1C5I

HYDROGEN BONDING AND CATALYSIS: AN UNEXPECTED EXPLANATION FOR HOW A SINGLE AMINO ACID SUBSTITUTION CAN CHANGE THE PH OPTIMUM OF A GLYCOSIDASE

Structural Biology Knowledgebase: 1C5I SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Observed: 0.193

Literature

Macromolecules
Sequence Display for 1C5I

Classification: HYDROLASE

Total Structure Weight: 20678.40

Macromolecule Entities
Molecule Chains Length Organism Details
ENDO-1,4-BETA-XYLANASE A 185 Bacillus circulans EC#: 3.2.1.8 IUBMB
Fragment: CATALYTIC DOMAIN
Mutation: N35D
Details: 2-DEOXY-2-FLUORO-XYLOBIOSE COVALENTLY BONDED TO GLU 78 OE2
Gene Name(s): xlnA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A BETA-D-XYLOPYRANOSE
C5 H10 O5
SRBFZHDQGSBBOR-KKQCNMDGSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DFX
Query on DFX

A 1,2-DEOXY-2-FLUORO-XYLOPYRANOSE
C5 H9 F O3
YIJTWYXBSRZXRS-VPENINKCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Observed: 0.193
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 43.83 α = 90.00
b = 52.74 β = 90.00
c = 78.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-24
  • Released Date: 2000-05-12
  • Deposition author(s): Joshi, M.D., Sidhu, G., Pot, I., Brayer, G.D., Withers, S.G., Mcintosh, L.P.

Revision History

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