2B5E

Crystal Structure of Yeast Protein Disulfide Isomerase

Structural Biology Knowledgebase: 2B5E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2B5E

Classification: ISOMERASE

Total Structure Weight: 56743.80

Macromolecule Entities
Molecule Chains Length Organism Details
Protein disulfide-isomerase A 504 Saccharomyces cerevisiae EC#: 5.3.4.1 IUBMB
Gene Name(s): PDI1 MFP1 TRG1 YCL043C YCL313 YCL43C

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

A BARIUM ION
Ba
XDFCIPNJCBUZJN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.191
  • Space Group: I 4
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 136.56 α = 90.00
b = 136.56 β = 90.00
c = 69.52 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-09-28
  • Released Date: 2006-01-24
  • Deposition author(s): Schindelin, H., Tian, G.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4