1IB4

Crystal Structure of Polygalacturonase from Aspergillus Aculeatus at Ph4.5

Structural Biology Knowledgebase: 1IB4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.168

Literature

Macromolecules
Sequence Display for 1IB4

Classification: HYDROLASE

Total Structure Weight: 74465.22

Macromolecule Entities
Molecule Chains Length Organism Details
POLYGALACTURONASE A, B 339 Aspergillus aculeatus EC#: 3.2.1.15 IUBMB
Gene Name(s): pgaI pg1 pga1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A, B ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CD
Query on CD

B CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.168
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 56.10 α = 90.00
b = 96.40 β = 107.30
c = 57.77 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-03-27
  • Released Date: 2001-09-19
  • Deposition author(s): Cho, S.W., Shin, W.

Revision History

  • 2014-12-17
    Type: Linkage | Details: update link
  • 2014-12-17
    Type: Binding sites and description | Details: update site
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update