› 1fka

X-ray diffraction
3.3Å resolution

STRUCTURE OF FUNCTIONALLY ACTIVATED SMALL RIBOSOMAL SUBUNIT AT 3.3 A RESOLUTION

Released:
DOI: 10.2210/pdb1fka/pdb
PDB entry 1fka coloured by chain, front view.
PDB entry 1fka coloured by chain, side view.
PDB entry 1fka coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Structure of functionally activated small ribosomal subunit at 3.3 angstroms resolution.
Schluenzen F, Tocilj A, Zarivach R, Harms J, Gluehmann M, Janell D, Bashan A, Bartels H, Agmon I, Franceschi F, Yonath A
Cell 102 615-23 (2000)
PMID: 11007480

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero icosamer (preferred)
PDBe Complex ID:
PDB-CPX-215940 (preferred)
Entry contents:
19 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (20 distinct):
30S RIBOSOMAL PROTEIN S2 Chain: B
Molecule details ›
Chain: B
Length: 111 amino acids
Theoretical weight: 9.46 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S3 Chain: C
Molecule details ›
Chain: C
Length: 176 amino acids
Theoretical weight: 15 KDa
Source organism: Thermus thermophilus
Small ribosomal subunit protein uS4 Chain: D
Molecule details ›
Chain: D
Length: 209 amino acids
Theoretical weight: 24.37 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80373 (Residues: 1-209; Coverage: 100%)
Gene names: TTHA1665, rps4, rpsD
Sequence domains:
Structure domains:
Small ribosomal subunit protein uS5 Chain: E
Molecule details ›
Chain: E
Length: 162 amino acids
Theoretical weight: 17.58 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SHQ5 (Residues: 1-162; Coverage: 100%)
Gene names: TTHA1675, rpsE
Sequence domains:
Structure domains:
Small ribosomal subunit protein bS6 Chain: F
Molecule details ›
Chain: F
Length: 101 amino acids
Theoretical weight: 11.99 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SLP8 (Residues: 1-101; Coverage: 100%)
Gene names: TTHA0245, rpsF
Sequence domains: Ribosomal protein S6
Structure domains: Alpha-Beta Plaits
Small ribosomal subunit protein uS7 Chain: G
Molecule details ›
Chain: G
Length: 151 amino acids
Theoretical weight: 17.34 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P17291 (Residues: 1-151; Coverage: 97%)
Gene names: TTHA1696, rps7, rpsG
Sequence domains: Ribosomal protein S7p/S5e
Structure domains: Ribosomal protein S7 domain
Small ribosomal subunit protein uS8 Chain: H
Molecule details ›
Chain: H
Length: 138 amino acids
Theoretical weight: 15.87 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P0DOY9 (Residues: 1-138; Coverage: 100%)
Gene names: TTHA1678, rpsH
Sequence domains: Ribosomal protein S8
Structure domains:
30S RIBOSOMAL PROTEIN S9 Chain: I
Molecule details ›
Chain: I
Length: 89 amino acids
Theoretical weight: 7.59 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S10 Chain: J
Molecule details ›
Chain: J
Length: 71 amino acids
Theoretical weight: 6.06 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S11 Chain: K
Molecule details ›
Chain: K
Length: 70 amino acids
Theoretical weight: 5.98 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S12 Chain: L
Molecule details ›
Chain: L
Length: 103 amino acids
Theoretical weight: 8.78 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S13 Chain: M
Molecule details ›
Chain: M
Length: 77 amino acids
Theoretical weight: 6.57 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S14 Chain: N
Molecule details ›
Chain: N
Length: 26 amino acids
Theoretical weight: 2.23 KDa
Source organism: Thermus thermophilus
Small ribosomal subunit protein uS15 Chain: O
Molecule details ›
Chain: O
Length: 89 amino acids
Theoretical weight: 10.62 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SJ76 (Residues: 1-89; Coverage: 100%)
Gene names: TTHA1138, rpsO
Sequence domains: Ribosomal protein S15
Structure domains: S15/NS1, RNA-binding
30S RIBOSOMAL PROTEIN S16 Chain: P
Molecule details ›
Chain: P
Length: 73 amino acids
Theoretical weight: 6.23 KDa
Source organism: Thermus thermophilus
30S RIBOSOMAL PROTEIN S17 Chain: Q
Molecule details ›
Chain: Q
Length: 84 amino acids
Theoretical weight: 7.17 KDa
Source organism: Thermus thermophilus
Small ribosomal subunit protein bS18 Chain: R
Molecule details ›
Chain: R
Length: 88 amino acids
Theoretical weight: 10.24 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SLQ0 (Residues: 1-88; Coverage: 100%)
Gene names: TTHA0243, rpsR
Sequence domains: Ribosomal protein S18
Structure domains: Ribosomal protein S18
Small ribosomal subunit protein uS19 Chain: S
Molecule details ›
Chain: S
Length: 93 amino acids
Theoretical weight: 10.61 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SHP2 (Residues: 1-93; Coverage: 100%)
Gene names: TTHA1688, rpsS
Sequence domains: Ribosomal protein S19
Structure domains: 30s Ribosomal Protein S19; Chain A
30S RIBOSOMAL PROTEIN S20 Chain: T
Molecule details ›
Chain: T
Length: 95 amino acids
Theoretical weight: 8.1 KDa
Source organism: Thermus thermophilus
16S ribosomal RNA Chain: A
Molecule details ›
Chain: A
Length: 1518 nucleotides
Theoretical weight: 492.67 KDa
Sequence domains: Bacterial small subunit ribosomal RNA

Ligands and Environments

1 bound ligand:
Ligand WO2 7 x WO2
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P41212
Unit cell:
a: 406.3Å b: 406.3Å c: 173.1Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.304 0.304 0.305

Quick links

Citations

128 review citations

Ribosome structure and the mechanism of translation.
Ramakrishnan V. (2002)
127 more

17 mentions without citation

The use of polyoxometalates in protein crystallography - An attempt to widen a well-known bottleneck.
Bijelic et al. (2015)
16 more