3N8I

Crystal structure of the A isoform of human cytoplasmic protein tyrosine phosphatase (HCPTP-A) in complex with 1-naphtylacetic acid

• PDB DOI: https://doi.org/10.2210/pdb3N8I/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-05-28 Released: 2011-12-07 
• Deposition Author(s): Homan, K.T., Balasubramaniam, D., Stauffacher, C.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.203 
• R-Value Work: 0.174 
• R-Value Observed: 0.175 

Starting Model: experimental

Literature

Structural Characterization of a Secondary Binding Site on Low Molecular Weight Protein Tyrosine Phosphatases

Homan, K.T., Balasubramaniam, D., Stauffacher, C.V.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 18.12 kDa 
• Atom Count: 1,528 
• Modelled Residue Count: 154 
• Deposited Residue Count: 157 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Low molecular weight phosphotyrosine protein phosphatase	A	157	Homo sapiens	Mutation(s): 0  Gene Names: ACP1, APC1 EC: 3.1.3.48 (PDB Primary Data), 3.1.3.2 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P24666 (Homo sapiens) Explore P24666  Go to UniProtKB:  P24666
PHAROS:  P24666 GTEx:  ENSG00000143727

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NLA	B [auth A]	NAPHTHALEN-1-YL-ACETIC ACID C12 H10 O2 PRPINYUDVPFIRX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.203 
• R-Value Work: 0.174 
• R-Value Observed: 0.175 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.46	α = 90
b = 56.09	β = 90
c = 95.99	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-12-07 
Deposition Author(s): Homan, K.T., Balasubramaniam, D., Stauffacher, C.V.

Revision History  

• Version 1.0: 2011-12-07
  Type: Initial release
  
• Version 1.1: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description