2BGD Hydrolase date Dec 21, 2004
title Structure-Based Design Of Protein Tyrosine Phosphatase-1b In
authors E.Black, J.Breed, A.L.Breeze, K.Embrey, R.Garcia, T.W.Gero, L.Godf P.W.Kenny, A.D.Morley, C.A.Minshull, A.D.Pannifer, J.Read, A.Ree D.J.Russell, D.Toader, J.Tucker
compound source
Molecule: Protein-Tyrosine Phosphatase Non-Receptor Type 1
Chain: A
Fragment: Ptp1b Catalytic Domain, 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
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
symmetry Space Group: P 31 2 1
R_factor 0.164 R_Free 0.200
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.908 88.908 104.548 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand CL, NA, PO4, T1D BindingDB enzyme Hydrolase E.C.3.1.3.48 BRENDA
related structures by homologous chain: 1BZC, 1NZ7
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure-based design of protein tyrosine phosphatase-1B inhibitors., Black E, Breed J, Breeze AL, Embrey K, Garcia R, Gero TW, Godfrey L, Kenny PW, Morley AD, Minshull CA, Pannifer AD, Read J, Rees A, Russell DJ, Toader D, Tucker J, Bioorg Med Chem Lett. 2005 May 16;15(10):2503-7. PMID:15863305
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (60 Kb) [Save to disk]
  • Biological Unit Coordinates (2bgd.pdb1.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 2BGD
  • CSU: Contacts of Structural Units for 2BGD
  • Likely Quarternary Molecular Structure file(s) for 2BGD
  • Structure Factors (145 Kb)
  • Retrieve 2BGD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BGD from S2C, [Save to disk]
  • Re-refined 2bgd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2BGD 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 2BGD
  • 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 2BGD, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2bgd_A] [2bgd]
  • SWISS-PROT database: [P18031]
  • Domain organization of [PTN1_HUMAN] by SWISSPFAM
  • Domains found in 2BGD: [PTPc] [PTPc_DSPc ] by SMART
  • Other resources with information on 2BGD
  • Community annotation for 2BGD 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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