4RA7

Structure of a putative peptidoglycan glycosyltransferase from Atopobium parvulum in complex with nafcillin

Structural Biology Knowledgebase: 4RA7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.94 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.161

Literature

Macromolecules
Sequence Display for 4RA7

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 94958.12

Macromolecule Entities
Molecule Chains Length Organism Details
Peptidoglycan glycosyltransferase A, B 453 Atopobium parvulum EC#: 2.4.1.129 IUBMB
Fragment: UNP residues 505-954
Gene Name(s): Apar_1344
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NXU
Query on NXU

A, B (2R,4S)-2-[(1R)-2-hydroxy-1-{[(2-hydroxynaphthalen- 1-yl)carbonyl]amino}ethyl]-5,5-dimethyl-1,3- thiazolidine-4-carboxylic acid
C19 H22 N2 O5 S
BZLDRFAHCQLJIH-ISTRZQFTSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.94 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.161
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.40 α = 90.00
b = 70.06 β = 96.97
c = 114.57 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-09-09
  • Released Date: 2014-09-24
  • Deposition author(s): Filippova, E.V., Minasov, G., Kiryukhina, O., Clancy, S., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

Revision History

No revisions since initial release