1R2D Apoptosis date Sep 26, 2003
title Structure Of Human Bcl-Xl At 1.95 Angstroms
authors J.W.O'Neill, M.K.Manion, C.D.Giedt, K.M.Kim, K.Y.Zhang, D.M.Hocke
compound source
Molecule: Apoptosis Regulator Bcl-X
Chain: A
Fragment: Bcl-Xl
Synonym: Bcl-2-Like 1 Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bcl-Xl
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b
symmetry Space Group: P 41 21 2
R_factor 0.203 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.341 63.341 109.824 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
related structures by homologous chain: 1PQ1, 1R2I
Gene
Ontology
ChainFunctionProcessComponent
A
  • negative regulation of prote...

  • Primary referenceBcl-XL mutations suppress cellular sensitivity to antimycin A., Manion MK, O'Neill JW, Giedt CD, Kim KM, Zhang KY, Hockenbery DM, J Biol Chem 2004 Jan 16;279(3):2159-65. Epub 2003 Oct 8. PMID:14534311
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (1r2d.pdb1.gz) 28 Kb
  • CSU: Contacts of Structural Units for 1R2D
  • Likely Quarternary Molecular Structure file(s) for 1R2D
  • Structure Factors (196 Kb)
  • Retrieve 1R2D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R2D from S2C, [Save to disk]
  • Re-refined 1r2d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1R2D 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 1R2D
  • 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 1R2D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r2da_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1r2d 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: [1r2d] [1r2d_A]
  • SWISS-PROT database: [Q07817]
  • Belongs to the bcl-2 (bcl-2) family according to TCDB.
  • Domain organization of [B2CL1_HUMAN] by SWISSPFAM
  • Domains found in 1R2D: [BCL] [BH4 ] by SMART
  • Other resources with information on 1R2D
  • Community annotation for 1R2D 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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