› 6orl

Electron Microscopy
3.5Å resolution

RF1 pre-accommodated 70S complex at 24 ms

Released:
DOI: 10.2210/pdb6orl/pdb
PDB entry 6orl coloured by chain, front view.
PDB entry 6orl coloured by chain, side view.
PDB entry 6orl coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
The structural basis for release-factor activation during translation termination revealed by time-resolved cryogenic electron microscopy.
Fu Z, Indrisiunaite G, Kaledhonkar S, Shah B, Sun M, Chen B, Grassucci RA, Ehrenberg M, Frank J
OpenAccess logo Nat Commun 10 2579 (2019)
PMID: 31189921
Related structures: EMD-20174

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 55-mer (preferred)
PDBe Complex ID:
PDB-CPX-285745 (preferred)
Entry contents:
50 distinct polypeptide molecules
5 distinct RNA molecules
Macromolecules (55 distinct):
Large ribosomal subunit protein uL2 Chain: B
Molecule details ›
Chain: B
Length: 271 amino acids
Theoretical weight: 29.66 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P60422 (Residues: 2-272; Coverage: 99%)
Gene names: JW3279, b3317, rplB
Sequence domains:
Large ribosomal subunit protein uL3 Chain: C
Molecule details ›
Chain: C
Length: 209 amino acids
Theoretical weight: 22.28 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P60438 (Residues: 1-209; Coverage: 100%)
Gene names: JW3282, b3320, rplC
Sequence domains: Ribosomal protein L3
Large ribosomal subunit protein uL4 Chain: D
Large ribosomal subunit protein uL5 Chain: E
Large ribosomal subunit protein uL6 Chain: F
Large ribosomal subunit protein bL9 Chain: G
Large ribosomal subunit protein uL13 Chain: J
Large ribosomal subunit protein uL14 Chain: K
Large ribosomal subunit protein uL15 Chain: L
Large ribosomal subunit protein uL16 Chain: M
Large ribosomal subunit protein bL17 Chain: N
Large ribosomal subunit protein uL18 Chain: O
Large ribosomal subunit protein bL19 Chain: P
Large ribosomal subunit protein bL20 Chain: Q
Large ribosomal subunit protein bL21 Chain: R
Large ribosomal subunit protein uL22 Chain: S
Large ribosomal subunit protein uL23 Chain: T
Large ribosomal subunit protein uL24 Chain: U
Large ribosomal subunit protein bL25 Chain: V
Large ribosomal subunit protein bL27 Chain: W
Large ribosomal subunit protein bL28 Chain: X
Large ribosomal subunit protein uL29 Chain: Y
Large ribosomal subunit protein uL30 Chain: Z
Large ribosomal subunit protein bL32 Chain: b
Large ribosomal subunit protein bL33 Chain: c
Large ribosomal subunit protein bL34 Chain: d
Large ribosomal subunit protein bL35 Chain: e
Large ribosomal subunit protein bL36 Chain: f
Small ribosomal subunit protein uS2 Chain: g
Small ribosomal subunit protein uS3 Chain: h
Small ribosomal subunit protein uS4 Chain: i
Small ribosomal subunit protein uS5 Chain: j
Small ribosomal subunit protein bS6, non-modified isoform Chain: k
Small ribosomal subunit protein uS7 Chain: l
Small ribosomal subunit protein uS8 Chain: m
Small ribosomal subunit protein uS9 Chain: n
Small ribosomal subunit protein uS10 Chain: o
Small ribosomal subunit protein uS11 Chain: p
Small ribosomal subunit protein uS12 Chain: q
Small ribosomal subunit protein uS13 Chain: r
Small ribosomal subunit protein uS14 Chain: s
Small ribosomal subunit protein uS15 Chain: t
Small ribosomal subunit protein bS16 Chain: u
Small ribosomal subunit protein uS17 Chain: v
Small ribosomal subunit protein bS18 Chain: w
Small ribosomal subunit protein uS19 Chain: x
Small ribosomal subunit protein bS20 Chain: y
Small ribosomal subunit protein bS21 Chain: z
FME-PHE-PHE Chain: H
Peptide chain release factor RF1 Chain: A
23S ribosomal RNA Chain: 1
16S ribosomal RNA Chain: 2
5S ribosomal RNA Chain: 3
P-tRNA Chain: 5
Messenger RNA Chain: 4

Ligands and Environments

2 bound ligands:
Ligand MG 295 x MG
Ligand ZN 1 x ZN
20 modified residues:
Ligand 1MG 1 x 1MG
Ligand PSU 10 x PSU
Ligand 5MU 3 x 5MU
Ligand 6MZ 2 x 6MZ
Ligand 2MG 5 x 2MG
Ligand 3TD 1 x 3TD
Ligand 5MC 3 x 5MC
Ligand G7M 1 x G7M
Ligand OMG 1 x OMG
Ligand OMC 1 x OMC
Ligand 2MA 1 x 2MA
Ligand OMU 1 x OMU
Ligand 7MG 1 x 7MG
Ligand 4OC 2 x 4OC
Ligand UR3 1 x UR3
Ligand MA6 2 x MA6
Ligand 0TD 1 x 0TD
Ligand 4SU 1 x 4SU
Ligand H2U 1 x H2U
Ligand FME 1 x FME

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3.5Å
Relevant EMDB volumes: EMD-20174

Quick links

Citations

12 review citations

Understanding the invisible hands of sample preparation for cryo-EM.
Weissenberger et al. (2021)
11 more