› 1fvm

X-ray diffraction
1.8Å resolution

Complex of vancomycin with DI-acetyl-LYS-D-ALA-D-ALA

Released:
DOI: 10.2210/pdb1fvm/pdb
PDB entry 1fvm coloured by chain, front view.
PDB entry 1fvm coloured by chain, side view.
PDB entry 1fvm coloured by chain, top view.
Source organism: Amycolatopsis orientalis
Primary publication:
Crystal structures of the complexes between vancomycin and cell-wall precursor analogs.
Nitanai Y, Kikuchi T, Kakoi K, Hanamaki S, Fujisawa I, Aoki K
J Mol Biol 385 1422-32 (2009)
PMID: 18976660

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-162189 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
VANCOMYCIN Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 7 amino acids
Theoretical weight: 1.15 KDa
Source organism: Amycolatopsis orientalis
Expression system: Not provided
DI-ACETYL-LYS-D-ALA-D-ALA Chains: G, H, I, J, K, L
Molecule details ›
Chains: G, H, I, J, K, L
Length: 3 amino acids
Theoretical weight: 372 Da
Source organism: Amycolatopsis orientalis
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: BGC, RER
Carbohydrate polymer
No bound ligands
4 modified residues:
Ligand GHP 12 x GHP
Ligand OMY 6 x OMY
Ligand DLS 6 x DLS
Ligand DAL 12 x DAL

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: P212121
Unit cell:
a: 35.637Å b: 36.425Å c: 65.728Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.144 0.144 not available
Expression system: Not provided

Quick links

Citations

14 review citations

Prospects for new antibiotics: a molecule-centered perspective.
Walsh et al. (2014)
13 more

22 mentions without citation

Targeting Antibiotic Resistance.
Chellat et al. (2016)
21 more