1Z5L	Immune System	date	Mar 18, 2005
title	Structure Of A Highly Potent Short-Chain Galactosyl Ceramide Bound To Cd1d
authors	D.M.Zajonc, C.Cantu, J.Mattner, D.Zhou, P.B.Savage, A.Bendelac, I. L.Teyton
compound		source
Molecule: T-Cell Surface Glycoprotein Cd1d Antigen Chain: A, C Fragment: Extracellular Domain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Drosophila Melanogaster Expression_system_common: Fruit Fly Expression_system_taxid: 7227 Expression_system_cell: S2 Cells Expression_system_vector_type: Plasmid Expression_system_plasmid: Prmha3
Molecule: Beta-2-Microglobulin Chain: B, D Fragment: Extracellular Domain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Drosophila Melanogaster Expression_system_common: Fruit Fly Expression_system_taxid: 7227 Expression_system_cell: S2 Cells Expression_system_vector_type: Plasmid Expression_system_plasmid: Prmha3
symmetry	Space Group: P 1 21 1	R_factor 0.242 R_Free 0.294
crystal cell	length a length b length c angle alpha angle beta angle gamma 59.451 77.045 111.014 90.00 107.63 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	NAG, PBS, R16	enzyme
Gene Ontology	Chain Function Process Component D, B
Primary reference	Structure and function of a potent agonist for the semi-invariant natural killer T cell receptor., Zajonc DM, Cantu C, Mattner J, Zhou D, Savage PB, Bendelac A, Wilson IA, Teyton L, Nat Immunol 2005 Jul 10;. PMID:16007091

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk] Biological Unit Coordinates (1z5l.pdb1.gz) 63 Kb Biological Unit Coordinates (1z5l.pdb2.gz) 63 Kb Biological Unit Coordinates (1z5l.pdb3.gz) 124 Kb LPC: Ligand-Protein Contacts for 1Z5L CSU: Contacts of Structural Units for 1Z5L Likely Quarternary Molecular Structure file(s) for 1Z5L Structure Factors (344 Kb) Retrieve 1Z5L in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Z5L from S2C, [Save to disk] Re-refined 1z5l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1Z5L 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 1Z5L

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 1Z5L, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1z5l] [1z5l_D] [1z5l_B] [1z5l_A] [1z5l_C] SWISS-PROT database: [P01887] [P11609] Domain organization of [B2MG_MOUSE] [CD1D1_MOUSE] by SWISSPFAM Domain found in 1Z5L: [IGc1 ] by SMART

Other resources with information on 1Z5L

Community annotation for 1Z5L at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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