1RKW Transcription date Nov 23, 2003
title Crystal Structure Of The Multidrug Binding Transcriptional R Qacr Bound To Pentamadine
authors D.S.Murray, M.A.Schumacher, R.G.Brennan
compound source
Molecule: Transcriptional Regulator Qacr
Chain: B, D, A, E
Engineered: Yes
Mutation: Yes
 Organism_scientific: Staphylococcus Aureus
Organism_taxid: 1280
Gene: Qacr, Savp031
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh5a
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Psk5210
symmetry Space Group: P 42 21 2
R_factor 0.224 R_Free 0.275
crystal
cell
length a length b length c angle alpha angle beta angle gamma
172.050 172.050 94.430 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.62 Å
ligand PNT, SO4 enzyme
related structures by homologous chain: 1JT6, 1JUS
Gene
Ontology
ChainFunctionProcessComponent
A, D, E, B


Primary referenceCrystal structures of QacR-diamidine complexes reveal additional multidrug-binding modes and a novel mechanism of drug charge neutralization., Murray DS, Schumacher MA, Brennan RG, J Biol Chem 2004 Apr 2;279(14):14365-71. Epub 2004 Jan 15. PMID:14726520
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk]
  • Biological Unit Coordinates (1rkw.pdb1.gz) 66 Kb
  • Biological Unit Coordinates (1rkw.pdb2.gz) 65 Kb
  • LPC: Ligand-Protein Contacts for 1RKW
  • CSU: Contacts of Structural Units for 1RKW
  • Likely Quarternary Molecular Structure file(s) for 1RKW
  • Structure Factors (460 Kb)
  • Retrieve 1RKW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RKW from S2C, [Save to disk]
  • Re-refined 1rkw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1RKW 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 1RKW
  • 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
  • 3D motif for 1RKW, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rkwa1, region A:2-72 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwa2, region A:73-187 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwb1, region B:2-72 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwb2, region B:73-187 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwd1, region D:2-72 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwd2, region D:73-187 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwe1, region E:2-72 [Jmol] [rasmolscript] [script source]
        - Domain d1rkwe2, region E:73-187 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1rkw_E] [1rkw_B] [1rkw_A] [1rkw] [1rkw_D]
  • SWISS-PROT database: [P0A0N4]
  • Domain organization of [QACR_STAAU] by SWISSPFAM
    • Other resources with information on 1RKW
  • Community annotation for 1RKW at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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