2F6V

Protein tyrosine phosphatase 1B with sulfamic acid inhibitors

• PDB DOI: https://doi.org/10.2210/pdb2F6V/pdb

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


• Deposited: 2005-11-29 Released: 2005-12-13 
• Deposition Author(s): Evdokimov, A.G., Pokross, M.E., Klopfenstein, S.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.188 
• R-Value Work: 0.171 
• R-Value Observed: 0.172 

Starting Model: experimental

Literature

1,2,3,4-Tetrahydroisoquinolinyl sulfamic acids as phosphatase PTP1B inhibitors

Klopfenstein, S.R., Evdokimov, A.G., Colson, A.-O., Fairweather, N.T., Neuman, J.J., Maier, M.B., Gray, J.L., Gerwe, G.S., Stake, G.E., Howard, B.W., Farmer, J.A., Pokross, M.E., Downs, T.R., Kasibhatla, B., Peters, K.G.

(2006) Bioorg Med Chem Lett 16: 1574-1578

• PubMed: 16386905 
• DOI: https://doi.org/10.1016/j.bmcl.2005.12.051
• Primary Citation of Related Structures:  
  2F6T, 2F6V, 2F6W, 2F6Y, 2F6Z, 2F70, 2F71


• PubMed Abstract: 
  

  High-throughput screening of the P&GP corporate repository against several protein tyrosine phosphatases identified the sulfamic acid moiety as potential phosphotyrosine mimetic. Incorporation of the sulfamic acid onto a 1,2,3,4-tetrahydroisoquinoline scaffold provided a promising starting point for PTP1B inhibitor design.

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Organizational Affiliation: 

Procter & Gamble Pharmaceuticals, Health Care Research Center, 8700 Mason-Montgomery Road, Mason, OH 45040, USA. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 35.34 kDa 
• Atom Count: 2,856 
• Modelled Residue Count: 297 
• Deposited Residue Count: 298 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein phosphatase, non-receptor type 1	A	298	Homo sapiens	Mutation(s): 0  Gene Names: PTPN1, PTP1B EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for P18031 (Homo sapiens) Explore P18031  Go to UniProtKB:  P18031
PHAROS:  P18031 GTEx:  ENSG00000196396

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SK2	H [auth A]	(3R)-METHYLCARBAMOYL-7-SULFOAMINO-3,4-DIHYDRO-1H-ISOQUINOLINE-2-CARBOXYLIC ACID BENZYL ESTER C19 H21 N3 O6 S MFDBNNQUDZFSES-KRWDZBQOSA-N
CL	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
SK2	PDBBind:  2F6V	IC50: 3.70e+4 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.188 
• R-Value Work: 0.171 
• R-Value Observed: 0.172 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.984	α = 90
b = 87.984	β = 90
c = 104.455	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-12-13 
Deposition Author(s): Evdokimov, A.G., Pokross, M.E., Klopfenstein, S.R.

Revision History  

• Version 1.0: 2005-12-13
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-23
  Changes: Data collection, Database references, Derived calculations, Refinement description