2PO6	Lipid Binding Protein Immune System	date	Apr 25, 2007
title	Crystal Structure Of Cd1d-Lipid-Antigen Complexed With Beta- Microglobulin, Nkt15 Alpha-Chain And Nkt15 Beta-Chain
authors	N.A.Borg
compound		source
Molecule: T-Cell Surface Glycoprotein Cd1d Chain: A, E Synonym: Cd1d Antigen, R3g1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cd1d Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pfastbac Dual
Molecule: Beta-2-Microglobulin Chain: B, F Fragment: Beta-2-Microglobulin Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: B2m Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pfastbac Dual
Molecule: Nkt15 Alpha-Chain Chain: C, G Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30
Molecule: Nkt15 Beta-Chain Chain: D, H Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30
symmetry	Space Group: C 1 2 1	R_factor 0.226 R_Free 0.293
crystal cell	length a length b length c angle alpha angle beta angle gamma 204.012 155.636 85.981 90.00 94.78 90.00
method	X-Ray Diffraction	resolution	3.20 Å
ligand	AGH, BMA, NAG	enzyme
Gene Ontology	Chain Function Process Component F, B cellular response to iron io...
Primary reference	CD1d-lipid-antigen recognition by the semi-invariant NKT T-cell receptor., Borg NA, Wun KS, Kjer-Nielsen L, Wilce MC, Pellicci DG, Koh R, Besra GS, Bharadwaj M, Godfrey DI, McCluskey J, Rossjohn J, Nature. 2007 Jun 20;. PMID:17581592

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (267 Kb) [Save to disk] Biological Unit Coordinates (2po6.pdb1.gz) 132 Kb Biological Unit Coordinates (2po6.pdb2.gz) 131 Kb LPC: Ligand-Protein Contacts for 2PO6 CSU: Contacts of Structural Units for 2PO6 Likely Quarternary Molecular Structure file(s) for 2PO6 Structure Factors (379 Kb) Retrieve 2PO6 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2PO6 from S2C, [Save to disk] Re-refined 2po6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2PO6 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 2PO6

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 2PO6, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2po6_H] [2po6] [2po6_C] [2po6_G] [2po6_F] [2po6_A] [2po6_B] [2po6_D] [2po6_E] SWISS-PROT database: [P61769] [P15813] [P01848] [P01850] Domain organization of [B2MG_HUMAN] [CD1D_HUMAN] [TCA_HUMAN] [TCB_HUMAN] by SWISSPFAM Domains found in 2PO6: [IG_like] [IGc1] [IGv ] by SMART

Other resources with information on 2PO6

Community annotation for 2PO6 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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