3IP8

Crystal structure of arylmalonate decarboxylase (AMDase) from Bordatella bronchiseptic in complex with benzylphosphonate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.498 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.158 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-Guided Directed Evolution of Alkenyl and Arylmalonate Decarboxylases.

Okrasa, K.Levy, C.Wilding, M.Goodall, M.Baudendistel, N.Hauer, B.Leys, D.Micklefield, J.

(2009) Angew.Chem.Int.Ed.Engl. 48: 7691-7694


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Arylmalonate decarboxylase
A
248Bordetella bronchisepticaMutation(s): 0 
EC: 4.1.1.76
Find proteins for Q05115 (Bordetella bronchiseptica)
Go to UniProtKB:  Q05115
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
B85
Query on B85

Download SDF File 
Download CCD File 
A
benzylphosphonic acid
C7 H9 O3 P
OGBVRMYSNSKIEF-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
B85Ki: 5200000 nM BINDINGMOAD
B85Ki: 5200000 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.498 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.158 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 38.640α = 90.00
b = 65.600β = 110.42
c = 41.880γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
DNAdata collection
XSCALEdata scaling
XDSdata reduction
PHENIXmodel building
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-10-06
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance