1NQV

Crystal Structure of Lumazine Synthase from Aquifex aeolicus in Complex with Inhibitor: 5-nitroso-6-ribityl-amino-2,4(1H,3H)pyrimidinedione

Structural Biology Knowledgebase: 1NQV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.181
  • R-Value Work: 0.155

Literature

Macromolecules
Sequence Display for 1NQV

Classification: TRANSFERASE

Total Structure Weight: 85562.77

Macromolecule Entities
Molecule Chains Length Organism Details
6,7-dimethyl-8-ribityllumazine synthase A, B, C, D, E 154 Aquifex aeolicus EC#: 2.5.1.78 IUBMB
Gene Name(s): ribH aq_132
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E 5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE
C9 H14 N4 O7
YMWIHKCBRFEJMH-RPDRRWSUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B, C, D, E PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.181
  • R-Value Work: 0.155
  • Space Group: I 2 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 180.12 α = 90.00
b = 180.12 β = 90.00
c = 180.12 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-01-23
  • Released Date: 2004-01-23
  • Deposition author(s): Zhang, X., Meining, W., Cushman, M., Haase, I., Fischer, M., Bacher, A., Ladenstein, R.

Revision History

  • 2013-01-16
    Type: Polymer description | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values