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Conserved domains on  [gi|42570837|ref|NP_973492|]
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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
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
82-124 9.31e-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.


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.35  E-value: 9.31e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 42570837    82 YNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAY 124
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03081 super family cl33631
pentatricopeptide (PPR) repeat-containing protein; Provisional
63-317 6.60e-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: 41.78  E-value: 6.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837   63 AEQVFQEMKElgflKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAYSVVSDVEGMEKfLMRCEA 142
Cdd:PLN03081 177 ARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ-LHCCVL 251
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837  143 DQGLHLDwrTYADTA--NGYIKAGLTEKALemlRKSEQMvnAQKRKHAYEVLMSFYGAAGKKEEVYrlwSLYKEL----- 215
Cdd:PLN03081 252 KTGVVGD--TFVSCAliDMYSKCGDIEDAR---CVFDGM--PEKTTVAWNSMLAGYALHGYSEEAL---CLYYEMrdsgv 321
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837  216 --DGFYNTGYISVISALLKMDDIEEVEKIMeeWEAGHSLfDIRIPHLLITGYCKKGMMEKAEEVVNILVQKwrveDTSTW 293
Cdd:PLN03081 322 siDQFTFSIMIRIFSRLALLEHAKQAHAGL--IRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISW 394
                        250       260
                 ....*....|....*....|....
gi 42570837  294 ERLALGYKMAGKMEKAVEKWKRAI 317
Cdd:PLN03081 395 NALIAGYGNHGRGTKAVEMFERMI 418
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
45-75 4.23e-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: 4.23e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 42570837    45 HLYGALLNCYASKKVLHKAEQVFQEMKELGF 75
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31
 
Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
82-124 9.31e-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: 9.31e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 42570837    82 YNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAY 124
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
63-317 6.60e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 41.78  E-value: 6.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837   63 AEQVFQEMKElgflKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAYSVVSDVEGMEKfLMRCEA 142
Cdd:PLN03081 177 ARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ-LHCCVL 251
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837  143 DQGLHLDwrTYADTA--NGYIKAGLTEKALemlRKSEQMvnAQKRKHAYEVLMSFYGAAGKKEEVYrlwSLYKEL----- 215
Cdd:PLN03081 252 KTGVVGD--TFVSCAliDMYSKCGDIEDAR---CVFDGM--PEKTTVAWNSMLAGYALHGYSEEAL---CLYYEMrdsgv 321
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837  216 --DGFYNTGYISVISALLKMDDIEEVEKIMeeWEAGHSLfDIRIPHLLITGYCKKGMMEKAEEVVNILVQKwrveDTSTW 293
Cdd:PLN03081 322 siDQFTFSIMIRIFSRLALLEHAKQAHAGL--IRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISW 394
                        250       260
                 ....*....|....*....|....
gi 42570837  294 ERLALGYKMAGKMEKAVEKWKRAI 317
Cdd:PLN03081 395 NALIAGYGNHGRGTKAVEMFERMI 418
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
82-114 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: 35.89  E-value: 1.69e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42570837    82 YNVMLNLYVRTGKYTMVEKLLREMEDETVKPDI 114
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
45-75 4.23e-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: 4.23e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 42570837    45 HLYGALLNCYASKKVLHKAEQVFQEMKELGF 75
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
39-90 8.93e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 34.64  E-value: 8.93e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837    39 MERRNYHL----YGALLNCYASKKVLHKAEQVFQEMKElgflKGCLP----YNVMLNLYV 90
Cdd:pfam13812   6 MVRDGIQLnvntYTHLLHAYANVGNLKLALEIFERMKK----KGIKPtldtYNAILGVIG 61
 
Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
82-124 9.31e-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: 9.31e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 42570837    82 YNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAY 124
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
63-317 6.60e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 41.78  E-value: 6.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837   63 AEQVFQEMKElgflKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAYSVVSDVEGMEKfLMRCEA 142
Cdd:PLN03081 177 ARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ-LHCCVL 251
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837  143 DQGLHLDwrTYADTA--NGYIKAGLTEKALemlRKSEQMvnAQKRKHAYEVLMSFYGAAGKKEEVYrlwSLYKEL----- 215
Cdd:PLN03081 252 KTGVVGD--TFVSCAliDMYSKCGDIEDAR---CVFDGM--PEKTTVAWNSMLAGYALHGYSEEAL---CLYYEMrdsgv 321
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837  216 --DGFYNTGYISVISALLKMDDIEEVEKIMeeWEAGHSLfDIRIPHLLITGYCKKGMMEKAEEVVNILVQKwrveDTSTW 293
Cdd:PLN03081 322 siDQFTFSIMIRIFSRLALLEHAKQAHAGL--IRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISW 394
                        250       260
                 ....*....|....*....|....
gi 42570837  294 ERLALGYKMAGKMEKAVEKWKRAI 317
Cdd:PLN03081 395 NALIAGYGNHGRGTKAVEMFERMI 418
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
66-124 1.05e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 36.95  E-value: 1.05e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 42570837    66 VFQEMKELGFLKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAY 124
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
82-114 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: 35.89  E-value: 1.69e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42570837    82 YNVMLNLYVRTGKYTMVEKLLREMEDETVKPDI 114
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03077 PLN03077
Protein ECB2; Provisional
15-113 1.97e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 40.22  E-value: 1.97e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837   15 AIRLDLIAKVGGLGEAEKFFETIPMeRRNYHLYGALLN-CYASKKVL--HKAEQVFQEMKelgflKGCLPYNVML-NLYV 90
Cdd:PLN03077 629 ACVVDLLGRAGKLTEAYNFINKMPI-TPDPAVWGALLNaCRIHRHVElgELAAQHIFELD-----PNSVGYYILLcNLYA 702
                         90       100
                 ....*....|....*....|...
gi 42570837   91 RTGKYTMVEKLLREMEDETVKPD 113
Cdd:PLN03077 703 DAGKWDEVARVRKTMRENGLTVD 725
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
45-75 4.23e-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: 4.23e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 42570837    45 HLYGALLNCYASKKVLHKAEQVFQEMKELGF 75
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
39-90 8.93e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 34.64  E-value: 8.93e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 42570837    39 MERRNYHL----YGALLNCYASKKVLHKAEQVFQEMKElgflKGCLP----YNVMLNLYV 90
Cdd:pfam13812   6 MVRDGIQLnvntYTHLLHAYANVGNLKLALEIFERMKK----KGIKPtldtYNAILGVIG 61
 
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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