5AWX Hydrolase date Jul 10, 2015
title Crystal Structure Of Human Ptprz D1 Domain
authors H.Sugawara
compound source
Molecule: Receptor-Type Tyrosine-Protein Phosphatase Zeta
Chain: A
Fragment: Unp Residues 1698-1993
Synonym: R-Ptp-Zeta,Protein-Tyrosine Phosphatase Receptor T Polypeptide 1,Protein-Tyrosine Phosphatase Receptor Type Z Polypeptide 2,R-Ptp-Zeta-2;
Ec: 3.1.3.48
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptprz1, Htpzp2, Ptprz, Ptprz2, Ptpz
Expression_system: Bombyx Mori
Expression_system_taxid: 7091
symmetry Space Group: P 21 21 21
R_factor 0.186 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.641 72.245 90.557 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.86 Å
ligand BR enzyme Hydrolase E.C.3.1.3.48 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSmall-molecule inhibition of PTPRZ reduces tumor growth in a rat model of glioblastoma., Fujikawa A, Nagahira A, Sugawara H, Ishii K, Imajo S, Matsumoto M, Kuboyama K, Suzuki R, Tanga N, Noda M, Uchiyama S, Tomoo T, Ogata A, Masumura M, Noda M, Sci Rep. 2016 Feb 9;6:20473. doi: 10.1038/srep20473. PMID:26857455
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk]
  • Biological Unit Coordinates (5awx.pdb1.gz) 95 Kb
  • LPC: Ligand-Protein Contacts for 5AWX
  • CSU: Contacts of Structural Units for 5AWX
  • Structure Factors (574 Kb)
  • Retrieve 5AWX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AWX from S2C, [Save to disk]
  • Re-refined 5awx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5AWX 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 5AWX
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5awx_A] [5awx]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5AWX: [PTPc ] by SMART
  • Other resources with information on 5AWX
  • Community annotation for 5AWX at PDBWiki (http://pdbwiki.org)

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