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Conserved domains on  [gi|162312297|ref|NP_596474|]
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peptide release factor [Schizosaccharomyces pombe]

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 ...
 47-112 1.20e-21

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: 84.01  E-value: 1.20e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 162312297   47 LQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIARKRLTEKVDEFK 112
Cdd:pfam00472   7 IDPKDLRIDTFRSSGAGGQHVNKTDSAVRLTHIPTGIVVKCQDERSQHQNREKALKRLRARLYELE 72
 
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 ...
 47-112 1.20e-21

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: 84.01  E-value: 1.20e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 162312297   47 LQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIARKRLTEKVDEFK 112
Cdd:pfam00472   7 IDPKDLRIDTFRSSGAGGQHVNKTDSAVRLTHIPTGIVVKCQDERSQHQNREKALKRLRARLYELE 72
PrfB COG1186
Protein chain release factor PrfB [Translation, ribosomal structure and biogenesis]; Protein ...
 49-110 3.06e-14

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: 65.54  E-value: 3.06e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 162312297  49 EEDIEETFICGKGPGGQKINKTSIVAQVKH------------IPTGIIVRSQDTRSREQNRCIARKRLTEKVDE 110
Cdd:COG1186   25 ESDLRIDTYRASGAGGQNVNKVSSAVRLTHdiassslpdsrlTPGGIVVKAQEERSQHQNREDALKRLKALLYE 98
release_prfH TIGR03072
putative peptide chain release factor H; Members of this protein family are bacterial proteins ...
 43-107 1.38e-10

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: 57.09  E-value: 1.38e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 162312297   43 QLERLQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIARKRLTEK 107
Cdd:TIGR03072  99 ASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVR 163
PRK05589 PRK05589
peptide chain release factor 2; Provisional
 30-112 1.95e-10

peptide chain release factor 2; Provisional


Pssm-ID: 235520 [Multi-domain]  Cd Length: 325  Bit Score: 57.89  E-value: 1.95e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162312297  30 RHTWYCSKKETPyqlERLQEEDIE--------ETFICGkGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIAR 101
Cdd:PRK05589 172 RQTSFASVEVLP---ELTDDQDIEirsedlkiDTYRAG-GAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAM 247

                         90
                 ....*....|.
gi 162312297 102 KRLTEKVDEFK 112
Cdd:PRK05589 248 KMLKSKLVELK 258
 
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 ...
 47-112 1.20e-21

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: 84.01  E-value: 1.20e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 162312297   47 LQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIARKRLTEKVDEFK 112
Cdd:pfam00472   7 IDPKDLRIDTFRSSGAGGQHVNKTDSAVRLTHIPTGIVVKCQDERSQHQNREKALKRLRARLYELE 72
PrfB COG1186
Protein chain release factor PrfB [Translation, ribosomal structure and biogenesis]; Protein ...
 49-110 3.06e-14

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: 65.54  E-value: 3.06e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 162312297  49 EEDIEETFICGKGPGGQKINKTSIVAQVKH------------IPTGIIVRSQDTRSREQNRCIARKRLTEKVDE 110
Cdd:COG1186   25 ESDLRIDTYRASGAGGQNVNKVSSAVRLTHdiassslpdsrlTPGGIVVKAQEERSQHQNREDALKRLKALLYE 98
release_prfH TIGR03072
putative peptide chain release factor H; Members of this protein family are bacterial proteins ...
 43-107 1.38e-10

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: 57.09  E-value: 1.38e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 162312297   43 QLERLQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIARKRLTEK 107
Cdd:TIGR03072  99 ASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVR 163
prfB TIGR00020
peptide chain release factor 2; In many but not all taxa, there is a conserved real ...
 16-112 1.70e-10

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: 57.86  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162312297   16 VRLNAFSCLAElnfRHTWYCSKKETPYQLER----LQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTR 91
Cdd:TIGR00020 200 VRISPFDANGR---RHTSFASVFVMPEVDDDidieIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDR 276

                          90       100
                  ....*....|....*....|.
gi 162312297   92 SREQNRCIARKRLTEKVDEFK 112
Cdd:TIGR00020 277 SQHKNKDSAMKVLKAKLYELE 297
PRK05589 PRK05589
peptide chain release factor 2; Provisional
 30-112 1.95e-10

peptide chain release factor 2; Provisional


Pssm-ID: 235520 [Multi-domain]  Cd Length: 325  Bit Score: 57.89  E-value: 1.95e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162312297  30 RHTWYCSKKETPyqlERLQEEDIE--------ETFICGkGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIAR 101
Cdd:PRK05589 172 RQTSFASVEVLP---ELTDDQDIEirsedlkiDTYRAG-GAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAM 247

                         90
                 ....*....|.
gi 162312297 102 KRLTEKVDEFK 112
Cdd:PRK05589 248 KMLKSKLVELK 258
PrfA COG0216
Protein chain release factor RF1 [Translation, ribosomal structure and biogenesis]; Protein ...
 49-104 2.83e-10

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: 57.32  E-value: 2.83e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 162312297  49 EEDIE-ETFiCGKGPGGQKINKT-SIVaQVKHIPTGIIVRSQDTRSREQNRCIARKRL 104
Cdd:COG0216  218 PKDLRiDTF-RSSGAGGQHVNTTdSAV-RITHLPTGIVVECQDERSQHKNKAKAMKVL 273
prfA PRK00591
peptide chain release factor 1; Validated
 49-104 8.56e-10

peptide chain release factor 1; Validated


Pssm-ID: 234801 [Multi-domain]  Cd Length: 359  Bit Score: 55.85  E-value: 8.56e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 162312297  49 EEDIE-ETFiCGKGPGGQKINKT-SIVaQVKHIPTGIIVRSQDTRSREQNRCIARKRL 104
Cdd:PRK00591 220 PKDLRiDTF-RSSGAGGQHVNTTdSAV-RITHLPTGIVVECQDERSQHKNKAKAMKVL 275
PRK08787 PRK08787
peptide chain release factor 2; Provisional
 28-112 1.14e-09

peptide chain release factor 2; Provisional


Pssm-ID: 136970 [Multi-domain]  Cd Length: 313  Bit Score: 55.43  E-value: 1.14e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162312297  28 NFRHTWYCSKKETPYQLERLQEE----DIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIARKR 103
Cdd:PRK08787 150 NRRHTSFTSVFVSPEVDDNIEIDinpaDLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKM 229


                 ....*....
gi 162312297 104 LTEKVDEFK 112
Cdd:PRK08787 230 LAAKLYELE 238
PRK09256 PRK09256
aminoacyl-tRNA hydrolase;
47-106 1.26e-09

aminoacyl-tRNA hydrolase;


Pssm-ID: 181730 [Multi-domain]  Cd Length: 138  Bit Score: 53.23  E-value: 1.26e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162312297  47 LQEEDIEETFICGKGPGGQKINKTS---------------------IVAQVKHIPTG---IIVRSQDTRSREQNRCIARK 102
Cdd:PRK09256  10 IPENELEWRFIRASGPGGQNVNKVStavelrfdiaasslpefykerLLALAGHRITKdgvIVIKAQEFRSQERNREDALE 89


                 ....
gi 162312297 103 RLTE 106
Cdd:PRK09256  90 RLVA 93
PRK07342 PRK07342
peptide chain release factor 2; Provisional
 61-106 1.16e-07

peptide chain release factor 2; Provisional


Pssm-ID: 235997 [Multi-domain]  Cd Length: 339  Bit Score: 49.88  E-value: 1.16e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 162312297  61 GPGGQKINKTSIVAQVKHIPTGIIVRSQDTRSREQNRCIA----RKRLTE 106
Cdd:PRK07342 210 GAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAwsmlRARLYE 259
PRK06746 PRK06746
peptide chain release factor 2; Provisional
 16-112 4.28e-05

peptide chain release factor 2; Provisional


Pssm-ID: 75726 [Multi-domain]  Cd Length: 326  Bit Score: 42.41  E-value: 4.28e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 162312297  16 VRLNAFSCLAElnfRHTWYCSKKETPY---QLE-RLQEEDIEETFICGKGPGGQKINKTSIVAQVKHIPTGIIVRSQDTR 91
Cdd:PRK06746 162 VRISPFDSSGR---RHTSFVSCEVVPEfndEVEiEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSER 238

                         90       100
                 ....*....|....*....|.
gi 162312297  92 SREQNRCIARKRLTEKVDEFK 112
Cdd:PRK06746 239 SQIKNREHAMKMLKAKLYQKK 259
 
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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