› 1i96

X-ray diffraction
4.2Å resolution

CRYSTAL STRUCTURE OF THE 30S RIBOSOMAL SUBUNIT FROM THERMUS THERMOPHILUS IN COMPLEX WITH THE TRANSLATION INITIATION FACTOR IF3 (C-TERMINAL DOMAIN)

Released:
DOI: 10.2210/pdb1i96/pdb
PDB entry 1i96 coloured by chain, front view.
PDB entry 1i96 coloured by chain, side view.
PDB entry 1i96 coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Crystal structures of complexes of the small ribosomal subunit with tetracycline, edeine and IF3.
Pioletti M, Schlünzen F, Harms J, Zarivach R, Glühmann M, Avila H, Bashan A, Bartels H, Auerbach T, Jacobi C, Hartsch T, Yonath A, Franceschi F
EMBO J 20 1829-39 (2001)
PMID: 11296217

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 22-mer (preferred)
PDBe Complex ID:
PDB-CPX-215860 (preferred)
Entry contents:
21 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (22 distinct):
Small ribosomal subunit protein uS2 Chain: B
Molecule details ›
Chain: B
Length: 255 amino acids
Theoretical weight: 29.19 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80371 (Residues: 2-256; Coverage: 100%)
Gene names: TTHA0861, rps2, rpsB
Sequence domains: Ribosomal protein S2
Small ribosomal subunit protein uS3 Chain: C
Molecule details ›
Chain: C
Length: 238 amino acids
Theoretical weight: 26.62 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80372 (Residues: 2-239; Coverage: 100%)
Gene names: TTHA1686, rps3, rpsC
Sequence domains:
Small ribosomal subunit protein uS4 Chain: D
Molecule details ›
Chain: D
Length: 208 amino acids
Theoretical weight: 24.24 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80373 (Residues: 2-209; Coverage: 100%)
Gene names: TTHA1665, rps4, rpsD
Sequence domains:
Small ribosomal subunit protein uS5 Chain: E
Molecule details ›
Chain: E
Length: 161 amino acids
Theoretical weight: 17.45 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SHQ5 (Residues: 2-162; Coverage: 99%)
Gene names: TTHA1675, rpsE
Sequence 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
Small ribosomal subunit protein uS7 Chain: G
Molecule details ›
Chain: G
Length: 155 amino acids
Theoretical weight: 17.92 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P17291 (Residues: 2-156; Coverage: 99%)
Gene names: TTHA1696, rps7, rpsG
Sequence domains: Ribosomal protein S7p/S5e
Small ribosomal subunit protein uS8 Chain: H
Molecule details ›
Chain: H
Length: 138 amino acids
Theoretical weight: 15.89 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P0DOY9 (Residues: 1-138; Coverage: 100%)
Gene names: TTHA1678, rpsH
Sequence domains: Ribosomal protein S8
Small ribosomal subunit protein uS9 Chain: I
Molecule details ›
Chain: I
Length: 128 amino acids
Theoretical weight: 14.43 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P62669 (Residues: 1-128; Coverage: 100%)
Gene names: TT_C1100, rps9, rpsI
Sequence domains: Ribosomal protein S9/S16
Small ribosomal subunit protein uS10 Chain: J
Molecule details ›
Chain: J
Length: 104 amino acids
Theoretical weight: 11.82 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SHN7 (Residues: 2-105; Coverage: 99%)
Gene names: TTHA1693, rpsJ
Sequence domains: Ribosomal protein S10p/S20e
Small ribosomal subunit protein uS11 Chain: K
Molecule details ›
Chain: K
Length: 128 amino acids
Theoretical weight: 13.61 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80376 (Residues: 2-129; Coverage: 99%)
Gene names: TTHA1666, rps11, rpsK
Sequence domains: Ribosomal protein S11
Small ribosomal subunit protein uS12 Chain: L
Molecule details ›
Chain: L
Length: 131 amino acids
Theoretical weight: 14.51 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SHN3 (Residues: 2-132; Coverage: 99%)
Gene names: TTHA1697, rpsL
Sequence domains: Ribosomal protein S12/S23
Small ribosomal subunit protein uS13 Chain: M
Molecule details ›
Chain: M
Length: 125 amino acids
Theoretical weight: 14.21 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80377 (Residues: 2-126; Coverage: 99%)
Gene names: TTHA1667, rps13, rpsM
Sequence domains: Ribosomal protein S13/S18
Small ribosomal subunit protein uS14 Chain: N
Molecule details ›
Chain: N
Length: 60 amino acids
Theoretical weight: 7.03 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P0DOY6 (Residues: 2-61; Coverage: 98%)
Gene names: TTHA1679, rpsN, rpsZ
Sequence domains: Ribosomal protein S14p/S29e
Small ribosomal subunit protein uS15 Chain: O
Molecule details ›
Chain: O
Length: 88 amino acids
Theoretical weight: 10.45 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SJ76 (Residues: 2-89; Coverage: 99%)
Gene names: TTHA1138, rpsO
Sequence domains: Ribosomal protein S15
Small ribosomal subunit protein bS16 Chain: P
Molecule details ›
Chain: P
Length: 88 amino acids
Theoretical weight: 10.41 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SJH3 (Residues: 1-88; Coverage: 100%)
Gene names: TTHA1035, rpsP
Sequence domains: Ribosomal protein S16
Small ribosomal subunit protein uS17 Chain: Q
Molecule details ›
Chain: Q
Length: 104 amino acids
Theoretical weight: 12.14 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P0DOY7 (Residues: 2-105; Coverage: 99%)
Gene names: TTHA1683, rpsQ
Sequence domains: Ribosomal protein S17
Small ribosomal subunit protein bS18 Chain: R
Molecule details ›
Chain: R
Length: 87 amino acids
Theoretical weight: 10.11 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SLQ0 (Residues: 2-88; Coverage: 99%)
Gene names: TTHA0243, rpsR
Sequence domains: Ribosomal protein S18
Small ribosomal subunit protein uS19 Chain: S
Molecule details ›
Chain: S
Length: 92 amino acids
Theoretical weight: 10.47 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SHP2 (Residues: 2-93; Coverage: 99%)
Gene names: TTHA1688, rpsS
Sequence domains: Ribosomal protein S19
Small ribosomal subunit protein bS20 Chain: T
Molecule details ›
Chain: T
Length: 105 amino acids
Theoretical weight: 11.6 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: P80380 (Residues: 2-106; Coverage: 99%)
Gene names: TTHA1397, rps20, rpsT
Sequence domains: Ribosomal protein S20
Small ribosomal subunit protein bTHX Chain: U
Molecule details ›
Chain: U
Length: 26 amino acids
Theoretical weight: 3.22 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SIH3 (Residues: 2-27; Coverage: 96%)
Gene names: TTHA1396, rpsU
Sequence domains: 30S ribosomal protein Thx
Translation initiation factor IF-3 Chain: V
Molecule details ›
Chain: V
Length: 89 amino acids
Theoretical weight: 10.36 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SKU2 (Residues: 83-171; Coverage: 52%)
Gene names: TTHA0551, infC
Sequence domains: Translation initiation factor IF-3, C-terminal domain
16S ribosomal RNA Chain: A
Molecule details ›
Chain: A
Length: 1514 nucleotides
Theoretical weight: 491.51 KDa
Sequence domains: Bacterial small subunit ribosomal RNA

Ligands and Environments

3 bound ligands:
Ligand MG 75 x MG
Ligand WO2 12 x WO2
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID, MPG/DESY, HAMBURG BEAMLINE BW6
Spacegroup: P41212
Unit cell:
a: 407.5Å b: 407.5Å c: 174.8Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.205 0.264

Quick links

Citations

77 review citations

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

6 mentions without citation

Crystal structures of complexes of the small ribosomal subunit with tetracycline, edeine and IF3.
Pioletti et al. (2001)
5 more