3F9B

W354F Yersinia enterocolitica PTPase complexed with divanadate

Structural Biology Knowledgebase: 3F9B SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.42 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.173

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3F9B

Classification: HYDROLASE

Total Structure Weight: 34029.07

Macromolecule Entities
Molecule Chains Length Organism Details
Tyrosine-protein phosphatase yopH A 306 Yersinia enterocolitica EC#: 3.1.3.48 IUBMB
Fragment: YopH catalytic domain: UNP residues 164-468
Mutation: C235R, W354F
Gene Name(s): yopH yop51
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A Divanadate ion
H O7 V2
YWFXIPDXSJHXJM-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
VO4
Query on VO4

A VANADATE ION
O4 V
LSGOVYNHVSXFFJ-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: 1.42 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.173
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 54.20 α = 90.00
b = 58.19 β = 90.00
c = 90.35 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-11-13
  • Released Date: 2009-01-20
  • Deposition author(s): Brandao, T.A.S., Robinson, H., Johnson, S.J., Hengge, A.C.

Revision History

  • 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