› 7kwg

Electron Microscopy
3.75Å resolution

Staphylococcus aureus 30S ribosomal subunit in presence of spermidine

Released:
DOI: 10.2210/pdb7kwg/pdb
PDB entry 7kwg coloured by chain, front view.
PDB entry 7kwg coloured by chain, side view.
PDB entry 7kwg coloured by chain, top view.
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
Primary publication:
Stabilization of Ribosomal RNA of the Small Subunit by Spermidine in Staphylococcus aureus.
Belinite M, Khusainov I, Soufari H, Marzi S, Romby P, Yusupov M, Hashem Y
Front Mol Biosci 8 738752 (2021)
PMID: 34869582
Related structures: EMD-23052

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 21-mer (preferred)
PDBe Complex ID:
PDB-CPX-241260 (preferred)
Entry contents:
19 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (21 distinct):
Small ribosomal subunit protein uS2 Chain: b
Molecule details ›
Chain: b
Length: 255 amino acids
Theoretical weight: 29.14 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FZ25 (Residues: 1-255; Coverage: 100%)
Gene names: SAOUHSC_01232, rpsB
Sequence domains: Ribosomal protein S2
Small ribosomal subunit protein uS3 Chain: c
Molecule details ›
Chain: c
Length: 217 amino acids
Theoretical weight: 24.14 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW12 (Residues: 1-217; Coverage: 100%)
Gene names: SAOUHSC_02506, rpsC
Sequence domains:
Small ribosomal subunit protein uS4 Chain: d
Molecule details ›
Chain: d
Length: 200 amino acids
Theoretical weight: 23.05 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FXK6 (Residues: 1-200; Coverage: 100%)
Gene names: SAOUHSC_01829, rpsD
Sequence domains:
Small ribosomal subunit protein uS5 Chain: e
Molecule details ›
Chain: e
Length: 166 amino acids
Theoretical weight: 17.77 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW23 (Residues: 1-166; Coverage: 100%)
Gene names: SAOUHSC_02494, rpsE
Sequence domains:
Small ribosomal subunit protein bS6 Chain: f
Molecule details ›
Chain: f
Length: 98 amino acids
Theoretical weight: 11.61 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2G113 (Residues: 1-98; Coverage: 100%)
Gene names: SAOUHSC_00348, rpsF
Sequence domains: Ribosomal protein S6
Small ribosomal subunit protein uS7 Chain: g
Molecule details ›
Chain: g
Length: 156 amino acids
Theoretical weight: 17.83 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: P48940 (Residues: 1-156; Coverage: 100%)
Gene names: SAOUHSC_00528, rpsG
Sequence domains: Ribosomal protein S7p/S5e
Small ribosomal subunit protein uS8 Chain: h
Molecule details ›
Chain: h
Length: 132 amino acids
Theoretical weight: 14.85 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW20 (Residues: 1-132; Coverage: 100%)
Gene names: SAOUHSC_02498, rpsH
Sequence domains: Ribosomal protein S8
Small ribosomal subunit protein uS9 Chain: i
Molecule details ›
Chain: i
Length: 132 amino acids
Theoretical weight: 14.86 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW39 (Residues: 1-132; Coverage: 100%)
Gene names: SAOUHSC_02477, rpsI
Sequence domains: Ribosomal protein S9/S16
30S ribosomal protein S10 Chain: j
Molecule details ›
Chain: j
Length: 102 amino acids
Theoretical weight: 11.6 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
Small ribosomal subunit protein uS11 Chain: k
Molecule details ›
Chain: k
Length: 129 amino acids
Theoretical weight: 13.91 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW31 (Residues: 1-129; Coverage: 100%)
Gene names: SAOUHSC_02486, rpsK
Sequence domains: Ribosomal protein S11
Small ribosomal subunit protein uS12 Chain: l
Molecule details ›
Chain: l
Length: 137 amino acids
Theoretical weight: 15.32 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: P0A0H0 (Residues: 1-137; Coverage: 100%)
Gene names: SAOUHSC_00527, rpsL
Sequence domains: Ribosomal protein S12/S23
Small ribosomal subunit protein uS13 Chain: m
Molecule details ›
Chain: m
Length: 121 amino acids
Theoretical weight: 13.75 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW30 (Residues: 1-121; Coverage: 100%)
Gene names: SAOUHSC_02487, rpsM
Sequence domains: Ribosomal protein S13/S18
Small ribosomal subunit protein uS14B Chain: n
Molecule details ›
Chain: n
Length: 61 amino acids
Theoretical weight: 7.32 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW19 (Residues: 1-61; Coverage: 100%)
Gene names: SAOUHSC_02499, rpsN1, rpsZ
Sequence domains: Ribosomal protein S14p/S29e
Small ribosomal subunit protein uS15 Chain: o
Molecule details ›
Chain: o
Length: 89 amino acids
Theoretical weight: 10.63 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2G2Q1 (Residues: 1-89; Coverage: 100%)
Gene names: SAOUHSC_01250, rpsO
Sequence domains: Ribosomal protein S15
Small ribosomal subunit protein bS16 Chain: p
Molecule details ›
Chain: p
Length: 91 amino acids
Theoretical weight: 10.25 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FZ45 (Residues: 1-91; Coverage: 100%)
Gene names: SAOUHSC_01208, rpsP
Sequence domains: Ribosomal protein S16
Small ribosomal subunit protein uS17 Chain: q
Molecule details ›
Chain: q
Length: 87 amino acids
Theoretical weight: 10.2 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW15 (Residues: 1-87; Coverage: 100%)
Gene names: SAOUHSC_02503, rpsQ
Sequence domains: Ribosomal protein S17
Small ribosomal subunit protein bS18 Chain: r
Molecule details ›
Chain: r
Length: 80 amino acids
Theoretical weight: 9.33 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2G111 (Residues: 1-80; Coverage: 100%)
Gene names: SAOUHSC_00350, rpsR
Sequence domains: Ribosomal protein S18
Small ribosomal subunit protein uS19 Chain: s
Molecule details ›
Chain: s
Length: 92 amino acids
Theoretical weight: 10.64 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FW10 (Residues: 1-92; Coverage: 100%)
Gene names: SAOUHSC_02508, rpsS
Sequence domains: Ribosomal protein S19
Small ribosomal subunit protein bS20 Chain: t
Molecule details ›
Chain: t
Length: 83 amino acids
Theoretical weight: 9.04 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
UniProt:
  • Canonical: Q2FXY6 (Residues: 1-83; Coverage: 100%)
Gene names: SAOUHSC_01689, rpsT
Sequence domains: Ribosomal protein S20
Messenger RNA Chain: A
Molecule details ›
Chain: A
Length: 32 nucleotides
Theoretical weight: 10.39 KDa
16S ribosomal RNA Chain: a
Molecule details ›
Chain: a
Length: 1556 nucleotides
Theoretical weight: 503.22 KDa
Sequence domains: Bacterial small subunit ribosomal RNA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.75Å
Relevant EMDB volumes: EMD-23052

Quick links

Citations

3 citation in other articles

Staphylococcus aureus 30S Ribosomal Subunit Purification and Its Biochemical and Cryo-EM Analysis.
Belinite et al. (2022)
2 more