Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 66.18 kDa 
• Atom Count: 4940 
• Residue Count: 559 
• Unique protein chains: 1

2OOQ

Crystal Structure of the Human Receptor Phosphatase PTPRT

• DOI: 10.2210/pdb2OOQ/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-01-26 Released: 2007-02-20 
• Deposition Author(s): Ugochukwu, E., Alfano, I., Barr, A., Keates, T., Eswaran, J., Salah, E., Savitsky, P., Bunkoczi, G., Edwards, A., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., von Delft, F., Knapp, S., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.188 
• R-Value Work: 0.145 
• R-Value Observed: 0.147 

Literature

Large-scale structural analysis of the classical human protein tyrosine phosphatome.

Barr, A.J., Ugochukwu, E., Lee, W.H., King, O.N., Filippakopoulos, P., Alfano, I., Savitsky, P., Burgess-Brown, N.A., Muller, S., Knapp, S.

(2009) Cell 136: 352-363

• PubMed: 19167335 
• DOI: 10.1016/j.cell.2008.11.038
• Primary Citation of Related Structures:  
  2QEP, 2OOQ, 2P6X, 2PA5, 2NLK, 2NZ6, 2OC3, 2JJD, 2GJT, 2CFV


• PubMed Abstract: 
  

Protein tyrosine phosphatases (PTPs) play a critical role in regulating cellular functions by selectively dephosphorylating their substrates. Here we present 22 human PTP crystal structures that, together with prior structural knowledge, enable a comprehensive analysis of the classical PTP family. Despite their largely conserved fold, surface properties of PTPs are strikingly diverse. A potential secondary substrate-binding pocket is frequently found in phosphatases, and this has implications for both substrate recognition and development of selective inhibitors. Structural comparison identified four diverse catalytic loop (WPD) conformations and suggested a mechanism for loop closure. Enzymatic assays revealed vast differences in PTP catalytic activity and identified PTPD1, PTPD2, and HDPTP as catalytically inert protein phosphatases. We propose a "head-to-toe" dimerization model for RPTPgamma/zeta that is distinct from the "inhibitory wedge" model and that provides a molecular basis for inhibitory regulation. This phosphatome resource gives an expanded insight into intrafamily PTP diversity, catalytic activity, substrate recognition, and autoregulatory self-association.

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Organizational Affiliation: 

University of Oxford, Structural Genomics Consortium, Old Road Campus Research Building, Roosevelt Drive, Headington, Oxford, OX3 7DQ, UK. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Receptor-type tyrosine-protein phosphatase T	A, B	286	Homo sapiens	Mutation(s): 0  Gene Names: PTPRT, KIAA0283 EC: 3.1.3.48
Find proteins for O14522 (Homo sapiens) Explore O14522  Go to UniProtKB:  O14522
NIH Common Fund Data Resources
PHAROS:  O14522 GTEx:  ENSG00000196090

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
B3P	A, B	2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C11 H26 N2 O6 HHKZCCWKTZRCCL-UHFFFAOYSA-N
EDO	B	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
NA	B	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.188 
• R-Value Work: 0.145 
• R-Value Observed: 0.147 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.186	α = 90
b = 86.697	β = 99.89
c = 91.12	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CrystalClear	data collection
MOSFLM	data reduction
CCP4	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-01-26 
• Released Date: 2007-02-20 
Deposition Author(s): Ugochukwu, E., Alfano, I., Barr, A., Keates, T., Eswaran, J., Salah, E., Savitsky, P., Bunkoczi, G., Edwards, A., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., von Delft, F., Knapp, S., Structural Genomics Consortium (SGC)

Revision History 

• Version 1.0: 2007-02-20
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2018-04-04
  Changes: Data collection