3DFV Transcription Dna date Jun 12, 2008
title Adjacent Gata Dna Binding
authors D.L.Bates, G.K.Kim, L.Guo, L.Chen
compound source
Molecule: Dna (5'- D(Dtpdtpdcpdtpdgpdapdtpdapdapdgpdapdcpdtpdtp Pdtpdgpdc)-3');
Chain: Y
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Dapdapdgpdcpdapdgpdapdtpdapdapdgpdtpdcpdtp Pdcpdapdg)-3');
Chain: Z
Engineered: Yes

Synthetic: Yes

Molecule: Trans-Acting T-Cell-Specific Transcription Factor
Chain: D, C
Fragment: Unp Residues 308-370
Synonym: Gata-Binding Factor 3
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Gata3, Gata-3
Expression_system: Escherichia Coli
Expression_system_strain: Rosetta Plys
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: C 1 2 1
R_factor 0.276 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
137.977 35.756 54.487 90.00 113.25 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
D, C


Primary referenceCrystal Structures of Multiple GATA Zinc Fingers Bound to DNA Reveal New Insights into DNA Recognition and Self-Association by GATA., Bates DL, Chen Y, Kim G, Guo L, Chen L, J Mol Biol. 2008 Jul 2. PMID:18621058
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk]
  • Biological Unit Coordinates (3dfv.pdb1.gz) 37 Kb
  • LPC: Ligand-Protein Contacts for 3DFV
  • CSU: Contacts of Structural Units for 3DFV
  • Likely Quarternary Molecular Structure file(s) for 3DFV
  • Structure Factors (62 Kb)
  • Retrieve 3DFV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DFV from S2C, [Save to disk]
  • Re-refined 3dfv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DFV 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 3DFV
  • 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 3DFV, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dfv_Z] [3dfv] [3dfv_D] [3dfv_Y] [3dfv_C]
  • SWISS-PROT database: [P23772]
  • Domain organization of [GATA3_MOUSE] by SWISSPFAM
  • Domain found in 3DFV: [ZnF_GATA ] by SMART
  • Other resources with information on 3DFV
  • Community annotation for 3DFV 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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