2NZ6

Crystal structure of the PTPRJ inactivating mutant C1239S

Structural Biology Knowledgebase: 2NZ6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.182

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2NZ6

Classification: HYDROLASE

Total Structure Weight: 37290.82

Macromolecule Entities
Molecule Chains Length Organism Details
Receptor-type tyrosine-protein phosphatase eta A 316 Homo sapiens EC#: 3.1.3.48 IUBMB
Fragment: Tyrosine-protein phosphatase
Mutation: C1239S
Gene Name(s): PTPRJ Gene View DEP1

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NI
Query on NI

A NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.182
  • Space Group: H 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 88.52 α = 90.00
b = 88.52 β = 90.00
c = 118.95 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-11-22
  • Released Date: 2006-12-12
  • Deposition author(s): Ugochukwu, E., Barr, A., Savitsky, P., Pike, A.C.W., Bunkoczi, G., Sundstrom, M., Weigelt, J., Arrowsmith, C.H., Edwards, A., von Delft, F., Knapp, S., Structural Genomics Consortium (SGC)

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
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values