› 6o7k

Electron Microscopy
4.2Å resolution

30S initiation complex

Released:
DOI: 10.2210/pdb6o7k/pdb
PDB entry 6o7k coloured by chain, front view.
PDB entry 6o7k coloured by chain, side view.
PDB entry 6o7k coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Late steps in bacterial translation initiation visualized using time-resolved cryo-EM.
Kaledhonkar S, Fu Z, Caban K, Li W, Chen B, Sun M, Gonzalez RL, Frank J
Nature 570 400-404 (2019)
PMID: 31108498
Related structures: EMD-0643

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 25-mer (preferred)
PDBe Complex ID:
PDB-CPX-199599 (preferred)
Entry contents:
22 distinct polypeptide molecules
3 distinct RNA molecules
Macromolecules (25 distinct):
Translation initiation factor IF-1 Chain: 5
Molecule details ›
Chain: 5
Length: 71 amino acids
Theoretical weight: 8.12 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: Q5SHR1 (Residues: 2-72; Coverage: 99%)
Gene names: TTHA1669, infA
Sequence domains: Translation initiation factor 1A / IF-1
Translation initiation factor IF-2 Chain: f
Molecule details ›
Chain: f
Length: 509 amino acids
Theoretical weight: 54.87 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A705 (Residues: 382-890; Coverage: 57%)
Gene names: JW3137, b3168, gicD, infB, ssyG
Sequence domains:
Small ribosomal subunit protein uS17 Chain: P
Molecule details ›
Chain: P
Length: 80 amino acids
Theoretical weight: 9.26 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG63 (Residues: 4-83; Coverage: 95%)
Gene names: JW3273, b3311, neaA, rpsQ
Sequence domains: Ribosomal protein S17
Small ribosomal subunit protein uS10 Chain: r
Molecule details ›
Chain: r
Length: 98 amino acids
Theoretical weight: 11.2 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7R5 (Residues: 5-102; Coverage: 95%)
Gene names: JW3283, b3321, nusE, rpsJ
Sequence domains: Ribosomal protein S10p/S20e
Small ribosomal subunit protein uS11 Chain: q
Molecule details ›
Chain: q
Length: 117 amino acids
Theoretical weight: 12.49 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7R9 (Residues: 13-129; Coverage: 91%)
Gene names: JW3259, b3297, rpsK
Sequence domains: Ribosomal protein S11
Small ribosomal subunit protein uS12 Chain: t
Molecule details ›
Chain: t
Length: 123 amino acids
Theoretical weight: 13.64 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7S3 (Residues: 2-124; Coverage: 99%)
Gene names: JW3304, b3342, rpsL, strA
Sequence domains: Ribosomal protein S12/S23
Small ribosomal subunit protein uS13 Chain: s
Molecule details ›
Chain: s
Length: 114 amino acids
Theoretical weight: 12.63 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7S9 (Residues: 2-115; Coverage: 97%)
Gene names: JW3260, b3298, rpsM
Sequence domains: Ribosomal protein S13/S18
Small ribosomal subunit protein uS14 Chain: w
Molecule details ›
Chain: w
Length: 100 amino acids
Theoretical weight: 11.49 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG59 (Residues: 2-101; Coverage: 99%)
Gene names: JW3269, b3307, rpsN
Sequence domains: Ribosomal protein S14p/S29e
Small ribosomal subunit protein uS15 Chain: u
Molecule details ›
Chain: u
Length: 88 amino acids
Theoretical weight: 10.16 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0ADZ4 (Residues: 2-89; Coverage: 99%)
Gene names: JW3134, b3165, rpsO, secC
Sequence domains: Ribosomal protein S15
Small ribosomal subunit protein bS16 Chain: y
Molecule details ›
Chain: y
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7T3 (Residues: 1-82; Coverage: 100%)
Gene names: JW2590, b2609, rpsP
Sequence domains: Ribosomal protein S16
Small ribosomal subunit protein bS18 Chain: 1
Molecule details ›
Chain: 1
Length: 55 amino acids
Theoretical weight: 6.47 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7T7 (Residues: 20-74; Coverage: 73%)
Gene names: JW4160, b4202, rpsR
Sequence domains: Ribosomal protein S18
Small ribosomal subunit protein uS19 Chain: z
Molecule details ›
Chain: z
Length: 79 amino acids
Theoretical weight: 9.06 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7U3 (Residues: 3-81; Coverage: 86%)
Gene names: JW3278, b3316, rpsS
Sequence domains: Ribosomal protein S19
Small ribosomal subunit protein uS2 Chain: j
Molecule details ›
Chain: j
Length: 218 amino acids
Theoretical weight: 24.25 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V0 (Residues: 9-226; Coverage: 91%)
Gene names: JW0164, b0169, rpsB
Sequence domains: Ribosomal protein S2
Small ribosomal subunit protein bS20 Chain: 3
Molecule details ›
Chain: 3
Length: 85 amino acids
Theoretical weight: 9.51 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7U7 (Residues: 3-87; Coverage: 98%)
Gene names: JW0022, b0023, rpsT
Sequence domains: Ribosomal protein S20
Small ribosomal subunit protein bS21 Chain: 2
Molecule details ›
Chain: 2
Length: 51 amino acids
Theoretical weight: 6.07 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P68679 (Residues: 4-54; Coverage: 72%)
Gene names: JW3037, b3065, rpsU
Sequence domains: Ribosomal protein S21
Small ribosomal subunit protein uS3 Chain: h
Molecule details ›
Chain: h
Length: 206 amino acids
Theoretical weight: 23.08 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V3 (Residues: 2-207; Coverage: 88%)
Gene names: JW3276, b3314, rpsC
Sequence domains:
Small ribosomal subunit protein uS4 Chain: l
Molecule details ›
Chain: l
Length: 205 amino acids
Theoretical weight: 23.38 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7V8 (Residues: 2-206; Coverage: 100%)
Gene names: JW3258, b3296, ramA, rpsD
Sequence domains:
Small ribosomal subunit protein uS5 Chain: k
Molecule details ›
Chain: k
Length: 150 amino acids
Theoretical weight: 15.8 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7W1 (Residues: 10-159; Coverage: 90%)
Gene names: JW3265, b3303, rpsE, spc
Sequence domains:
Small ribosomal subunit protein bS6, non-modified isoform Chain: n
Molecule details ›
Chain: n
Length: 100 amino acids
Theoretical weight: 11.67 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P02358 (Residues: 1-100; Coverage: 74%)
Gene names: JW4158, b4200, rpsF
Sequence domains: Ribosomal protein S6
Small ribosomal subunit protein uS7 Chain: m
Molecule details ›
Chain: m
Length: 151 amino acids
Theoretical weight: 16.86 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P02359 (Residues: 2-152; Coverage: 84%)
Gene names: JW3303, b3341, rpsG
Sequence domains: Ribosomal protein S7p/S5e
Small ribosomal subunit protein uS8 Chain: p
Molecule details ›
Chain: p
Length: 129 amino acids
Theoretical weight: 14.02 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7W7 (Residues: 2-130; Coverage: 99%)
Gene names: JW3268, b3306, rpsH
Sequence domains: Ribosomal protein S8
Small ribosomal subunit protein uS9 Chain: o
Molecule details ›
Chain: o
Length: 127 amino acids
Theoretical weight: 14.55 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7X3 (Residues: 4-130; Coverage: 98%)
Gene names: JW3199, b3230, rpsI
Sequence domains: Ribosomal protein S9/S16
16S ribosomal RNA Chain: g
Molecule details ›
Chain: g
Length: 1539 nucleotides
Theoretical weight: 498.73 KDa
Sequence domains: Bacterial small subunit ribosomal RNA
tRNA Chain: v
Molecule details ›
Chain: v
Length: 77 nucleotides
Theoretical weight: 24.79 KDa
Sequence domains: tRNA
Messenger RNA Chain: N
Molecule details ›
Chain: N
Length: 6 nucleotides
Theoretical weight: 1.9 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.2Å
Relevant EMDB volumes: EMD-0643

Quick links

Citations

16 review citations

Assessing the Role of Lipids in the Molecular Mechanism of Membrane Proteins.
Jodaitis et al. (2021)
15 more

5 mentions without citation

Measurement of atom resolvability in cryo-EM maps with Q-scores.
Pintilie et al. (2020)
4 more