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Conserved domains on  [gi|1063687987|ref|NP_001319132|]
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Class I peptide chain release factor [Arabidopsis thaliana]

Protein Classification

peptide chain release factor family protein( domain architecture ID 10452619)

peptide chain release factor family protein such as mitochondrial translation release factor in rescue (MTRFR) that is part of a mitoribosome-associated quality control pathway that prevents aberrant translation by responding to interruptions during elongation

CATH:  3.30.160.20
Gene Ontology:  GO:0003747
PubMed:  1408743

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RF-1 pfam00472
RF-1 domain; This domain is found in peptide chain release factors such as RF-1 and RF-2, and ...
 91-155 2.92e-27

RF-1 domain; This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. The domain contains a highly conserved motif GGQ, where the glutamine is thought to coordinate the water that mediates the hydrolysis.


:

Pssm-ID: 459823 [Multi-domain]  Cd Length: 111  Bit Score: 101.35  E-value: 2.92e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1063687987  91 DEELmkqcRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLLA 155
Cdd:pfam00472   9 PKDL----RIDTFRSSGAGGQHVNKTDSAVRLTHIPTGIVVKCQDERSQHQNREKALKRLRARLY 69
 
Name Accession Description Interval E-value
RF-1 pfam00472
RF-1 domain; This domain is found in peptide chain release factors such as RF-1 and RF-2, and ...
 91-155 2.92e-27

RF-1 domain; This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. The domain contains a highly conserved motif GGQ, where the glutamine is thought to coordinate the water that mediates the hydrolysis.


Pssm-ID: 459823 [Multi-domain]  Cd Length: 111  Bit Score: 101.35  E-value: 2.92e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1063687987  91 DEELmkqcRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLLA 155
Cdd:pfam00472   9 PKDL----RIDTFRSSGAGGQHVNKTDSAVRLTHIPTGIVVKCQDERSQHQNREKALKRLRARLY 69
PrfA COG0216
Protein chain release factor RF1 [Translation, ribosomal structure and biogenesis]; Protein ...
 99-159 2.89e-24

Protein chain release factor RF1 [Translation, ribosomal structure and biogenesis]; Protein chain release factor RF1 is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 439986 [Multi-domain]  Cd Length: 356  Bit Score: 99.30  E-value: 2.89e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRT-LLAIKVR 159
Cdd:COG0216   222 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRArLYEAEQQ 283
prfA PRK00591
peptide chain release factor 1; Validated
 99-166 9.47e-24

peptide chain release factor 1; Validated


Pssm-ID: 234801 [Multi-domain]  Cd Length: 359  Bit Score: 97.84  E-value: 9.47e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRT-LLAIKVRNKVDIEA 166
Cdd:PRK00591  224 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRArLYDAERQKAQAEEA 292
prfB TIGR00020
peptide chain release factor 2; In many but not all taxa, there is a conserved real ...
 99-154 1.69e-20

peptide chain release factor 2; In many but not all taxa, there is a conserved real translational frameshift at a TGA codon. RF-2 helps terminate translation at TGA codons and can therefore regulate its own production by readthrough when RF-2 is insufficient. There is a Pfam model called "RF-1" for the superfamily of RF-1, RF-2, mitochondrial, RF-H, etc. [Protein synthesis, Translation factors]


Pssm-ID: 272858 [Multi-domain]  Cd Length: 364  Bit Score: 89.06  E-value: 1.69e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLL 154
Cdd:TIGR00020 238 RIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKL 293
 
Name Accession Description Interval E-value
RF-1 pfam00472
RF-1 domain; This domain is found in peptide chain release factors such as RF-1 and RF-2, and ...
 91-155 2.92e-27

RF-1 domain; This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. The domain contains a highly conserved motif GGQ, where the glutamine is thought to coordinate the water that mediates the hydrolysis.


Pssm-ID: 459823 [Multi-domain]  Cd Length: 111  Bit Score: 101.35  E-value: 2.92e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1063687987  91 DEELmkqcRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLLA 155
Cdd:pfam00472   9 PKDL----RIDTFRSSGAGGQHVNKTDSAVRLTHIPTGIVVKCQDERSQHQNREKALKRLRARLY 69
PrfA COG0216
Protein chain release factor RF1 [Translation, ribosomal structure and biogenesis]; Protein ...
 99-159 2.89e-24

Protein chain release factor RF1 [Translation, ribosomal structure and biogenesis]; Protein chain release factor RF1 is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 439986 [Multi-domain]  Cd Length: 356  Bit Score: 99.30  E-value: 2.89e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRT-LLAIKVR 159
Cdd:COG0216   222 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRArLYEAEQQ 283
prfA PRK00591
peptide chain release factor 1; Validated
 99-166 9.47e-24

peptide chain release factor 1; Validated


Pssm-ID: 234801 [Multi-domain]  Cd Length: 359  Bit Score: 97.84  E-value: 9.47e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRT-LLAIKVRNKVDIEA 166
Cdd:PRK00591  224 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRArLYDAERQKAQAEEA 292
PrfB COG1186
Protein chain release factor PrfB [Translation, ribosomal structure and biogenesis]; Protein ...
 91-172 4.37e-21

Protein chain release factor PrfB [Translation, ribosomal structure and biogenesis]; Protein chain release factor PrfB is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 440799 [Multi-domain]  Cd Length: 140  Bit Score: 85.95  E-value: 4.37e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063687987  91 DEELmkqcRLETFRVSGPGGQHRNKRDSAVRLKH------------LPTGIVAQAVEDRSQHKNRASALNRLRTLLAikv 158
Cdd:COG1186    25 ESDL----RIDTYRASGAGGQNVNKVSSAVRLTHdiassslpdsrlTPGGIVVKAQEERSQHQNREDALKRLKALLY--- 97

                          90
                  ....*....|....
gi 1063687987 159 rnkvdiEAYAPPPE 172
Cdd:COG1186    98 ------EAELEPKE 105
prfB TIGR00020
peptide chain release factor 2; In many but not all taxa, there is a conserved real ...
 99-154 1.69e-20

peptide chain release factor 2; In many but not all taxa, there is a conserved real translational frameshift at a TGA codon. RF-2 helps terminate translation at TGA codons and can therefore regulate its own production by readthrough when RF-2 is insufficient. There is a Pfam model called "RF-1" for the superfamily of RF-1, RF-2, mitochondrial, RF-H, etc. [Protein synthesis, Translation factors]


Pssm-ID: 272858 [Multi-domain]  Cd Length: 364  Bit Score: 89.06  E-value: 1.69e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLL 154
Cdd:TIGR00020 238 RIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKL 293
PRK07342 PRK07342
peptide chain release factor 2; Provisional
 98-154 1.34e-19

peptide chain release factor 2; Provisional


Pssm-ID: 235997 [Multi-domain]  Cd Length: 339  Bit Score: 86.47  E-value: 1.34e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1063687987  98 CRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLL 154
Cdd:PRK07342  201 VRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARL 257
PRK05589 PRK05589
peptide chain release factor 2; Provisional
 99-165 7.77e-18

peptide chain release factor 2; Provisional


Pssm-ID: 235520 [Multi-domain]  Cd Length: 325  Bit Score: 81.39  E-value: 7.77e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRT-LLAIKVR-NKVDIE 165
Cdd:PRK05589  199 KIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKSkLVELKERaHKEKIE 267
release_prfH TIGR03072
putative peptide chain release factor H; Members of this protein family are bacterial proteins ...
 90-157 6.02e-17

putative peptide chain release factor H; Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon. [Protein synthesis, Translation factors]


Pssm-ID: 213768  Cd Length: 200  Bit Score: 76.73  E-value: 6.02e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1063687987  90 TDEELM-KQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASAlnrlRTLLAIK 157
Cdd:TIGR03072  99 ASEEATeDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLA----TLLLAVR 163
PRK08787 PRK08787
peptide chain release factor 2; Provisional
 99-160 7.12e-13

peptide chain release factor 2; Provisional


Pssm-ID: 136970 [Multi-domain]  Cd Length: 313  Bit Score: 66.99  E-value: 7.12e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLL---AIKVRN 160
Cdd:PRK08787  179 RTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLyelEVQKRN 243
PRK06746 PRK06746
peptide chain release factor 2; Provisional
 99-154 1.55e-10

peptide chain release factor 2; Provisional


Pssm-ID: 75726 [Multi-domain]  Cd Length: 326  Bit Score: 60.52  E-value: 1.55e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1063687987  99 RLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASALNRLRTLL 154
Cdd:PRK06746  200 KIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMKMLKAKL 255
PRK09256 PRK09256
aminoacyl-tRNA hydrolase;
101-171 1.05e-06

aminoacyl-tRNA hydrolase;


Pssm-ID: 181730 [Multi-domain]  Cd Length: 138  Bit Score: 46.68  E-value: 1.05e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063687987 101 ETF-RVSGPGGQHRNKRDSAVRLK------HLP---------------TG---IVAQAVEDRSQHKNRASALNRLRTLLA 155
Cdd:PRK09256   17 WRFiRASGPGGQNVNKVSTAVELRfdiaasSLPefykerllalaghriTKdgvIVIKAQEFRSQERNREDALERLVALIR 96

                          90
                  ....*....|....*.
gi 1063687987 156 ikvrnkvdiEAYAPPP 171
Cdd:PRK09256   97 ---------EALKPPK 103
 
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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