5NGS Hydrolase date Mar 20, 2017
title Crystal Structure Of Human Mth1 In Complex With Inhibitor 6- Phenylethyl)Sulfanyl]-7h-Purin-2-Amine
authors R.Gustafsson, A.Rudling, I.Almlof, E.Homan, M.Scobie, U.Warpman B T.Helleday, J.Carlsson, P.Stenmark
compound source
Molecule: 7,8-Dihydro-8-Oxoguanine Triphosphatase
Chain: A, B
Synonym: 2-Hydroxy-Datp Diphosphatase,8-Oxo-Dgtpase,Nucleos Diphosphate-Linked Moiety X Motif 1,Nudix Motif 1;
Ec: 3.6.1.55,3.6.1.56
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nudt1, Mth1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 21 21 21
R_factor 0.216 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.180 68.373 81.121 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand 8WW, ACT, SO4 enzyme Hydrolase E.C.3.6.1.55 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceFragment-Based Discovery and Optimization of Enzyme Inhibitors by Docking of Commercial Chemical Space., Rudling A, Gustafsson R, Almlof I, Homan E, Scobie M, Warpman Berglund U, Helleday T, Stenmark P, Carlsson J, J Med Chem. 2017 Oct 3. doi: 10.1021/acs.jmedchem.7b01006. PMID:28929756
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (5ngs.pdb1.gz) 30 Kb
  • Biological Unit Coordinates (5ngs.pdb2.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 5NGS
  • CSU: Contacts of Structural Units for 5NGS
  • Structure Factors (785 Kb)
  • Retrieve 5NGS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NGS from S2C, [Save to disk]
  • View 5NGS 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 5NGS
  • 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: [5ngs_A] [5ngs_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5NGS
  • Community annotation for 5NGS 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, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science