1GU5 Transcription Dna date Jan 24, 2002
title Crystal Structure Of Cebpbeta Bzip Homodimer Bound To A Dna From The Mim-1 Promoter
authors T.H.Tahirov, K.Ogata
compound source
Molecule: Caatenhancer Binding Protein Beta
Chain: A, B
Fragment: Bzip Domain, Residues 259-336
Synonym: Cebp Beta, Nuclear Factor Nf-Il6, Transcription F
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Par2156

Molecule: 5'-D(Tptpgptpgptptpgpgpcp Cpapaptp
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: 5'-D(Aptpgpaptptpgpgpcpcp Apapcpap
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: C 2 2 21
R_factor 0.229 R_Free 0.277
length a length b length c angle alpha angle beta angle gamma
101.596 113.037 74.498 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
related structures by homologous chain: 1GTW, 1H8A
A, B

Primary referenceCrystallization and preliminary X-ray analyses of quaternary, ternary and binary protein-DNA complexes with involvement of AML1/Runx-1/CBFalpha Runt domain, CBFbeta and the C/EBPbeta bZip region., Tahirov TH, Inoue-Bungo T, Sasaki M, Shiina M, Kimura K, Sato K, Kumasaka T, Yamamoto M, Kamiya N, Ogata K, Acta Crystallogr D Biol Crystallogr. 2001 Jun;57(Pt 6):850-3. Epub 2001, May 25. PMID:11375505
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (1gu5.pdb1.gz) 81 Kb
  • CSU: Contacts of Structural Units for 1GU5
  • Likely Quarternary Molecular Structure file(s) for 1GU5
  • Structure Factors (251 Kb)
  • Retrieve 1GU5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GU5 from S2C, [Save to disk]
  • Re-refined 1gu5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1GU5 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 1GU5
  • 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 1GU5, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gu5a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1gu5b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1gu5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1gu5_C] [1gu5_B] [1gu5_A] [1gu5] [1gu5_D]
  • SWISS-PROT database: [P17676]
  • Domain organization of [CEBPB_HUMAN] by SWISSPFAM
  • Domain found in 1GU5: [BRLZ ] by SMART
  • Other resources with information on 1GU5
  • Community annotation for 1GU5 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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