4I8N | pdb_00004i8n

CRYSTAL STRUCTURE of PROTEIN TYROSINE PHOSPHATASE 1B IN COMPLEX WITH AN INHIBITOR [(4-{(2S)-2-(1,3-BENZOXAZOL-2-YL)-2-[(4-FLUOROPHENYL)SULFAMOYL]ETHYL}PHENYL)AMINO](OXO)ACETIC ACID

• PDB DOI: https://doi.org/10.2210/pdb4I8N/pdb

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


• Deposited: 2012-12-03 Released: 2012-12-26 
• Deposition Author(s): Reddy, S.M.V.V.V., Rao, K.N., Subramanya, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.248 (Depositor), 0.253 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.193 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Literature

X-Ray Structure of PTP1B in Complex with a New PTP1B Inhibitor.

Reddy, M.V., Ghadiyaram, C., Panigrahi, S.K., Krishnamurthy, N.R., Hosahalli, S., Chandrasekharappa, A.P., Manna, D., Badiger, S.E., Dubey, P.K., Mangamoori, L.N.

(2014) Protein Pept Lett 21: 90-93

• PubMed: 23964742 
• DOI: https://doi.org/10.2174/09298665113209990089
• Primary Citation Related Structures: 
  4I8N


• PubMed Abstract: 
  

  Protein tyrosine phosphatase 1B (PTP1B) is a prototype non receptor cytoplasmic PTPase enzyme that has been implicated in regulation of insulin and leptin signaling pathways. Studies on PTP1B knockout mice and PTP1B antisense treated mice suggested that inhibition of PTP1B would be an effective strategy for the treatment of type II diabetes and obesity. Here we report the X-ray structure of PTP1B in complex with compound IN1834-146C (PDB ID 4I8N). The crystals belong to P3121 space group with cell dimensions (a = b = 87.89 Å, c = 103.68 Å) diffracted to 2.5 Å. The crystal structure contained one molecule of protein in the asymmetric unit and was solved by molecular replacement method. The compound engages both catalytic site and allosteric sites of PTP1B protein. We described the molecular interaction of the compound with the active site residues of PTP1B in this crystal structure report.

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Organizational Affiliation: 
• Aurigene Discovery Technologies Ltd, 39-40 KIADB Industrial Area, Phase II, Electronic city, Hosur Road, Bangalore-560100, India. [e-mail].

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: 41.29 kDa 
• Atom Count: 2,526 
• Modeled Residue Count: 298 
• Deposited Residue Count: 354 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein phosphatase non-receptor type 1	A	354	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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1CG	B [auth A]	[(4-{(2S)-2-(1,3-benzoxazol-2-yl)-2-[(4-fluorophenyl)sulfamoyl]ethyl}phenyl)amino](oxo)acetic acid C23 H18 F N3 O6 S ZSINWSQBKYZRCH-FQEVSTJZSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.248 (Depositor), 0.253 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.193 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.89	α = 90
b = 87.89	β = 90
c = 103.68	γ = 120

Software Package:

Software Name	Purpose
CrystalClear	data collection
AMoRE	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-12-26 
Deposition Author(s): Reddy, S.M.V.V.V., Rao, K.N., Subramanya, H.

Revision History  

• Version 1.0: 2012-12-26
  Type: Initial release
  
• Version 1.1: 2014-01-01
  Changes: Database references
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations