3QOQ Transcription Dna date Feb 10, 2011
title Crystal Structure Of The Transcription Factor Amrz In Comple 18 Base Pair Amrz1 Binding Site
authors E.E.Pryor Jr., D.J.Wozniak, T.Hollis
compound source
Molecule: Alginate And Motility Regulator Z
Chain: A, B, C, D
Fragment: Unp Residues 1-66
Synonym: Dna Binding-Protein
Engineered: Yes
Organism_scientific: Pseudomonas Aeruginosa
Organism_taxid: 287
Strain: Pa01
Gene: Algz, Amrz, Pa3385
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: C41(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet19

Molecule: Dna (5'- D(Apcptpgpgpcpapapapapcpgpcpcpgpgpcpa)-3'
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Tpgpcpcpgpgpcpgptptptptpgpcpcpapgpt)-3'
Chain: F
Engineered: Yes

Synthetic: Yes
symmetry Space Group: I 4 2 2
R_factor 0.261 R_Free 0.295
crystal
cell
length a length b length c angle alpha angle beta angle gamma
129.465 129.465 152.554 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand MSE enzyme
note 3QOQ is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe Transcription Factor AmrZ Utilizes Multiple DNA Binding Modes to Recognize Activator and Repressor Sequences of Pseudomonas aeruginosa Virulence Genes., Pryor EE Jr, Waligora EA, Xu B, Dellos-Nolan S, Wozniak DJ, Hollis T, PLoS Pathog. 2012 Apr;8(4):e1002648. Epub 2012 Apr 12. PMID:22511872
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (3qoq.pdb1.gz) 46 Kb
  • LPC: Ligand-Protein Contacts for 3QOQ
  • CSU: Contacts of Structural Units for 3QOQ
  • Structure Factors (317 Kb)
  • Retrieve 3QOQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3QOQ from S2C, [Save to disk]
  • Re-refined 3qoq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3QOQ 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 3QOQ
  • 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
  • 3D motif for 3QOQ, from MSDmotif at EBI
  • Fold representative 3qoq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3qoq_F] [3qoq_B] [3qoq_E] [3qoq_A] [3qoq_D] [3qoq_C] [3qoq]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3QOQ
  • Community annotation for 3QOQ at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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