1NVB

Crystal structure of 3-dehydroquinate synthase (DHQS) in complex with ZN2+ and carbaphosphonate

Structural Biology Knowledgebase: 1NVB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.272
  • R-Value Work: 0.216

Literature

Macromolecules
Sequence Display for 1NVB

Classification: lyase

Total Structure Weight: 87339.34

Macromolecule Entities
Molecule Chains Length Organism Details
3-DEHYDROQUINATE SYNTHASE A, B 393 Aspergillus nidulans EC#: 4.2.3.4 IUBMB
Gene Name(s): aromA aroA aroM AN0708
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAD
Query on NAD

A NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CRB
Query on CRB

A, B [1R-(1ALPHA,3BETA,4ALPHA,5BETA)]-5-(PHOSPHONOMETHYL)- 1,3,4-TRIHYDROXYCYCLOHEXANE-1-CARBOXYLIC ACID
CARBAPHOSPHONATE (Synonym)
C8 H15 O8 P
BKLICLLAHMTUPK-UNGCPHIMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.272
  • R-Value Work: 0.216
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 131.55 α = 90.00
b = 84.19 β = 90.00
c = 73.74 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-02-03
  • Released Date: 2003-03-18
  • Deposition author(s): Nichols, C.E., Ren, J., Lamb, H.K., Hawkins, A.R., Stammers, D.K.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4