4NG3

Crystal structure of 5-carboxyvanillate decarboxylase from Sphingomonas paucimobilis complexed with 4-Hydroxy-3-methoxy-5-nitrobenzoic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.751 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.152 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of 5-carboxyvanillate decarboxylase from Sphingomonas paucimobilis complexed with 4-Hydroxy-3-methoxy-5-nitrobenzoic acid

Fedorov, A.A.Fedorov, E.V.Vladimirova, A.Raushel, F.M.Almo, S.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
5-carboxyvanillate decarboxylase
A, B, C, D, E, F, G, H
335Sphingomonas paucimobilisMutation(s): 0 
Gene Names: ligW
Find proteins for Q8RJ47 (Sphingomonas paucimobilis)
Go to UniProtKB:  Q8RJ47
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

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Download CCD File 
A, C, D, E, G, H
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
1DF
Query on 1DF

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H
4-hydroxy-3-methoxy-5-nitrobenzoic acid
C8 H7 N O6
AEDVAGWYAKIOIM-UHFFFAOYSA-N
 Ligand Interaction
PEG
Query on PEG

Download SDF File 
Download CCD File 
B, E, F, H
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.751 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.152 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 80.544α = 66.64
b = 100.399β = 67.96
c = 100.024γ = 88.24
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
BALBESphasing
HKL-2000data reduction
CBASSdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-11-13
    Type: Initial release