3EYI Dna Binding Protein Dna date Oct 21, 2008
title The Crystal Structure Of The Second Z-Dna Binding Domain Of (Zbp1) In Complex With Z-Dna
authors S.C.Ha, K.K.Kim
compound source
Molecule: Z-Dna-Binding Protein 1
Chain: A, B
Fragment: The Second Z-Dna Binding Domain (Zbeta)
Synonym: Tumor Stroma And Activated Macrophage Protein Dlm-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: C20orf183, Dlm1, Zbp1, Zbp1dlm1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: 5'-Tcgcgcg-3'
Chain: C, D
Engineered: Yes

Synthetic: Yes
Other_details: The Z-Dna Is Chemically Synthesized.
symmetry Space Group: P 21 21 21
R_factor 0.153 R_Free 0.194
crystal
cell
length a length b length c angle alpha angle beta angle gamma
29.530 58.249 88.609 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.45 Å
note 3EYI is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe crystal structure of the second Z-DNA binding domain of human DAI (ZBP1) in complex with Z-DNA reveals an unusual binding mode to Z-DNA., Ha SC, Kim D, Hwang HY, Rich A, Kim YG, Kim KK, Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):20671-6. Epub 2008 Dec 18. PMID:19095800
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (3eyi.pdb1.gz) 34 Kb
  • CSU: Contacts of Structural Units for 3EYI
  • Likely Quarternary Molecular Structure file(s) for 3EYI
  • Structure Factors (417 Kb)
  • Retrieve 3EYI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EYI from S2C, [Save to disk]
  • Re-refined 3eyi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EYI 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 3EYI
  • 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 3EYI, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3eyi_B] [3eyi_A] [3eyi_C] [3eyi_D] [3eyi]
  • SWISS-PROT database: [Q9H171]
  • Domain organization of [ZBP1_HUMAN] by SWISSPFAM
  • Domain found in 3EYI: [Zalpha ] by SMART
  • Other resources with information on 3EYI
  • Community annotation for 3EYI 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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