3KBN

Room temperature structure of D-Xylose Isomerase in complex with 2Ni(2+) co-factors and d12-D-glucose in the linear form

Structural Biology Knowledgebase: 3KBN SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.138

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3KBN

Classification: ISOMERASE

Total Structure Weight: 43639.96

Macromolecule Entities
Molecule Chains Length Organism Details
Xylose isomerase A 388 Streptomyces rubiginosus EC#: 5.3.1.5 IUBMB
Details: THE PROTEIN WAS PURCHASED FROM HAMPTON RESEARCH
Gene Name(s): xylA

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

A D-GLUCOSE IN LINEAR FORM
C6 H12 O6
GZCGUPFRVQAUEE-SLPGGIOYSA-N
Ligand Explorer
 
JSmol
NI
Query on NI

A NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.138
  • Space Group: I 2 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 94.01 α = 90.00
b = 99.67 β = 90.00
c = 102.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-10-20
  • Released Date: 2010-06-16
  • Deposition author(s): Kovalevsky, A.Y., Hanson, L., Langan, P.

Revision History

  • 2012-03-07
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4