1R28 Transcription date Sep 26, 2003
title Crystal Structure Of The B-Cell Lymphoma 6 (Bcl6) Btb Domain To 2.2 Angstrom
authors K.F.Ahmad, A.Melnick, S.A.Lax, D.Bouchard, J.Liu, C.L.Kiang, S.Mayer, J.D.Licht, G.G.Prive
compound source
Molecule: B-Cell Lymphoma 6 Protein
Chain: A, B
Fragment: Btb Domain (Residues 5-129)
Synonym: Bcl-6, Zinc Finger Protein 51, Laz-3 Protein, Poz Domain, Btbpoz Domain;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bcl6
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Pet32a
symmetry Space Group: C 1 2 1
R_factor 0.200 R_Free 0.250
length a length b length c angle alpha angle beta angle gamma
140.750 32.660 48.630 90.00 94.73 90.00
method X-Ray Diffractionresolution 2.20 Å
related structures by homologous chain: 1R29, 1R2B
Primary referenceMechanism of SMRT corepressor recruitment by the BCL6 BTB domain., Ahmad KF, Melnick A, Lax S, Bouchard D, Liu J, Kiang CL, Mayer S, Takahashi S, Licht JD, Prive GG, Mol Cell 2003 Dec;12(6):1551-64. PMID:14690607
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (1r28.pdb1.gz) 42 Kb
  • CSU: Contacts of Structural Units for 1R28
  • Likely Quarternary Molecular Structure file(s) for 1R28
  • Structure Factors (162 Kb)
  • Retrieve 1R28 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R28 from S2C, [Save to disk]
  • Re-refined 1r28 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1R28 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 1R28
  • 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 1R28, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r28a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1r28b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1r28 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1r28_A] [1r28] [1r28_B]
  • SWISS-PROT database: [P41182]
  • Domain organization of [BCL6_HUMAN] by SWISSPFAM
  • Domain found in 1R28: [BTB ] by SMART
  • Other resources with information on 1R28
  • Community annotation for 1R28 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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