5KGX Transferase Transferase Inhibitor date Jun 13, 2016
title Hiv1 Catalytic Core Domain In Complex With An Inhibitor (2~{ (3,4-Dihydro-2~{H}-Chromen-6-Yl)-1-Methyl-Indol-2-Yl]-2-[(2 Methylpropan-2-Yl)Oxy]Ethanoic Acid
authors L.Feng, M.Kobe, M.Kvaratskhelia
compound source
Molecule: Integrase
Chain: A
Engineered: Yes
 Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31 2 1
R_factor 0.191 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.109 72.109 65.713 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.67 Å
ligand 7SK, CAF, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceIndole-based allosteric inhibitors of HIV-1 integrase., Patel PA, Kvaratskhelia N, Mansour Y, Antwi J, Feng L, Koneru P, Kobe MJ, Jena N, Shi G, Mohamed MS, Li C, Kessl JJ, Fuchs JR, Bioorg Med Chem Lett. 2016 Oct 1;26(19):4748-52. doi: 10.1016/j.bmcl.2016.08.037., Epub 2016 Aug 13. PMID:27568085
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk]
  • Biological Unit Coordinates (5kgx.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 5KGX
  • CSU: Contacts of Structural Units for 5KGX
  • Structure Factors (96 Kb)
  • Retrieve 5KGX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KGX from S2C, [Save to disk]
  • Re-refined 5kgx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5KGX 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 5KGX
  • 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: [5kgx_A] [5kgx]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5KGX
  • Community annotation for 5KGX at PDBWiki (http://pdbwiki.org)

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