2IMS Apoptosis date Oct 04, 2006
title The X-Ray Structure Of A Bak Homodimer Reveals An Inhibitory Binding Site
authors T.Moldoveanu, Q.Liu, A.Tocilj, M.Watson, G.C.Shore, K.B.Gehring
compound source
Molecule: Apoptosis Regulator Bak
Chain: A
Synonym: Bcl-2 Homologous Antagonistkiller, Bcl-2- Like 7
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bak1, Bak, Bcl2l7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.179 R_Free 0.204
length a length b length c angle alpha angle beta angle gamma
57.527 53.662 58.281 90.00 115.05 90.00
method X-Ray Diffractionresolution 1.48 Å
ligand MSE, ZN enzyme
note 2IMS is a representative structure

Primary referenceThe X-ray structure of a BAK homodimer reveals an inhibitory zinc binding site., Moldoveanu T, Liu Q, Tocilj A, Watson M, Shore G, Gehring K, Mol Cell. 2006 Dec 8;24(5):677-88. PMID:17157251
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk]
  • Biological Unit Coordinates (2ims.pdb1.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 2IMS
  • CSU: Contacts of Structural Units for 2IMS
  • Structure Factors (385 Kb)
  • Retrieve 2IMS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IMS from S2C, [Save to disk]
  • Re-refined 2ims structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2IMS 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 2IMS
  • 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 2IMS, from MSDmotif at EBI
  • Fold representative 2ims from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ims_A] [2ims]
  • SWISS-PROT database: [Q16611]
  • Belongs to the bcl-2 (bcl-2) family according to TCDB.
  • Domain organization of [BAK_HUMAN] by SWISSPFAM
  • Domain found in 2IMS: [BCL ] by SMART
  • Other resources with information on 2IMS
  • Community annotation for 2IMS 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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