3PVZ

UDP-N-acetylglucosamine 4,6-dehydratase from Vibrio fischeri


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

UDP-N-acetylglucosamine 4,6-dehydratase from Vibrio fischeri.

Osipiuk, J.Marshall, N.Tesar, C.Pearson, L.Buck, K.Joachimiak, A.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
UDP-N-acetylglucosamine 4,6-dehydratase
A, B, C, D
399Aliivibrio fischeri (strain ATCC 700601 / ES114)Mutation(s): 0 
EC: 4.2.1.-
Find proteins for Q5E8L1 (Aliivibrio fischeri (strain ATCC 700601 / ES114))
Go to UniProtKB:  Q5E8L1
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
SCN
Query on SCN

Download SDF File 
Download CCD File 
A, C, D
THIOCYANATE ION
C N S
ZMZDMBWJUHKJPS-UHFFFAOYSA-M
 Ligand Interaction
NAD
Query on NAD

Download SDF File 
Download CCD File 
A, B, C, D
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.187 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 69.920α = 102.71
b = 74.837β = 95.15
c = 88.789γ = 100.35
Software Package:
Software NamePurpose
SBC-Collectdata collection
SHELXDphasing
SOLVEphasing
REFMACrefinement
DENZOdata reduction
RESOLVEphasing
HKL-3000data reduction
MLPHAREphasing
DMphasing
PDB_EXTRACTdata extraction
HKL-3000data scaling
SCALEPACKdata scaling
HKL-3000phasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-01-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-08
    Type: Refinement description