› 1pnv

X-ray diffraction
2.8Å resolution

Crystal Structure of TDP-epi-Vancosaminyltransferase GtfA in complexes with TDP and Vancomycin

Released:
DOI: 10.2210/pdb1pnv/pdb
PDB entry 1pnv coloured by chain, front view.
PDB entry 1pnv coloured by chain, side view.
PDB entry 1pnv coloured by chain, top view.
Source organism: Amycolatopsis orientalis
Primary publication:
Structure of the TDP-epi-vancosaminyltransferase GtfA from the chloroeremomycin biosynthetic pathway.
Mulichak AM, Losey HC, Lu W, Wawrzak Z, Walsh CT, Garavito RM
Proc Natl Acad Sci U S A 100 9238-43 (2003)
PMID: 12874381

Function and Biology Details

Reaction catalysed: 
dTDP-beta-L-4-epi-vancosamine + devancoaminyl-vancomycin = dTDP + chloroorienticin B
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161223 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
dTDP-epi-vancosaminyltransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 404 amino acids
Theoretical weight: 42.77 KDa
Source organism: Amycolatopsis orientalis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P96558 (Residues: 1-396; Coverage: 100%)
Gene name: gtfA
Sequence domains:
Structure domains: Glycogen Phosphorylase B;
VANCOMYCIN Chain: C
Molecule details ›
Chain: C
Length: 7 amino acids
Theoretical weight: 1.15 KDa
Source organism: Amycolatopsis orientalis

Ligands and Environments

Carbohydrate polymer : NEW Components: BGC, RER
Carbohydrate polymer
1 bound ligand:
Ligand TYD 1 x TYD
2 modified residues:
Ligand GHP 2 x GHP
Ligand OMY 1 x OMY

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 5ID-B
Spacegroup: P3221
Unit cell:
a: 153.17Å b: 153.17Å c: 100.64Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.221 0.221 0.269
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

26 review citations

Glycosyltransferases: structures, functions, and mechanisms.
Lairson et al. (2008)
25 more

6 mentions without citation

Chapter 2: Biogenesis of the cell wall and other glycoconjugates of Mycobacterium tuberculosis.
Kaur et al. (2009)
5 more