3D7V	Apoptosis	date	May 22, 2008
title	Crystal Structure Of Mcl-1 In Complex With An Mcl-1 Selectiv Ligand
authors	E.F.Lee, P.E.Czabotar, P.M.Colman, W.D.Fairlie
compound		source
Molecule: Induced Myeloid Leukemia Cell Differentiation Pro 1; Chain: A Fragment: Bcl-2 Like Domain, Myeloid Cell Leukemia 1 Synonym: Bcl-2-Related Protein Eatmcl1, Mcl1eat Engineered: Yes Other_details: Fusion Protein Consists Of The N-Terminal Ex Tags (Gplgs), Residues 171-208 (Uniprot Residues 152-189) F Induced Myeloid Leukemia Cell Differentiation Protein Mcl-1 (Mouse) And Residues 209-327 From Induced Myeloid Leukemia Differentiation Protein Mcl-1 (Human);		Organism_scientific: Mus Musculus, Homo Sapiens Organism_common: Mouse, Human Organism_taxid: 10090, 9606 Gene: Mcl1 Expression_system: Escherichia Coli Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex6p-3
Molecule: Bcl-2-Like Protein 11 Chain: B Fragment: Bim Bh3 Synonym: Bcl2-Interacting Mediator Of Cell Death Engineered: Yes Mutation: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: I 2 2 2	R_factor 0.192 R_Free 0.241
crystal cell	length a length b length c angle alpha angle beta angle gamma 51.171 69.635 120.654 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.03 Å
ligand	ZN	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	A novel BH3 ligand that selectively targets Mcl-1 reveals that apoptosis can proceed without Mcl-1 degradation., Lee EF, Czabotar PE, van Delft MF, Michalak EM, Boyle MJ, Willis SN, Puthalakath H, Bouillet P, Colman PM, Huang DC, Fairlie WD, J Cell Biol. 2008 Jan 28;180(2):341-55. Epub 2008 Jan 21. PMID:18209102

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk] Biological Unit Coordinates (3d7v.pdb1.gz) 30 Kb LPC: Ligand-Protein Contacts for 3D7V CSU: Contacts of Structural Units for 3D7V Likely Quarternary Molecular Structure file(s) for 3D7V Structure Factors (107 Kb) Retrieve 3D7V in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3D7V from S2C, [Save to disk] Re-refined 3d7v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3D7V 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 3D7V

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 3D motif for 3D7V, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3d7v] [3d7v_B] [3d7v_A] SWISS-PROT database: [O43521] [Q07820] Belongs to the pro-apoptotic bcl-2-family protein bim (bim) family according to TCDB. Domain organization of [B2L11_HUMAN] [MCL1_HUMAN] by SWISSPFAM Domain found in 3D7V: [BCL ] by SMART

Other resources with information on 3D7V

Community annotation for 3D7V at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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