4HC9 Transcription Dna date Sep 28, 2012
title Dna Binding By Gata Transcription Factor-Complex 3
authors Y.Chen, D.L.Bates, R.Dey, L.Chen
compound source
Molecule: Trans-Acting T-Cell-Specific Transcription Factor
Chain: A
Fragment: Unp Residues 260 -365
Synonym: Gata-Binding Factor 3
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gata3
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna (5'- D(Tptpcpcptpapapaptpcpapgpapgpaptpapapcp
Chain: Y
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Humans.

Molecule: Dna (5'- D(Apapgpgptptpaptpcptpcptpgpaptptptpapgp
Chain: Z
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Humans.
symmetry Space Group: C 1 2 1
R_factor 0.181 R_Free 0.216
crystal
cell
length a length b length c angle alpha angle beta angle gamma
126.118 30.352 72.475 90.00 98.59 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDNA Binding by GATA Transcription Factor Suggests Mechanisms of DNA Looping and Long-Range Gene Regulation., Chen Y, Bates DL, Dey R, Chen PH, Machado AC, Laird-Offringa IA, Rohs R, Chen L, Cell Rep. 2012 Nov 29;2(5):1197-206. doi: 10.1016/j.celrep.2012.10.012. Epub 2012, Nov 8. PMID:23142663
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (4hc9.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (4hc9.pdb2.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 4HC9
  • CSU: Contacts of Structural Units for 4HC9
  • Structure Factors (494 Kb)
  • Retrieve 4HC9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4HC9 from S2C, [Save to disk]
  • Re-refined 4hc9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4HC9 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 4HC9
  • 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 4HC9, from MSDmotif at EBI
  • Fold representative 4hc9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4hc9_A] [4hc9] [4hc9_Y] [4hc9_Z]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4HC9: [ZnF_GATA ] by SMART
  • Other resources with information on 4HC9
  • Community annotation for 4HC9 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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