3EB1 Hydrolase date Aug 26, 2008
title Crystal Structure Ptp1b Complex With Small Molecule Inhibito
authors S.Liu, L.F.Zheng, L.Wu, X.Yu, T.Xue, A.M.Gunawan, Y.Q.Long, Z.Y.
compound source
Molecule: Tyrosine-Protein Phosphatase Non-Receptor Type 1
Chain: A
Fragment: Unp Residues 1-321
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, Ptp1b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc118
symmetry Space Group: P 31 2 1
R_factor 0.207 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.526 88.526 104.722 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand LZQ BindingDB enzyme Hydrolase E.C.3.1.3.48 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceTargeting inactive enzyme conformation: aryl diketoacid derivatives as a new class of PTP1B inhibitors., Liu S, Zeng LF, Wu L, Yu X, Xue T, Gunawan AM, Long YQ, Zhang ZY, J Am Chem Soc. 2008 Dec 17;130(50):17075-84. PMID:19012396
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (3eb1.pdb1.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 3EB1
  • CSU: Contacts of Structural Units for 3EB1
  • Likely Quarternary Molecular Structure file(s) for 3EB1
  • Structure Factors (135 Kb)
  • Retrieve 3EB1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EB1 from S2C, [Save to disk]
  • Re-refined 3eb1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EB1 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 3EB1
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3EB1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1m3eb1, region B:1-250 [Jmol] [rasmolscript] [script source]
        - Domain d1s3eb1, region B:3-289,B:402-496 [Jmol] [rasmolscript] [script source]
        - Domain d1e3eb1, region B:4-167,B:342-376 [Jmol] [rasmolscript] [script source]
        - Domain d1t3eb1, region B:654-736 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3eb1] [3eb1_A]
  • SWISS-PROT database: [P18031]
  • Domain organization of [PTN1_HUMAN] by SWISSPFAM
  • Domains found in 3EB1: [PTPc] [PTPc_DSPc ] by SMART
  • Other resources with information on 3EB1
  • Community annotation for 3EB1 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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