3IKK	Membrane Protein	date	Aug 06, 2009
title	Crystal Structure Analysis Of Msp Domain
authors	J.Shi, S.Lua, J.Song
compound		source
Molecule: Vesicle-Associated Membrane Protein-Associated Pr Chain: A, B Fragment: Vapb Msp Domain, Unp Residues 1-125 Synonym: Human Vap-B Msp Domain, Vamp-Associated Protein B Bvamp-C, Vap-Bvap-C; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Unq484pro983, Vapb Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet32a
symmetry	Space Group: H 3	R_factor 0.207 R_Free 0.266
crystal cell	length a length b length c angle alpha angle beta angle gamma 144.024 144.024 34.791 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.50 Å
note	3IKK is a representative structure
Gene Ontology	Chain Function Process Component A, B
Primary reference	Elimination of the native structure and solubility of the hVAPB MSP domain by the Pro56Ser mutation that causes amyotrophic lateral sclerosis., Shi J, Lua S, Tong JS, Song J, Biochemistry. 2010 May 11;49(18):3887-97. PMID:20377183

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk] Biological Unit Coordinates (3ikk.pdb1.gz) 42 Kb CSU: Contacts of Structural Units for 3IKK Structure Factors (70 Kb) Retrieve 3IKK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3IKK from S2C, [Save to disk] Re-refined 3ikk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3IKK 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 3IKK

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 3IKK, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ikk_B] [3ikk] [3ikk_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3IKK

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

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