3IK5	Viral Protein Signaling Protein	date	Aug 05, 2009
title	Sivmac239 Nef In Complex With Tcr Zeta Itam 1 Polypeptide (A
authors	W.M.Kim, A.B.Sigalov, L.J.Stern
compound		source
Molecule: Protein Nef Chain: A, C Fragment: Core Domain Engineered: Yes		Organism_scientific: Simian Immunodeficiency Virus Organism_common: Siv-Cpz Organism_taxid: 388909 Gene: Nef Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet32a
Molecule: T-Cell Surface Glycoprotein Cd3 Zeta Chain Chain: D, B Fragment: Itam 1 Polypeptide (A63-R80) Synonym: T-Cell Receptor T3 Zeta Chain Engineered: Yes		Synthetic: Yes Other_details: This Sequence Occurs Naturally In Humans.
symmetry	Space Group: P 21 21 21	R_factor 0.170 R_Free 0.184
crystal cell	length a length b length c angle alpha angle beta angle gamma 47.417 47.421 183.520 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.05 Å
Gene Ontology	Chain Function Process Component A, C
Primary reference	Pseudo-merohedral twinning and noncrystallographic symmetry in orthorhombic crystals of SIVmac239 Nef core domain bound to different-length TCRzeta fragments., Kim WM, Sigalov AB, Stern LJ, Acta Crystallogr D Biol Crystallogr. 2010 Feb;66(Pt 2):163-75. Epub 2010 Jan 22. PMID:20124696

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk] Biological Unit Coordinates (3ik5.pdb1.gz) 47 Kb Biological Unit Coordinates (3ik5.pdb2.gz) 25 Kb Biological Unit Coordinates (3ik5.pdb3.gz) 23 Kb CSU: Contacts of Structural Units for 3IK5 Structure Factors (310 Kb) Retrieve 3IK5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3IK5 from S2C, [Save to disk] Re-refined 3ik5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3IK5 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 3IK5

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3IK5, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ik5_B] [3ik5_D] [3ik5_A] [3ik5_C] [3ik5] SWISS-PROT database: [Q5QGG3] Domain organization of [Q5QGG3_SIVCZ] by SWISSPFAM

Other resources with information on 3IK5

Community annotation for 3IK5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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