3NX4

Crystal structure of the yhdH oxidoreductase from Salmonella enterica in complex with NADP

Structural Biology Knowledgebase: 3NX4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.191
  • R-Value Work: 0.155

Literature

Macromolecules
Sequence Display for 3NX4

Classification: oxidoreductase

Total Structure Weight: 71088.63

Macromolecule Entities
Molecule Chains Length Organism Details
Putative oxidoreductase A, B 324 Salmonella enterica Gene Name(s): yhdH STM3376
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAP
Query on NAP

A, B NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE (Synonym)
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 103.22 α = 90.00
b = 122.36 β = 121.10
c = 64.91 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-12
  • Released Date: 2010-08-04
  • Deposition author(s): Anderson, S.M., Wawrzak, Z., Peterson, S., Onopriyenko, O., Skarina, T., Anderson, W.F., Savchenko, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History

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