1PYN Hydrolase date Jul 09, 2003
title Dual-Site Potent, Selective Protein Tyrosine Phosphatase 1b Using A Linked Fragment Strategy And A Malonate Head On The Site
authors B.G.Szczepankiewicz, G.Liu, P.J.Hajduk, C.Abad-Zapatero, P.Zhong T.Lubben, J.M.Trevillyan, M.Stashko, S.J.Ballaron, H.Liang
compound source
Molecule: Protein-Tyrosine Phosphatase, Non-Receptor Type 1
Chain: A
Fragment: Ptp1b Catalytic Domain
Synonym: Protein-Tyrosine Phosphatase 1b, Ptp-1b
Ec: 3.1.3.48
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptpn1 Or Ptp1b
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pt7-7
symmetry Space Group: P 31 2 1
R_factor 0.198 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.710 88.710 104.830 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand 941 BindingDB enzyme Hydrolase E.C.3.1.3.48 BRENDA
related structures by homologous chain: 1Q6S, 1WAX
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery and SAR of novel, potent and selective protein tyrosine phosphatase 1B inhibitors., Pei Z, Li X, Liu G, Abad-Zapatero C, Lubben T, Zhang T, Ballaron SJ, Hutchins CW, Trevillyan JM, Jirousek MR, Bioorg Med Chem Lett 2003 Oct 6;13(19):3129-32. PMID:12951078
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (1pyn.pdb1.gz) 52 Kb
  • LPC: Ligand-Protein Contacts for 1PYN
  • CSU: Contacts of Structural Units for 1PYN
  • Likely Quarternary Molecular Structure file(s) for 1PYN
  • Retrieve 1PYN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PYN from S2C, [Save to disk]
  • View 1PYN in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1PYN
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1PYN, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pyna_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pyn_A] [1pyn]
  • SWISS-PROT database: [P18031]
  • Domain organization of [PTN1_HUMAN] by SWISSPFAM
  • Domains found in 1PYN: [PTPc] [PTPc_DSPc ] by SMART
  • Other resources with information on 1PYN
  • Community annotation for 1PYN at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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