› 4v89

X-ray diffraction
3.7Å resolution

Crystal Structure of Release Factor RF3 Trapped in the GTP State on a Rotated Conformation of the Ribosome (without viomycin)

Released:
DOI: 10.2210/pdb4v89/pdb
Model geometry
Fit model/data
PDB entry 4v89 coloured by chain, front view.
PDB entry 4v89 coloured by chain, side view.
PDB entry 4v89 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Crystal structure of release factor RF3 trapped in the GTP state on a rotated conformation of the ribosome.
Zhou J, Lancaster L, Trakhanov S, Noller HF
RNA 18 230-40 (2012)
PMID: 22187675

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 58-mer (preferred)
PDBe Complex ID:
PDB-CPX-135508 (preferred)
Entry contents:
51 distinct polypeptide molecules
4 distinct RNA molecules
Macromolecules (55 distinct):
Small ribosomal subunit protein uS2 Chain: AB
Molecule details ›
Chain: AB
Length: 241 amino acids
Theoretical weight: 26.78 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V0 (Residues: 1-241; Coverage: 100%)
Gene names: JW0164, b0169, rpsB
Sequence domains: Ribosomal protein S2
Small ribosomal subunit protein uS3 Chain: AC
Molecule details ›
Chain: AC
Length: 233 amino acids
Theoretical weight: 26.03 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V3 (Residues: 1-233; Coverage: 100%)
Gene names: JW3276, b3314, rpsC
Sequence domains:
Small ribosomal subunit protein uS4 Chain: AD
Small ribosomal subunit protein uS5 Chain: AE
Small ribosomal subunit protein bS6 Chain: AF
Small ribosomal subunit protein uS7 Chain: AG
Small ribosomal subunit protein uS8 Chain: AH
Small ribosomal subunit protein uS9 Chain: AI
Small ribosomal subunit protein uS10 Chain: AJ
Small ribosomal subunit protein uS11 Chain: AK
Small ribosomal subunit protein uS12 Chain: AL
Small ribosomal subunit protein uS13 Chain: AM
Small ribosomal subunit protein uS14 Chain: AN
Small ribosomal subunit protein uS15 Chain: AO
Small ribosomal subunit protein bS16 Chain: AP
Small ribosomal subunit protein uS17 Chain: AQ
Small ribosomal subunit protein bS18 Chain: AR
Small ribosomal subunit protein uS19 Chain: AS
Small ribosomal subunit protein bS20 Chain: AT
Small ribosomal subunit protein bS21 Chain: AU
Peptide chain release factor RF3 Chain: AW
Large ribosomal subunit protein bL27 Chain: B0
Large ribosomal subunit protein bL28 Chain: B1
Large ribosomal subunit protein uL29 Chain: B2
Large ribosomal subunit protein uL30 Chain: B3
Large ribosomal subunit protein bL32 Chain: B4
Large ribosomal subunit protein bL33 Chain: B5
Large ribosomal subunit protein bL34 Chain: B6
Large ribosomal subunit protein bL35 Chain: B7
Large ribosomal subunit protein bL36A Chain: B8
Large ribosomal subunit protein uL2 Chain: BC
Large ribosomal subunit protein uL3 Chain: BD
Large ribosomal subunit protein uL4 Chain: BE
Large ribosomal subunit protein uL5 Chain: BF
Large ribosomal subunit protein uL6 Chain: BG
Large ribosomal subunit protein uL10 Chain: BH
Large ribosomal subunit protein uL11 Chain: BI
Large ribosomal subunit protein bL12 Chains: BJ, BK, BL, BM
Large ribosomal subunit protein uL13 Chain: BN
Large ribosomal subunit protein uL14 Chain: BO
Large ribosomal subunit protein uL15 Chain: BP
Large ribosomal subunit protein uL16 Chain: BQ
Large ribosomal subunit protein bL17 Chain: BR
Large ribosomal subunit protein uL18 Chain: BS
Large ribosomal subunit protein bL19 Chain: BT
Large ribosomal subunit protein bL20 Chain: BU
Large ribosomal subunit protein bL21 Chain: BV
Large ribosomal subunit protein uL22 Chain: BW
Large ribosomal subunit protein uL23 Chain: BX
Large ribosomal subunit protein uL24 Chain: BY
Large ribosomal subunit protein bL25 Chain: BZ
16S ribosomal RNA Chain: AA
Messenger RNA Chain: AV
23S ribosomal RNA Chain: BA
5S ribosomal RNA Chain: BB

Ligands and Environments

2 bound ligands:
Ligand GNP 1 x GNP
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ALS BEAMLINE 12.3.1
Spacegroup: P212121
Unit cell:
a: 258Å b: 312Å c: 333Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.24 0.24 0.29
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

18 review citations

Structural basis of the translational elongation cycle.
Voorhees et al. (2013)
17 more

2 mentions without citation

Dynamics of ribosomes and release factors during translation termination in E. coli.
Adio et al. (2018)
1 more