NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|75273968|sp|Q9LSF5|]
View 

RecName: Full=Pentatricopeptide repeat-containing protein At3g25210, mitochondrial; Flags: Precursor

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000225)

pentatricopeptide repeat (PPR)-containing protein may form anti-parallel alpha helices and bind single-stranded RNA in a sequence-specific and modular manner

Gene Ontology:  GO:0003723|GO:0009451
PubMed:  24471833|19004664

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 214-349 5.34e-13

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 70.68  E-value: 5.34e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   214 MKSNGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNG 293
Cdd:PLN03218  463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR 542

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 75273968   294 SCYMVLICSLSMERRLDEAVEVVYDMLANS--LSPDMLTYNTVLTELCRGGRGSEALE 349
Cdd:PLN03218  543 VVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKE 600
PLN03081 super family cl33631
pentatricopeptide (PPR) repeat-containing protein; Provisional
 48-358 1.99e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


The actual alignment was detected with superfamily member PLN03081:

Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 43.32  E-value: 1.99e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   48 SPSRIRTRTPLETQFETwIQNLKPGFTNSDVVIALRAQSDPDLALDIFRWTAQQRGYKHNHEAYHTMIKQAITGKRNNFV 127
Cdd:PLN03081  64 EPIRIEVSESKDARLDD-TQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCV 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  128 ETLIEEVIAGACEMSVPLYNCIIR--FCCGRKFLFNRAFD--------VYNKMLrsdDSKPDLETYTLLLSSLLKRFNKL 197
Cdd:PLN03081 143 KAVYWHVESSGFEPDQYMMNRVLLmhVKCGMLIDARRLFDempernlaSWGTII---GGLVDAGNYREAFALFREMWEDG 219

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  198 NVC--YVYLHAVRSLT--------KQMKS----NGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMalygSEPNAYTYSY 263
Cdd:PLN03081 220 SDAepRTFVVMLRASAglgsaragQQLHCcvlkTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----PEKTTVAWNS 295

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  264 LVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSLSMERRLDEAVEVVYDMLANSLSPDMLTyNTVLTEL-CRGG 342
Cdd:PLN03081 296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA-NTALVDLySKWG 374

                        330
                 ....*....|....*.
gi 75273968  343 RGSEALEMVEEWKKRD 358
Cdd:PLN03081 375 RMEDARNVFDRMPRKN 390
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 214-349 5.34e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 70.68  E-value: 5.34e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   214 MKSNGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNG 293
Cdd:PLN03218  463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR 542

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 75273968   294 SCYMVLICSLSMERRLDEAVEVVYDMLANS--LSPDMLTYNTVLTELCRGGRGSEALE 349
Cdd:PLN03218  543 VVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKE 600
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 221-269 7.64e-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: 56.99  E-value: 7.64e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 75273968   221 PDTFVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVC 269
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 48-358 1.99e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 43.32  E-value: 1.99e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   48 SPSRIRTRTPLETQFETwIQNLKPGFTNSDVVIALRAQSDPDLALDIFRWTAQQRGYKHNHEAYHTMIKQAITGKRNNFV 127
Cdd:PLN03081  64 EPIRIEVSESKDARLDD-TQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCV 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  128 ETLIEEVIAGACEMSVPLYNCIIR--FCCGRKFLFNRAFD--------VYNKMLrsdDSKPDLETYTLLLSSLLKRFNKL 197
Cdd:PLN03081 143 KAVYWHVESSGFEPDQYMMNRVLLmhVKCGMLIDARRLFDempernlaSWGTII---GGLVDAGNYREAFALFREMWEDG 219

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  198 NVC--YVYLHAVRSLT--------KQMKS----NGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMalygSEPNAYTYSY 263
Cdd:PLN03081 220 SDAepRTFVVMLRASAglgsaragQQLHCcvlkTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----PEKTTVAWNS 295

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  264 LVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSLSMERRLDEAVEVVYDMLANSLSPDMLTyNTVLTEL-CRGG 342
Cdd:PLN03081 296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA-NTALVDLySKWG 374

                        330
                 ....*....|....*.
gi 75273968  343 RGSEALEMVEEWKKRD 358
Cdd:PLN03081 375 RMEDARNVFDRMPRKN 390
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 259-292 8.41e-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: 36.66  E-value: 8.41e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 75273968   259 YTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPN 292
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 146-184 9.39e-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: 33.88  E-value: 9.39e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 75273968   146 YNCIIRFCCgRKFLFNRAFDVYNKMLRSDDsKPDLETYT 184
Cdd:pfam13041   6 YNTLINGYC-KKGKVEEAFKLFNEMKKRGV-KPNVYTYT 42
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 214-349 5.34e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 70.68  E-value: 5.34e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   214 MKSNGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNG 293
Cdd:PLN03218  463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR 542

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 75273968   294 SCYMVLICSLSMERRLDEAVEVVYDMLANS--LSPDMLTYNTVLTELCRGGRGSEALE 349
Cdd:PLN03218  543 VVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKE 600
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 146-335 1.21e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 69.52  E-value: 1.21e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   146 YNCIIRFCCgRKFLFNRAFDVYnKMLRSDDSKPDLETYTLLLSSLLKRFNKLNVCYVYlhavrsltKQMKSNGVIPDTFV 225
Cdd:PLN03218  582 VGALMKACA-NAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIY--------DDMKKKGVKPDEVF 651

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   226 LNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSLSM 305
Cdd:PLN03218  652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

                         170       180       190
                  ....*....|....*....|....*....|
gi 75273968   306 ERRLDEAVEVVYDMLANSLSPDMLTYNTVL 335
Cdd:PLN03218  732 GNQLPKALEVLSEMKRLGLCPNTITYSILL 761
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 87-355 4.16e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 67.98  E-value: 4.16e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968    87 DPDLALDIFRwTAQQRGYKHNHEAYHTMIKQ-AITGKRNNFVETLIEEVIAGAcEMSVPLYNCIIRfCCGRKFLFNRAFD 165
Cdd:PLN03218  452 DIDGALRVLR-LVQEAGLKADCKLYTTLISTcAKSGKVDAMFEVFHEMVNAGV-EANVHTFGALID-GCARAGQVAKAFG 528

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   166 VYNkMLRSDDSKPDletytlllssllkR--FNKL-NVCYVYLHAVRS--LTKQMKSNG--VIPDTFVLNMIIKAYAKCLE 238
Cdd:PLN03218  529 AYG-IMRSKNVKPD-------------RvvFNALiSACGQSGAVDRAfdVLAEMKAEThpIDPDHITVGALMKACANAGQ 594

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   239 VDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSLSMERRLDEAVEVVYD 318
Cdd:PLN03218  595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 75273968   319 MLAN-----------------------------------SLSPDMLTYNTVLTELCRGGRGSEALEMVEEWK 355
Cdd:PLN03218  675 ARKQgiklgtvsysslmgacsnaknwkkalelyediksiKLRPTVSTMNALITALCEGNQLPKALEVLSEMK 746
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 221-269 7.64e-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: 56.99  E-value: 7.64e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 75273968   221 PDTFVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVC 269
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 291-340 8.50e-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: 42.35  E-value: 8.50e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 75273968   291 PNGSCYMVLICSLSMERRLDEAVEVVYDMLANSLSPDMLTYNTVLTELCR 340
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 209-354 1.30e-05

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: 45.85  E-value: 1.30e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   209 SLTKQMKSNGVIPDTFVLNMII----KAYA-----KCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLG 279
Cdd:pfam17177  32 ALYDAAKAEGVRLAQYHYNVLLylcsKAADatdlkPQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFD 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   280 FYKEMQVKGMVPNGSCYMVLICSLSMERRLDEAVEVVYDMLANSLSPDMLTYNTVLTELCRGGRGS-------------- 345
Cdd:pfam17177 112 LVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADkvyaylhrlrdavr 191

                         170
                  ....*....|...
gi 75273968   346 ----EALEMVEEW 354
Cdd:pfam17177 192 qvseSTAGVLEEW 204
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 217-249 5.97e-05

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 39.64  E-value: 5.97e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 75273968   217 NGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEM 249
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 206-284 7.62e-05

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 44.86  E-value: 7.62e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 75273968  206 AVRSLTKQMKSNGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMalygSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEM 284
Cdd:PLN03081 141 CVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM----PERNLASWGTIIGGLVDAGNYREAFALFREM 215
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 256-303 1.46e-04

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 38.88  E-value: 1.46e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 75273968   256 PNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSL 303
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 324-355 1.56e-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: 1.56e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 75273968   324 LSPDMLTYNTVLTELCRGGRGSEALEMVEEWK 355
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PLN03077 PLN03077
Protein ECB2; Provisional
 154-304 1.98e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 43.68  E-value: 1.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  154 CGRKFLFNRAFDVYnKMLRSDDSKPDlETYTLLLSSLLKRFNKLNVCyVYLHavrsltKQMKSNGVIPDTFVLNMIIKAY 233
Cdd:PLN03077 364 YEKNGLPDKALETY-ALMEQDNVSPD-EITIASVLSACACLGDLDVG-VKLH------ELAERKGLISYVVVANALIEMY 434

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 75273968  234 AKCLEVDEAIRVFKEMAlygsEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVKgMVPNGscyMVLICSLS 304
Cdd:PLN03077 435 SKCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNS---VTLIAALS 497
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 48-358 1.99e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 43.32  E-value: 1.99e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   48 SPSRIRTRTPLETQFETwIQNLKPGFTNSDVVIALRAQSDPDLALDIFRWTAQQRGYKHNHEAYHTMIKQAITGKRNNFV 127
Cdd:PLN03081  64 EPIRIEVSESKDARLDD-TQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCV 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  128 ETLIEEVIAGACEMSVPLYNCIIR--FCCGRKFLFNRAFD--------VYNKMLrsdDSKPDLETYTLLLSSLLKRFNKL 197
Cdd:PLN03081 143 KAVYWHVESSGFEPDQYMMNRVLLmhVKCGMLIDARRLFDempernlaSWGTII---GGLVDAGNYREAFALFREMWEDG 219

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  198 NVC--YVYLHAVRSLT--------KQMKS----NGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMalygSEPNAYTYSY 263
Cdd:PLN03081 220 SDAepRTFVVMLRASAglgsaragQQLHCcvlkTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----PEKTTVAWNS 295

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  264 LVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSLSMERRLDEAVEVVYDMLANSLSPDMLTyNTVLTEL-CRGG 342
Cdd:PLN03081 296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA-NTALVDLySKWG 374

                        330
                 ....*....|....*.
gi 75273968  343 RGSEALEMVEEWKKRD 358
Cdd:PLN03081 375 RMEDARNVFDRMPRKN 390
PLN03077 PLN03077
Protein ECB2; Provisional
 202-353 2.68e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 42.91  E-value: 2.68e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  202 VYLHAVRSltkqmksnGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEmalygSEPNAYTYSYLVKGVCEKGRVGQGLGFY 281
Cdd:PLN03077 511 IHAHVLRT--------GIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-----HEKDVVSWNILLTGYVAHGKGSMAVELF 577

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 75273968  282 KEMQVKGMVPNGSCYMVLICSLSMERRLDEAVEVVYDMLAN-SLSPDMLTYNTVLTELCRGGRGSEALEMVEE 353
Cdd:PLN03077 578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINK 650
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 242-353 4.94e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.84  E-value: 4.94e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   242 AIRVFKEMALYGSEPNAYTYSYLVKgVCEKGRVGQGL--------GF--YKEMQVKGMVPNGSCYMVLICSLSMERRLDE 311
Cdd:pfam17177  30 ALALYDAAKAEGVRLAQYHYNVLLY-LCSKAADATDLkpqlaadrGFevFEAMKAQGVSPNEATYTAVARLAAAKGDGDL 108

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 75273968   312 AVEVVYDMLANSLSPDMLTYNTVLTELCRGGRGSEALEmVEE 353
Cdd:pfam17177 109 AFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYE-VEE 149
PLN03077 PLN03077
Protein ECB2; Provisional
 227-340 5.42e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 42.14  E-value: 5.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  227 NMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEMQVK-GMVPNGSCYMVLICSLSM 305
Cdd:PLN03077 558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGR 637

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 75273968  306 ERRLDEAVEVVYDMlanSLSPDMLTYNTVLTElCR 340
Cdd:PLN03077 638 AGKLTEAYNFINKM---PITPDPAVWGALLNA-CR 668
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 204-300 5.56e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.84  E-value: 5.56e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   204 LHAVRSLTKQMKSNGVIPDTFVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKE 283
Cdd:pfam17177  71 ADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEH 150

                          90
                  ....*....|....*..
gi 75273968   284 MQVKGMVPNGSCYMVLI 300
Cdd:pfam17177 151 MLAHGVELEEPELAALL 167
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 259-292 8.41e-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: 36.66  E-value: 8.41e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 75273968   259 YTYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPN 292
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 224-258 2.46e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.12  E-value: 2.46e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 75273968   224 FVLNMIIKAYAKCLEVDEAIRVFKEMALYGSEPNA 258
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 253-284 3.82e-03

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 34.63  E-value: 3.82e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 75273968   253 GSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEM 284
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 326-371 5.19e-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: 34.65  E-value: 5.19e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 75273968   326 PDMLTYNTVLTELCRGGRGSEALEMVEEWKKRDPVMGERNYRTLMD 371
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 295-327 6.32e-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: 33.97  E-value: 6.32e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 75273968   295 CYMVLICSLSMERRLDEAVEVVYDMLANSLSPD 327
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 227-318 6.80e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 38.70  E-value: 6.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968  227 NMIIKAYAKCLEVDEAIRVFKEMALYGSEPNAYTYSYLVKGVCEKGRVGQGLGFYKEM-QVKGMVPNGSCYMVLICSLSM 305
Cdd:PLN03081 395 NALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMsENHRIKPRAMHYACMIELLGR 474

                         90
                 ....*....|...
gi 75273968  306 ERRLDEAVEVVYD 318
Cdd:PLN03081 475 EGLLDEAYAMIRR 487
RPM2 pfam08579
Mitochondrial ribonuclease P subunit (RPM2); Ribonuclease P (RNase P) generates mature tRNA ...
 260-341 7.85e-03

Mitochondrial ribonuclease P subunit (RPM2); Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. RPM2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as transcriptional activator in the nucleus where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components.


Pssm-ID: 369970 [Multi-domain]  Cd Length: 119  Bit Score: 35.89  E-value: 7.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75273968   260 TYSYLVKGVCEKGRVGQGLGFYKEMQVKGMVPNGSCYMVLICSLSmERRLD---------EAVEVVYDMLANSLSPDMLT 330
Cdd:pfam08579  27 TQIKEIEACYEKKNYNKINALYQSLKRNGIVPPLELFEQVLKSIC-RRDLDnndidnkmfELLTCYQDIIVNKLKPNKEI 105

                          90
                  ....*....|.
gi 75273968   331 YNTVLTELCRG 341
Cdd:pfam08579 106 YNIVLGSLLKG 116
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 146-184 9.39e-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: 33.88  E-value: 9.39e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 75273968   146 YNCIIRFCCgRKFLFNRAFDVYNKMLRSDDsKPDLETYT 184
Cdd:pfam13041   6 YNTLINGYC-KKGKVEEAFKLFNEMKKRGV-KPNVYTYT 42
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH