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› 8y37

Electron Microscopy
2.53Å resolution

Cryo-EM structure of Staphylococcus aureus (15B196) 50S ribosome in complex with MCX-190.

Released:
DOI: 10.2210/pdb8y37/pdb
PDB entry 8y37 coloured by chain, front view.
PDB entry 8y37 coloured by chain, side view.
PDB entry 8y37 coloured by chain, top view.
Source organism: Staphylococcus aureus
Primary publication:
Synthetic macrolides overcoming MLSBK-resistant pathogens.
Ma CX, Li Y, Liu WT, Li Y, Zhao F, Lian XT, Ding J, Liu SM, Liu XP, Fan BZ, Liu LY, Xue F, Li J, Zhang JR, Xue Z, Pei XT, Lin JZ, Liang JH
OpenAccess logo Cell Discov 10 75 (2024)
PMID: 38992047
Related structures: EMD-38874

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 30-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-300256 (preferred)
Entry contents:
28 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (30 distinct):
Large ribosomal subunit protein bL33A Chain: 1
Molecule details ›
Chain: 1
Length: 47 amino acids
Theoretical weight: 5.68 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: Q2FYU6 (Residues: 2-48; Coverage: 96%)
Gene names: SAOUHSC_01328, rpmG1
Sequence domains: Ribosomal protein L33
Large ribosomal subunit protein bL34 Chain: 2
Molecule details ›
Chain: 2
Length: 43 amino acids
Theoretical weight: 5.25 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: Q2FUQ0 (Residues: 2-44; Coverage: 96%)
Gene names: SAOUHSC_03055, rpmH
Sequence domains: Ribosomal protein L34
Large ribosomal subunit protein bL35 Chain: 3
Large ribosomal subunit protein bL36 Chain: 4
Large ribosomal subunit protein uL2 Chain: C
Large ribosomal subunit protein uL3 Chain: D
Large ribosomal subunit protein uL4 Chain: E
Large ribosomal subunit protein uL5 Chain: F
Large ribosomal subunit protein uL6 Chain: G
Large ribosomal subunit protein uL13 Chain: H
Large ribosomal subunit protein uL14 Chain: I
Large ribosomal subunit protein uL15 Chain: J
Large ribosomal subunit protein uL16 Chain: K
Large ribosomal subunit protein bL17 Chain: L
Large ribosomal subunit protein uL18 Chain: M
Large ribosomal subunit protein bL19 Chain: N
Large ribosomal subunit protein bL20 Chain: O
Large ribosomal subunit protein bL21 Chain: P
Large ribosomal subunit protein uL22 Chain: Q
Large ribosomal subunit protein uL23 Chain: R
Large ribosomal subunit protein uL24 Chain: S
Large ribosomal subunit protein bL25 Chain: T
Large ribosomal subunit protein bL27 Chain: U
Large ribosomal subunit protein bL28 Chain: V
Large ribosomal subunit protein uL29 Chain: W
Large ribosomal subunit protein uL30 Chain: X
Large ribosomal subunit protein bL31B Chain: Y
Large ribosomal subunit protein bL32 Chain: Z
23S ribosomal RNA Chain: A
5S ribosomal RNA Chain: B

Ligands and Environments

2 bound ligands:
Ligand A1D6G 1 x A1D6G
Ligand MG 12 x MG
5 modified residues:
Ligand 5MU 2 x 5MU
Ligand MA6 1 x MA6
Ligand OMG 1 x OMG
Ligand 2MG 1 x 2MG
Ligand 2MA 1 x 2MA

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 2.53Å
Relevant EMDB volumes: EMD-38874

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