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Conserved domains on  [gi|238481201|ref|NP_001154694|]
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Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03085 super family cl29188
nucleobase:cation symporter-1; Provisional
 20-105 2.48e-34

nucleobase:cation symporter-1; Provisional


The actual alignment was detected with superfamily member PLN03085:

Pssm-ID: 215566  Cd Length: 221  Bit Score: 125.87  E-value: 2.48e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  20 LSLGNRFSASDITSSAINGGEFSDFVRAFAFYSSSSSWWSSPDDLTASSKRKEKKTTERFSAVIDAVHDRKLPPELRGRR 99
Cdd:PLN03085   1 LALGGAASRRLIRKSALNQGHLLYKTRCASFSSASSSWWSSSPDLTASSKRKEKKAPHRLSAVIDAVNDRKLPPELRGRR 80


                 ....*.
gi 238481201 100 DFVRSK 105
Cdd:PLN03085  81 NSVRSE 86
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 230-278 7.56e-13

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: 62.38  E-value: 7.56e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 238481201  230 PDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLA 278
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03081 super family cl33631
pentatricopeptide (PPR) repeat-containing protein; Provisional
 195-322 1.69e-09

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: 59.11  E-value: 1.69e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 195 GFTNEAV---KMFDALSKDGRTHEALELFSQIKDKNrmpdVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYS 271
Cdd:PLN03081 355 GFPLDIVantALVDLYSKWGRMEDARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 238481201 272 VLIKGLAADGKTHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESA 322
Cdd:PLN03081 431 AVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481
 
Name Accession Description Interval E-value
PLN03085 PLN03085
nucleobase:cation symporter-1; Provisional
 20-105 2.48e-34

nucleobase:cation symporter-1; Provisional


Pssm-ID: 215566  Cd Length: 221  Bit Score: 125.87  E-value: 2.48e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  20 LSLGNRFSASDITSSAINGGEFSDFVRAFAFYSSSSSWWSSPDDLTASSKRKEKKTTERFSAVIDAVHDRKLPPELRGRR 99
Cdd:PLN03085   1 LALGGAASRRLIRKSALNQGHLLYKTRCASFSSASSSWWSSSPDLTASSKRKEKKAPHRLSAVIDAVNDRKLPPELRGRR 80


                 ....*.
gi 238481201 100 DFVRSK 105
Cdd:PLN03085  81 NSVRSE 86
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 230-278 7.56e-13

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: 62.38  E-value: 7.56e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 238481201  230 PDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLA 278
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 195-322 1.69e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 59.11  E-value: 1.69e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 195 GFTNEAV---KMFDALSKDGRTHEALELFSQIKDKNrmpdVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYS 271
Cdd:PLN03081 355 GFPLDIVantALVDLYSKWGRMEDARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 238481201 272 VLIKGLAADGKTHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESA 322
Cdd:PLN03081 431 AVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 265-315 2.57e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.59  E-value: 2.57e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 238481201  265 PNAYTYSVLIKGLAADGKtHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVR 315
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGK-VEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 305-338 4.74e-06

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: 42.83  E-value: 4.74e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 238481201  305 TYTAVFEAFVREGKEESARELLQEMKGKGFVPDE 338
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 233-267 9.06e-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: 36.28  E-value: 9.06e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 238481201  233 VAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNA 267
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03085 PLN03085
nucleobase:cation symporter-1; Provisional
 20-105 2.48e-34

nucleobase:cation symporter-1; Provisional


Pssm-ID: 215566  Cd Length: 221  Bit Score: 125.87  E-value: 2.48e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  20 LSLGNRFSASDITSSAINGGEFSDFVRAFAFYSSSSSWWSSPDDLTASSKRKEKKTTERFSAVIDAVHDRKLPPELRGRR 99
Cdd:PLN03085   1 LALGGAASRRLIRKSALNQGHLLYKTRCASFSSASSSWWSSSPDLTASSKRKEKKAPHRLSAVIDAVNDRKLPPELRGRR 80


                 ....*.
gi 238481201 100 DFVRSK 105
Cdd:PLN03085  81 NSVRSE 86
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 230-278 7.56e-13

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: 62.38  E-value: 7.56e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 238481201  230 PDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLA 278
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 195-322 1.69e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 59.11  E-value: 1.69e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 195 GFTNEAV---KMFDALSKDGRTHEALELFSQIKDKNrmpdVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYS 271
Cdd:PLN03081 355 GFPLDIVantALVDLYSKWGRMEDARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 238481201 272 VLIKGLAADGKTHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESA 322
Cdd:PLN03081 431 AVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 187-337 7.62e-09

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 57.58  E-value: 7.62e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  187 IFHKMRTEGFTNEAV---KMFDALSKDGRTHEALELFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLKVFMRMLASGV 263
Cdd:PLN03218  636 IYDDMKKKGVKPDEVffsALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL 715

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 238481201  264 SPNAYTYSVLIKGLAaDGKTHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFVPD 337
Cdd:PLN03218  716 RPTVSTMNALITALC-EGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 219-275 1.32e-08

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: 50.82  E-value: 1.32e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 238481201  219 LFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIK 275
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 265-315 2.57e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.59  E-value: 2.57e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 238481201  265 PNAYTYSVLIKGLAADGKtHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVR 315
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGK-VEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 186-338 6.71e-07

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 51.42  E-value: 6.71e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  186 EIFHKMRTEGFtnEA-VKMFDAL----SKDGRTHEALELFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLKVFMRMLA 260
Cdd:PLN03218  493 EVFHEMVNAGV--EAnVHTFGALidgcARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKA 570

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  261 SG--VSPNAYTYSVLIKGLAADGKTHKdAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFVPDE 338
Cdd:PLN03218  571 EThpIDPDHITVGALMKACANAGQVDR-AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649
PLN03077 PLN03077
Protein ECB2; Provisional
 189-329 1.04e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 50.62  E-value: 1.04e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 189 HKMRT----EGFTNEAvkMFDALSKDGRTHEALELFSQIKDknrmpDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVS 264
Cdd:PLN03077 514 HVLRTgigfDGFLPNA--LLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN 586

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 238481201 265 PNAYTYSVLIKGLAADGKThKDAKKYLLEMMGN-GMSPNAATYTAVFEAFVREGKEESARELLQEM 329
Cdd:PLN03077 587 PDEVTFISLLCACSRSGMV-TQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 216-330 1.40e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 50.26  E-value: 1.40e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  216 ALELFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLAADGKTHKDAKKYLLeMM 295
Cdd:PLN03218  456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI-MR 534

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 238481201  296 GNGMSPNAATYTAVFEAFVREGKEESARELLQEMK 330
Cdd:PLN03218  535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK 569
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 301-338 1.72e-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: 1.72e-06
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 238481201  301 PNAATYTAVFEAFVREGKEESARELLQEMKGKGFVPDE 338
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNV 38
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 186-302 2.00e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 49.88  E-value: 2.00e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  186 EIFHKMRTEGFTNEAV---KMFDALSKDGRTHEALELFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLKVFMRMLASG 262
Cdd:PLN03218  670 EILQDARKQGIKLGTVsysSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 238481201  263 VSPNAYTYSVLIkgLAADGKTHKDAKKYLLEMM-GNGMSPN 302
Cdd:PLN03218  750 LCPNTITYSILL--VASERKDDADVGLDLLSQAkEDGIKPN 788
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 305-338 4.74e-06

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: 42.83  E-value: 4.74e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 238481201  305 TYTAVFEAFVREGKEESARELLQEMKGKGFVPDE 338
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 231-329 5.71e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 48.33  E-value: 5.71e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 231 DVVAHTAIVEAYANAGQAKETLKVFMRMlasgvsP--NAYTYSVLIKGLAADGKThKDAKKYLLEMMGNGMSPNAATYTA 308
Cdd:PLN03081 359 DIVANTALVDLYSKWGRMEDARNVFDRM------PrkNLISWNALIAGYGNHGRG-TKAVEMFERMIAEGVAPNHVTFLA 431

                         90       100
                 ....*....|....*....|.
gi 238481201 309 VFEAFVREGKEESARELLQEM 329
Cdd:PLN03081 432 VLSACRYSGLSEQGWEIFQSM 452
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 206-337 7.63e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 47.95  E-value: 7.63e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  206 ALSKDGRTHEALELFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIkGLAADGKTHK 285
Cdd:PLN03218  623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM-GACSNAKNWK 701

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 238481201  286 DAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFVPD 337
Cdd:PLN03218  702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 200-335 9.25e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 47.56  E-value: 9.25e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 200 AVKMFDALSKDGRTHEALELFSQIKDKNrmpdVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLAA 279
Cdd:PLN03081 262 SCALIDMYSKCGDIEDARCVFDGMPEKT----TVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR 337

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 238481201 280 DGKThKDAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFV 335
Cdd:PLN03081 338 LALL-EHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLI 392
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 208-338 2.42e-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: 44.69  E-value: 2.42e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  208 SKDGRTHEALELFSQIKDKNRMPDVVAHTAIVEAYANAGQAKETLK---------VFMRMLASGVSPNAYTYSVLIKGLA 278
Cdd:pfam17177  22 SKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPqlaadrgfeVFEAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201  279 ADGKTHKdAKKYLLEMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFVPDE 338
Cdd:pfam17177 102 AKGDGDL-AFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEE 160
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 305-334 1.71e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 38.22  E-value: 1.71e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 238481201  305 TYTAVFEAFVREGKEESARELLQEMKGKGF 334
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 293-336 4.26e-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: 38.11  E-value: 4.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 238481201  293 EMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFVP 336
Cdd:pfam13812   5 EMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKP 48
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 253-316 4.94e-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: 38.11  E-value: 4.94e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 238481201  253 KVFMRMLASGVSPNAYTYSVLIKGLAADGKtHKDAKKYLLEMMGNGMSPNAATYTAVFEAFVRE 316
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGN-LKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PLN03077 PLN03077
Protein ECB2; Provisional
 197-347 8.05e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 41.37  E-value: 8.05e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 197 TNEAVKMFdalSKDGRTHEALELFSQIKDKnrmpDVVAHTAIVEAYANAGQAKETLKVFMRMLASgVSPNAYTYSVLIKG 276
Cdd:PLN03077 427 ANALIEMY---SKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSA 498

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 277 LAADG--KTHKDAKKYLLE--MMGNGMSPNA-------------------------ATYTAVFEAFVREGKEESARELLQ 327
Cdd:PLN03077 499 CARIGalMCGKEIHAHVLRtgIGFDGFLPNAlldlyvrcgrmnyawnqfnshekdvVSWNILLTGYVAHGKGSMAVELFN 578

                        170       180       190
                 ....*....|....*....|....*....|...
gi 238481201 328 EMKGKGFVPDE-------------KAVREALEY 347
Cdd:PLN03077 579 RMVESGVNPDEvtfisllcacsrsGMVTQGLEY 611
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 233-267 9.06e-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: 36.28  E-value: 9.06e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 238481201  233 VAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNA 267
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 268-303 9.15e-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: 36.28  E-value: 9.15e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 238481201  268 YTYSVLIKGLAADGKTHKdAKKYLLEMMGNGMSPNA 303
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEE-ALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 262-295 1.31e-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: 35.78  E-value: 1.31e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 238481201  262 GVSPNAYTYSVLIKGLAADGKTHkDAKKyLLEMM 295
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVD-EAFE-LLDEM 33
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 297-330 1.97e-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: 35.40  E-value: 1.97e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 238481201  297 NGMSPNAATYTAVFEAFVREGKEESARELLQEMK 330
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 205-333 2.92e-03

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 39.47  E-value: 2.92e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 238481201 205 DALSKDGRTHEALELFsQIKDKNRMPDVVAHT--AIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLAADGK 282
Cdd:PLN03081  95 EKLVACGRHREALELF-EILEAGCPFTLPASTydALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGM 173

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 238481201 283 ThKDAKKYLLEMMGNgmspNAATYTAVFEAFVREGKEESARELLQEMKGKG 333
Cdd:PLN03081 174 L-IDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDG 219
 
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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