6D4F Hydrolase date Apr 18, 2018
title Crystal Structure Of Ptp Epsilon D2 Domain (A455nv457ye597
authors G.T.Lountos, S.Raran-Kurussi, B.M.Zhao, B.K.Dyas, B.P.Austin, T.R Jr., R.G.Ulrich, D.S.Waugh
compound source
Molecule: Receptor-Type Tyrosine-Protein Phosphatase Epsilo
Chain: A
Fragment: Epsilon D2 Domain
Synonym: R-Ptp-Epsilon
Ec: 3.1.3.48
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptpre
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Psrk2612
symmetry Space Group: P 21 21 21
R_factor 0.190 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.470 73.489 75.656 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.91 Å
ligand 1PE enzyme Hydrolase E.C.3.1.3.48 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceHigh-resolution crystal structures of the D1 and D2 domains of protein tyrosine phosphatase epsilon for structure-based drug design., Lountos GT, Raran-Kurussi S, Zhao BM, Dyas BK, Burke TR Jr, Ulrich RG, Waugh DS, Acta Crystallogr D Struct Biol. 2018 Oct 1;74(Pt 10):1015-1026. doi:, 10.1107/S2059798318011919. Epub 2018 Oct 2. PMID:30289412
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (6d4f.pdb1.gz) 48 Kb
  • LPC: Ligand-Protein Contacts for 6D4F
  • CSU: Contacts of Structural Units for 6D4F
  • Structure Factors (655 Kb)
  • Retrieve 6D4F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6D4F from S2C, [Save to disk]
  • View 6D4F 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 6D4F
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6d4f_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6D4F
  • Community annotation for 6D4F at PDBWiki (http://pdbwiki.org)

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