4HC7 Transcription Dna date Sep 28, 2012
title Crystal Structure Of The Full Dna Binding Domain Of Gata3-Co
authors Y.Chen, D.L.Bates, R.Dey, L.Chen
compound source
Molecule: Trans-Acting T-Cell-Specific Transcription Factor
Chain: A, B
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

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

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

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

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Humans.
symmetry Space Group: P 1 21 1
R_factor 0.226 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.765 65.373 72.922 90.00 96.75 90.00
method X-Ray Diffractionresolution 2.65 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


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] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (4hc7.pdb1.gz) 36 Kb
  • Biological Unit Coordinates (4hc7.pdb2.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 4HC7
  • CSU: Contacts of Structural Units for 4HC7
  • Structure Factors (258 Kb)
  • Retrieve 4HC7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4HC7 from S2C, [Save to disk]
  • Re-refined 4hc7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4HC7 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 4HC7
  • 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 4HC7, from MSDmotif at EBI
  • Fold representative 4hc7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4hc7_A] [4hc7_Z] [4hc7_X] [4hc7_Y] [4hc7] [4hc7_B] [4hc7_W]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4HC7: [ZnF_GATA ] by SMART
  • Alignments of the sequence of 4HC7 with the sequences similar proteins can be viewed for 4HC7's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 4HC7
  • Community annotation for 4HC7 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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