd:PLN03081  109 LFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE-R 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 121 DLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYTLSSVISACFEDTQQSLGKSLHGFVIKKGLDQVTQISNALVS 200
Cdd:PLN03081  188 NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALID 267

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 201 MYLKSNSrnVEDALKIFEHINVKDLVSWNTILTGLSQNGLSENALRLFKNIYLDHLVTDQYTFASVLRSCSDLATLHLGR 280
Cdd:PLN03081  268 MYSKCGD--IEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK 345

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 281 QIHVLVVKSGFEGNEYVASALIFMYSKCGIIEDARESFESSLKETSVTWNSIIFAYAQHGQGKIALDLFYLMTERSIKLD 360
Cdd:PLN03081  346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN 425

                         330
                  ....*....|....*
gi 2085706631 361 HVTFVAALTACSHIG 375
Cdd:PLN03081  426 HVTFLAVLSACRYSG 440
PLN03077 PLN03077
Protein ECB2; Provisional
 24-375 4.61e-43

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 160.02  E-value: 4.61e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  24 NALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLTLLNDAESYDLARQLHGKIMKHGLEYENTVLNATITAYAEC 103
Cdd:PLN03077   55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRF 134

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 104 GCIEDAKRVFdSSDGYRDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYTLSSVISACFEDTQQSLGKSLHGFV 183
Cdd:PLN03077  135 GELVHAWYVF-GKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHV 213

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 184 IKKGLDQVTQISNALVSMYLKSNsrNVEDALKIFEHINVKDLVSWNTILTGLSQNGLSENALRLFKNIYLDHLVTDQYTF 263
Cdd:PLN03077  214 VRFGFELDVDVVNALITMYVKCG--DVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTI 291

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 264 ASVLRSCSDLATLHLGRQIHVLVVKSGFEGNEYVASALIFMYSKCGIIEDARESFESSLKETSVTWNSIIFAYAQHGQGK 343
Cdd:PLN03077  292 TSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPD 371

                         330       340       350
                  ....*....|....*....|....*....|..
gi 2085706631 344 IALDLFYLMTERSIKLDHVTFVAALTACSHIG 375
Cdd:PLN03077  372 KALETYALMEQDNVSPDEITIASVLSACACLG 403
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 1-271 7.46e-42

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 155.41  E-value: 7.46e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631   1 KCRRVEDANKVFKYMRERNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLTLLNDAESYDLARQLHGK 80
Cdd:PLN03081  170 KCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCC 249

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  81 IMKHGLeYENTVLN-ATITAYAECGCIEDAKRVFDSSDgYRDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYT 159
Cdd:PLN03081  250 VLKTGV-VGDTFVScALIDMYSKCGDIEDARCVFDGMP-EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFT 327

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631 160 LSSVISACFEDTQQSLGKSLHGFVIKKGLDQVTQISNALVSMYLKSNsrNVEDALKIFEHINVKDLVSWNTILTGLSQNG 239
Cdd:PLN03081  328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWG--RMEDARNVFDRMPRKNLISWNALIAGYGNHG 405

                         250       260       270
                  ....*....|....*....|....*....|..
gi 2085706631 240 LSENALRLFKNIYLDHLVTDQYTFASVLRSCS 271
Cdd:PLN03081  406 RGTKAVEMFERMIAEGVAPNHVTFLAVLSACR 437
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 325-373 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: 45.05  E-value: 1.08e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2085706631 325 TSVTWNSIIFAYAQHGQGKIALDLFYLMTERSIKLDHVTFVAALTACSH 373
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 ...
 120-167 2.07e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 44.28  E-value: 2.07e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2085706631 120 RDLVTWNSMLAAYLEHNLEEYGFNIFLEMVKQRLEMDAYTLSSVISAC 167
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 18-58 1.38e-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: 39.27  E-value: 1.38e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2085706631  18 RNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATF 58
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTY 41
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 327-357 3.47e-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: 3.47e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2085706631 327 VTWNSIIFAYAQHGQGKIALDLFYLMTERSI 357
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 ...
 223-272 6.36e-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: 37.34  E-value: 6.36e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2085706631 223 KDLVSWNTILTGLSQNGLSENALRLFKNIYLDHLVTDQYTFASVLRSCSD 272
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 21-51 6.90e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.67  E-value: 6.90e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2085706631  21 VSWNALIGGYAEMGNLERCITLFVGMEMEGV 51
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 208-375 8.60e-04

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 41.40  E-value: 8.60e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  208 RNVEDALKIFEHINVKDLVSWNTILTGLSQNGLSENALRLFKNIYLDHLVTDQYTFASVLRSCSDLATLHLGRQIHVLVV 287
Cdd:PLN03218   420 RAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV 499

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  288 KSGFEGNEYVASALIFMYSKCGIIEDARESF----ESSLKETSVTWNSIIFAYAQHGQGKIALDLFYLMTERS--IKLDH 361
Cdd:PLN03218   500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYgimrSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDH 579

                          170
                   ....*....|....
gi 2085706631  362 VTFVAALTACSHIG 375
Cdd:PLN03218   580 ITVGALMKACANAG 593
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 210-375 1.56e-03

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 40.63  E-value: 1.56e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  210 VEDALKIFEHINVKDLVSWNTI-----LTGLSQNGLSENALRLFKNIyldhLVTDQYTFASVLRSCSDLATLHLGRQIHV 284
Cdd:PLN03218   386 IKDCIDLLEDMEKRGLLDMDKIyhakfFKACKKQRAVKEAFRFAKLI----RNPTLSTFNMLMSVCASSQDIDGALRVLR 461

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  285 LVVKSGFEGNEYVASALIFMYSKCGIIEDARESF---ESSLKETSV-TWNSIIFAYAQHGQGKIALDLFYLMTERSIKLD 360
Cdd:PLN03218   462 LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFhemVNAGVEANVhTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

                          170
                   ....*....|....*
gi 2085706631  361 HVTFVAALTACSHIG 375
Cdd:PLN03218   542 RVVFNALISACGQSG 556
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 21-55 1.69e-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: 1.69e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2085706631  21 VSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDD 55
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 142-370 2.10e-03

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 40.25  E-value: 2.10e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  142 FNIFLEMVKQRLEMDAYTLSSVISACFEDTQQSLGKSLHGFVIKKGL--DQVtqISNALVSMYLKSNSrnVEDALKIFEH 219
Cdd:PLN03218   492 FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVkpDRV--VFNALISACGQSGA--VDRAFDVLAE 567

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  220 INVK------DLVSWNTILTGLSQNGLSENALRLFKNIYLDHLVTDQYTFASVLRSCSDLATLHLGRQIHVLVVKSGFEG 293
Cdd:PLN03218   568 MKAEthpidpDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKP 647

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  294 NEYVASALIFMYSKCG-------IIEDAResfESSLKETSVTWNSIIFAYAQHGQGKIALDLFYLMteRSIKLDHV--TF 364
Cdd:PLN03218   648 DEVFFSALVDVAGHAGdldkafeILQDAR---KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI--KSIKLRPTvsTM 722


                   ....*.
gi 2085706631  365 VAALTA 370
Cdd:PLN03218   723 NALITA 728
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 327-360 4.14e-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: 34.74  E-value: 4.14e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2085706631 327 VTWNSIIFAYAQHGQGKIALDLFYLMTERSIKLD 360
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 11-123 8.19e-03

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: 37.38  E-value: 8.19e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085706631  11 VFKYMR----ERNAVSWNALIGGYAEMGNLERCITLFVGMEMEGVRVDDATFAPLLTLLNDAESYDLARQLHGKIMKHGL 86
Cdd:pfam17177  77 VFEAMKaqgvSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGV 156

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2085706631  87 EYENTVLNATITAYAECGcieDAKRVFDSSDGYRDLV 123
Cdd:pfam17177 157 ELEEPELAALLKVSAKAG---RADKVYAYLHRLRDAV 190
 
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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