3D3M	Translation	date	May 12, 2008
title	The Crystal Structure Of The C-Terminal Region Of Death Asso Protein 5(Dap5)
authors	O.Dym, Israel Structural Proteomics Center (Ispc)
compound		source
Molecule: Eukaryotic Translation Initiation Factor 4 Gamma Chain: A, B Fragment: C Terminal Domain Synonym: Death-Associated Protein 5, Dap-5, Eif-4-Gamma 2, Eif4g 2, P97; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Man Organism_taxid: 9606 Gene: Eif4g2, Dap5, Oksw-Cl.75 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21
symmetry	Space Group: P 1 21 1	R_factor 0.211 R_Free 0.259
crystal cell	length a length b length c angle alpha angle beta angle gamma 61.059 45.734 63.357 90.00 103.81 90.00
method	X-Ray Diffraction	resolution	1.90 Å
note	3D3M is a representative structure
Primary reference	The Crystal Structure of the C-Terminal DAP5/p97 Domain Sheds Light on the Molecular Basis for Its Processing by Caspase Cleavage., Liberman N, Dym O, Unger T, Albeck S, Peleg Y, Jacobovitch Y, Branzburg A, Eisenstein M, Marash L, Kimchi A, J Mol Biol. 2008 Aug 12. PMID:18722383

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk] Biological Unit Coordinates (3d3m.pdb1.gz) 28 Kb Biological Unit Coordinates (3d3m.pdb2.gz) 27 Kb CSU: Contacts of Structural Units for 3D3M Likely Quarternary Molecular Structure file(s) for 3D3M Structure Factors (446 Kb) Retrieve 3D3M in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3D3M from S2C, [Save to disk] Re-refined 3d3m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3D3M 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 3D3M

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 3D3M, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3d3m_A] [3d3m_B] [3d3m] SWISS-PROT database: [P78344] Domain organization of [IF4G2_HUMAN] by SWISSPFAM Domain found in 3D3M: [eIF5C ] by SMART

Other resources with information on 3D3M

Community annotation for 3D3M at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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