3Q5F Transcription Dna date Dec 28, 2010
title Crystal Structure Of The Salmonella Transcriptional Regulato Complex With Dna
authors K.T.Dolan, E.M.Duguid
compound source
Molecule: Transcriptional Regulator Slya
Chain: A, B
Synonym: Cytolysin Slya, Salmolysin
Engineered: Yes
 Organism_scientific: Salmonella Enterica
Organism_taxid: 90371
Strain: Enterica Serovar Typhimurium
Gene: Slya, Stm1444
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg19

Molecule: Dna (5'- D(Apaptpapapcptptpapgpcpapapgpcptpapaptp A)-3');
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Tptpaptpapaptptpapgpcptptpgpcptpapapgp T)-3');
Chain: D
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 41 21 2
R_factor 0.214 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.566 59.566 291.177 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.96 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structures of SlyA, a master virulence regulator of Salmonella, in free and DNA-bound states., Dolan KT, Duguid EM, He C, J Biol Chem. 2011 May 5. PMID:21550983
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (3q5f.pdb1.gz) 64 Kb
  • CSU: Contacts of Structural Units for 3Q5F
  • Structure Factors (246 Kb)
  • Retrieve 3Q5F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3Q5F from S2C, [Save to disk]
  • Re-refined 3q5f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3Q5F 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 3Q5F
  • 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 3Q5F, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3q5f_D] [3q5f_C] [3q5f] [3q5f_A] [3q5f_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3Q5F: [HTH_MARR ] by SMART
    • Other resources with information on 3Q5F
  • Community annotation for 3Q5F 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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