1NYT

SHIKIMATE DEHYDROGENASE AroE COMPLEXED WITH NADP+

Structural Biology Knowledgebase: 1NYT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.169
  • R-Value Work: 0.132

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1NYT

Classification: OXIDOREDUCTASE

Total Structure Weight: 121959.49

Macromolecule Entities
Molecule Chains Length Organism Details
Shikimate 5-dehydrogenase A, B, C, D 271 Escherichia coli EC#: 1.1.1.25 IUBMB
Gene Name(s): aroE b3281 JW3242

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

A, B, C, D NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE (Synonym)
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DTV
Query on DTV

A (2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL
C4 H10 O2 S2
VHJLVAABSRFDPM-QWWZWVQMSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.169
  • R-Value Work: 0.132
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 110.52 α = 90.00
b = 140.02 β = 122.07
c = 102.71 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-02-13
  • Released Date: 2003-03-04
  • Deposition author(s): Roszak, A.W., Lapthorn, A.J.

Revision History

  • 2011-07-13
    Type: Atom occupancy | Details: Restore author's atom occupancy
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4