3VMT

Crystal structure of Staphylococcus aureus membrane-bound transglycosylase in complex with a Lipid II analog


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 3VMT

Classification: TRANSFERASE

Total Structure Weight: 62510.62

Macromolecule Entities
Molecule Chains Length Organism Details
Monofunctional glycosyltransferase A, B 263 Staphylococcus aureus EC#: 2.4 IUBMB
Fragment: residues 28-269
Gene Name(s): mgt SAV1874
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: MONOTOPIC MEMBRANE PROTEINS

Subgroup Name: Glycosyltransferases

Protein Name: Monofunctional glycosyltransferase in complex with Lipid II analog


Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LHI
Query on LHI

A [(2R,3R,4R,5S,6R)-4-[(2R)-1-[[(2S)-1-[2-[2- [2-[5-[(3aS,4S,6aR)-2-oxidanylidene-1,3,3a,4,6,6a- hexahydrothieno[3,4-d]imidazol-4-yl]pentanoylamino]ethoxy]ethoxy]ethylamino]- 1-oxidanylidene-propan-2-yl]amino]-1-oxidanylidene- propan-2-yl]oxy-3-acetamido-5-[(2S,3R,4R,5R,6R)- 3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan- 2-yl]oxy-6-(hydroxymethyl)oxan-2-yl] [oxidanyl(3,7,11,15,19,23,27,31,35,39,43- undecamethyltetratetraconta-2,6,10,14,18,22,26,30,34,38,42- undecaenoxy)phosphoryl] hydrogen phosphate
C93 H155 N7 O23 P2 S
WLFSVWBINOGDFX-PARYEQGPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.197
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 66.49 α = 90.00
b = 67.43 β = 90.00
c = 152.19 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-15
  • Released Date: 2012-04-18
  • Deposition author(s): Huang, C.Y., Shih, H.W., Lin, L.Y., Tien, Y.W., Cheng, T.J.R., Cheng, W.C., Wong, C.H., Ma, C.

Revision History

  • Version 1_0: 2012-04-18

    Type: Initial release

  • Version 1_1: 2013-07-17

    Type: Database references