1XIG

MODES OF BINDING SUBSTRATES AND THEIR ANALOGUES TO THE ENZYME D-XYLOSE ISOMERASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Modes of binding substrates and their analogues to the enzyme D-xylose isomerase.

Carrell, H.L.Hoier, H.Glusker, J.P.

(1994) Acta Crystallogr.,Sect.D 50: 113-123

  • DOI: 10.1107/S0907444993009345
  • Primary Citation of Related Structures:  1XIB, 1XIC, 1XID, 1XIE, 1XIF, 1XIH, 1XII, 1XIJ
  • Also Cited By: 2GVE

  • PubMed Abstract: 
  • Studies of binding of substrates and inhibitors of the enzyme D-xylose isomerase show, from X-ray diffraction data at 1.6-1.9 A resolution, that there are a variety of binding modes. These vary in the manner in which the substrate or its analogue ext ...

    Studies of binding of substrates and inhibitors of the enzyme D-xylose isomerase show, from X-ray diffraction data at 1.6-1.9 A resolution, that there are a variety of binding modes. These vary in the manner in which the substrate or its analogue extend, on binding, across the carboxy end of the (betaalpha)(8)-barrel structure. These binding sites are His54 and the metal ion (magnesium or manganese) that is held in place by Glul81, Asp245, Glu217 and Asp287. Possible catalytic groups have been identified in proposed mechanisms and their role in the binding of ligands is illustrated.


    Related Citations: 
    • X-Ray Crystal Structure of D-Xylose Isomerase at 4-Angstroms Resolution
      Carrell, H.L.,Rubin, B.H.,Hurley, T.J.,Glusker, J.P.
      (1984) J.Biol.Chem. 259: 3230
    • Comparison of Backbone Structures of Glucose Isomerase from Streptomyces and Arthrobacter
      Henrick, K.,Blow, D.M.,Carrell, H.L.,Glusker, J.P.
      (1987) Protein Eng. 1: 467
    • X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with a Mechanism-Designed Inactivator
      Carrell, H.L.,Glusker, J.P.,Burger, V.,Manfre, F.,Biellmann, D.Tritsch J.-F.
      (1989) Proc.Natl.Acad.Sci.USA 86: 4440


    Organizational Affiliation

    The Institute for Cancer Research, The Fox Chase Cancer Center, Philadelphia, PA 19111, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
D-XYLOSE ISOMERASE
A
388Streptomyces rubiginosusGene Names: xylA
EC: 5.3.1.5
Find proteins for P24300 (Streptomyces rubiginosus)
Go to UniProtKB:  P24300
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
XYL
Query on XYL

Download SDF File 
Download CCD File 
A
D-XYLITOL
C5 H12 O5
HEBKCHPVOIAQTA-SCDXWVJYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 93.900α = 90.00
b = 99.700β = 90.00
c = 102.900γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-06-22
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance