6DPZ

X-ray crystal structure of AmpC beta-lactamase with inhibitor

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history. 

Literature

Ultra-large library docking for new chemotypes

Lyu, J., Wang, S., Balius, T.E., Singh, I., Levit, A., Moroz, Y.S., O'Meara, M.J., Algaa, E., Tolmachov, A.A., Shoicht, B.K., Roth, B.L., Irwin, J.J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-lactamase
A, B
358Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: ampC (ampA)
EC: 3.5.2.6
Find proteins for P00811 (Escherichia coli (strain K12))
Go to UniProtKB:  P00811
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
H7D
Query on H7D
Download SDF File 
Download CCD File 
A, B
(1R,2S)-2-{[(pyrrolidin-1-yl)sulfonyl]amino}cyclooctane-1-carboxylic acid
C13 H24 N2 O4 S
SEHSQFUMMWGJHC-NEPJUHHUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.191 
  • Space Group: I 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 97.702α = 90.00
b = 77.737β = 113.25
c = 115.686γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
XDSdata reduction
PDB_EXTRACTdata extraction
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2018-06-09 
  • Released Date: 2018-07-04 
  • Deposition Author(s): Singh, I.

Revision History 

  • Version 1.0: 2018-07-04
    Type: Initial release