Structure of PDB 4v7p Chain AV

Receptor sequence

>4v7pAV (length=354) Species: 262724 (Thermus thermophilus HB27)

MLDKLDRLEEEYRELEALLSDPEVLKDKGRYQSLSRRYAEMGEVIGLIRE
YRKVLEDLEQAESLLDDPELKEMAKAEREALLARKEALEKELERHLLPKD
PMDERDAIVEIRAGTGGEEAALFARDLFNMYLRFAEEMGFETEVLDSHPT
DLGGFSKVVFEVRGPGAYGTFKYESGVHRVQRVPVTETQGRIHTSTATVA
VLPKAEEEDFALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMV
TCQDSRSQIKNREKALMILRSRLLEMKRAEEAERLRKTRLAQIGTGERSE
KIRTYNFPQSRVTDHRIGFTTHDLEGVLSGHLTPILEALKRADQERQLAA
LAEG

3D structure

• PDB: 4v7p Recognition of the amber UAG stop codon by release factor RF1.
• Chain: AV
• Resolution: 3.62 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	AV	D66 K71 G114 T115 R133 R179 Q181 Q189 G190 E297 R311	D66 K71 G114 T115 R133 R179 Q181 Q189 G190 E297 R311
BS02	rna	AV	D151 G228 G229 Q230 R256	D151 G228 G229 Q230 R256
BS03	rna	AV	G116 G117 E119 Q181 P184 T186 R191 I192 H193 T194	G116 G117 E119 Q181 P184 T186 R191 I192 H193 T194
BS04	rna	AV	R112 H148 M222 R223 P227 G228 G229 Q230 V232 N233 T234 T235 D236 R240 V250 T251 R256 Q258 R262 R272 R289 T295	R112 H148 M222 R223 P227 G228 G229 Q230 V232 N233 T234 T235 D236 R240 V250 T251 R256 Q258 R262 R272 R289 T295

Gene Ontology

Molecular Function

• GO:0003747 translation release factor activity
• GO:0016149 translation release factor activity, codon specific

Biological Process

• GO:0006412 translation
• GO:0006415 translational termination

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:4v7p, PDBe:4v7p, PDBj:4v7p
• PDBsum: 4v7p
• PubMed: 20588254
• UniProt: Q72HB8|RF1_THET2 Peptide chain release factor 1 (Gene Name=prfA)