1R2B Transcription date Sep 26, 2003
title Crystal Structure Of The Bcl6 Btb Domain Complexed With A Smrt Co-Repressor Peptide
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: Bcl6 (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_plasmid: Pet-32(A)

Molecule: Nuclear Receptor Co-Repressor 2
Chain: C, D
Fragment: Smrt - Bbd (Residues 1414-1430)
Synonym: N-Cor2, Silencing Mediator Of Retinoic Acid And Thyroid Hormone Receptor, Smrt, Smrte, Thyroid-, Retinoic- Acid-Receptor-Associated Co-Repressor, T3 Receptor- Associating Factor, Trac, Ctg Repeat Protein 26;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ncor2 Or Ctg26
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet-32(A)
symmetry Space Group: P 1 21 1
R_factor 0.227 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.228 38.543 76.659 90.00 92.92 90.00
method X-Ray Diffractionresolution 2.20 Å
related structures by homologous chain: 1R28
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] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (1r2b.pdb1.gz) 50 Kb
  • CSU: Contacts of Structural Units for 1R2B
  • Likely Quarternary Molecular Structure file(s) for 1R2B
  • Structure Factors (245 Kb)
  • Retrieve 1R2B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R2B from S2C, [Save to disk]
  • Re-refined 1r2b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1R2B 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 1R2B
  • 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 1R2B, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r2ba_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1r2bb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1r2b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1r2b_C] [1r2b_B] [1r2b] [1r2b_A] [1r2b_D]
  • SWISS-PROT database: [P41182] [Q9Y618]
  • Domain organization of [BCL6_HUMAN] [NCOR2_HUMAN] by SWISSPFAM
  • Domain found in 1R2B: [BTB ] by SMART
  • Other resources with information on 1R2B
  • Community annotation for 1R2B 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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