4R0Q

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

Structural Biology Knowledgebase: 4R0Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.179

Literature

Macromolecules
Sequence Display for 4R0Q

Classification: TRANSFERASE

Total Structure Weight: 102776.45

Macromolecule Entities
Molecule Chains Length Organism Details
Peptidoglycan glycosyltransferase A, B 482 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 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CEP
Query on CEP

A, B CEPHALOTHIN GROUP
C16 H18 N2 O6 S2
UUWFGEKEQSCSMB-IAQYHMDHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
B3P
Query on B3P

A, B 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)- PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3- DIOL
C11 H26 N2 O6
HHKZCCWKTZRCCL-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SCN
Query on SCN

A, B THIOCYANATE ION
C N S
ZMZDMBWJUHKJPS-UHFFFAOYSA-M
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: 2.0 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.179
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.55 α = 90.00
b = 70.00 β = 96.76
c = 115.23 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-08-01
  • Released Date: 2014-08-27
  • 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