2E42 Transcription Dna date Dec 01, 2006
title Crystal Structure Of Cebpbeta Bzip Homodimer V285a Mutant Bound To A High Affinity Dna Fragment
authors T.H.Tahirov, T.Inoue-Bungo, K.Sato, M.Shiina, K.Hamada, K.Ogata
compound source
Molecule: Ccaatenhancer-Binding Protein Beta
Chain: A, B
Fragment: Residues 259-336
Synonym: Cebp Beta, Nuclear Factor Nf-Il6, Transcription Factor 5;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cebpb, Tcf5
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Par Vector

Molecule: Dna (5'- D(Pdtpdapdgpdgpdapdtpdtpdgpdcpdgpdcpdapdapdtp Dapdt)-3');
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdapdapdtpdapdtpdtpdgpdcpdgpdcpdapdapdtpdcp Dcpdt)-3');
Chain: D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: C 2 2 21
R_factor 0.232 R_Free 0.252
length a length b length c angle alpha angle beta angle gamma
101.881 113.319 74.439 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
A, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (2e42.pdb1.gz) 42 Kb
  • CSU: Contacts of Structural Units for 2E42
  • Likely Quarternary Molecular Structure file(s) for 2E42
  • Structure Factors (307 Kb)
  • Retrieve 2E42 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2E42 from S2C, [Save to disk]
  • Re-refined 2e42 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2E42 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 2E42
  • 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 2E42, from MSDmotif at EBI
  • Fold representative 2e42 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2e42_C] [2e42_B] [2e42_D] [2e42_A] [2e42]
  • SWISS-PROT database: [P17676]
  • Domain organization of [CEBPB_HUMAN] by SWISSPFAM
  • Domain found in 2E42: [BRLZ ] by SMART
  • Other resources with information on 2E42
  • Community annotation for 2E42 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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