2LLX,3MCA,3J15,3OBY,2QI2,3OBW,2VGM,4AF1


Conserved Protein Domain Family
eRF1_1

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pfam03463: eRF1_1 
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eRF1 domain 1
The release factor eRF1 terminates protein biosynthesis by recognising stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site. This family also includes other proteins for which the precise molecular function is unknown. Many of them are from Archaebacteria. These proteins may also be involved in translation termination but this awaits experimental verification.
Statistics
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PSSM-Id: 335337
View PSSM: pfam03463
Aligned: 283 rows
Threshold Bit Score: 66.371
Threshold Setting Gi: 74579973
Created: 23-Mar-2017
Updated: 23-May-2017
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
2LLX_A        18 KKLIKSleAArGNGTSMISLIIPPKDQISRVAKMLADEFGTASNIK------SRVnrlsvlGAITSVQQRLKLYNKvp-- 89  human
Q18FC0        18 RKVIEElrEYeGSGTQLVTIYIPPDRQVSDVVAHITQEHSEASNIKskqtrtNVQ------DALTSIKDRLRYYDTyp-- 89  Haloquadratum w...
O26964        13 KRTLQElsDKrGRGTELVSVYIPPDRQISDVAKHMREELSQSANIKskqtkkNVQ------SAIEVIMQRLKLFPKpp-- 84  Methanothermoba...
ACB08087       8 KKLLRElkAKvGRGTELISLYIPPNKNVYDVIKYLRDEYDQAGNIKdkltrkNVQ------SAIESIIQRLKLYREip-- 79  Candidatus Kora...
WP_013413987  13 KRTIEKlsKKkGRGTELISVYIPPDRQISDVMKHMREELSQSANIKskqtrkNVQ------SGIEVIMQRLKLFDKpp-- 84  Methanothermus ...
WP_012955530  13 KKTLKElaEKkGKGTELVSMYVPPEKQLSDIIKQMRDELGQSANIKskstrkNVQ------SAIEVIMQRIRMITNenkd 86  Methanobrevibac...
WP_011973155  12 KKALKElkDKkGKGTELISLYIPKGKRISDVSQHLREEISQSANIKskttkkNVQ------SAIEVILQRLKLLKEpl-- 83  Methanococcus a...
WP_009487297  18 QKVIEElkDYsGSGTQLVTIYIPPDKQVSDVVAHVTQEHSEASNIKskqtrtNVQ------DALTSIKDRLRYYDTfp-- 89  Halobacterium s...
WP_008527563  19 RKVIEEleDYhGTGTQLVTIYVPDDTLISDVVAHVTQEHSEASNIKskdtrtNVQ------DALKSIKDRLRYYDTkp-- 90  Halorhabdus tia...
WP_013682841  10 KRKLEEleKLkGRGTELITLYIPPDKNIADVASQLRNELSQASNIKskqtrtNVM------AGLEAILQRLKYFKKpp-- 81  Archaeoglobus v...
2LLX_A        90 -pNGLVVYCGTIVTEEG--KEKKVNIDFE-PFKPINTSLYLcDNKFHTEAL 136 human
Q18FC0        90 pdNGIVLFSGAVSTGGG--QTTMVTRSLEsPPEPVQSFRYHcDSDFLTDPL 138 Haloquadratum walsbyi DSM 16790
O26964        85 -eKGLVMFVGMVPRGGPg-TEKMETYVFE-PPEPIKTYIYHcNSEFYLEPL 132 Methanothermobacter thermautotrophicus str. ...
ACB08087      80 -sNGLVIFCGAIPQGKDrgTEKIEIYVIE-PPEPVRSFQYIcDHEFYLEPL 128 Candidatus Korarchaeum cryptofilum OPF8
WP_013413987  85 -kNGLVIFTGMIPKGGPg-TEKMETYVLE-PPEPITSYVYHcNSKFYLEPL 132 Methanothermus fervidus
WP_012955530  87 lpNGFVLFVGMIPKGGPg-TEKMETVVIE-PPEPVQTYWYIcDSTFFLEPL 135 Methanobrevibacter ruminantium
WP_011973155  84 -eKGVIIFAGMIPRGGPg-TEKMETYVLE-PPEPVKTYIYRcDSQFYTEPL 131 Methanococcus aeolicus
WP_009487297  90 pdNGMVIFSGAVDSGGG--RTDMVTEVLEsPPQPIESFRYHcDSAFLTEPL 138 Halobacterium sp. DL1
WP_008527563  91 peNGVVLFSGAIDAGGG--QTEMITRVLEsPPQPIQSFRYHcDSDFLLEPL 139 Halorhabdus tiamatea
WP_013682841  82 -eHGMVIISGVVDMNG---KQKHITEIIE-PPEPVPLYKYHcDSSFYLEPL 127 Archaeoglobus veneficus
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