3COQ Transcription Dna date Mar 29, 2008
title Structural Basis For Dimerization In Dna Recognition By Gal4
authors M.Hong, M.X.Fitzgerald, S.Harper, C.Luo, D.W.Speicher
compound source
Molecule: Dna (5'- D(Dapdcpdcpdgpdgpdapdgpdgpdapdcpdapdgpdtpdcp Pdcpdgpdg)-3');
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'- D(Dtpdcpdcpdgpdgpdapdgpdgpdapdcpdtpdgpdtpdcp Pdcpdgpdg)-3');
Chain: E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Regulatory Protein Gal4
Chain: A, B
Fragment: Dna Binding Domain With Complete Dimerization Dom
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Gal4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: C 1 2 1
R_factor 0.207 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
126.495 40.829 90.418 90.00 95.88 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand MPD, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for dimerization in DNA recognition by gal4., Hong M, Fitzgerald MX, Harper S, Luo C, Speicher DW, Marmorstein R, Structure. 2008 Jul;16(7):1019-26. PMID:18611375
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (3coq.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 3COQ
  • CSU: Contacts of Structural Units for 3COQ
  • Likely Quarternary Molecular Structure file(s) for 3COQ
  • Structure Factors (105 Kb)
  • Retrieve 3COQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3COQ from S2C, [Save to disk]
  • Re-refined 3coq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3COQ 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 3COQ
  • 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 3COQ, from MSDmotif at EBI
  • Fold representative 3coq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3coq_A] [3coq_E] [3coq] [3coq_B] [3coq_D]
  • SWISS-PROT database: [P04386]
  • Domain organization of [GAL4_YEAST] by SWISSPFAM
  • Domain found in 3COQ: [GAL4 ] by SMART
  • Other resources with information on 3COQ
  • Community annotation for 3COQ 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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