5A61 Hydrolase date Jun 23, 2015
title Crystal Structure Of Full-Length E. Coli Ygif In Complex With Tripolyphosphate And Two Manganese Ions.
authors J.Martinez, V.Truffault, M.Hothorn
compound source
Molecule: Inorganic Triphosphatase
Chain: A
Ec: 3.6.1.25
Engineered: Yes
Organism_scientific: Escherichia Coli K-12
Organism_taxid: 83333
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petm11
symmetry Space Group: P 65
R_factor 0.15145 R_Free 0.17087
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.676 89.676 125.329 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.50 Å
ligand 3PO, EDO, MN enzyme Hydrolase E.C.3.6.1.25 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural Determinants for Substrate Binding and Catalysis in Triphosphate Tunnel Metalloenzymes., Martinez J, Truffault V, Hothorn M, J Biol Chem. 2015 Jul 28. pii: jbc.M115.674473. PMID:26221030
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (160 Kb) [Save to disk]
  • Biological Unit Coordinates (5a61.pdb1.gz) 154 Kb
  • LPC: Ligand-Protein Contacts for 5A61
  • CSU: Contacts of Structural Units for 5A61
  • Structure Factors (4758 Kb)
  • Retrieve 5A61 in mmCIF format [Save to disk]
  • Re-refined 5a61 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5A61 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 5A61
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5a61 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5a61] [5a61_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5A61: [CYTH ] by SMART
  • Other resources with information on 5A61
  • Community annotation for 5A61 at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science