1ZT4 Immune System date May 26, 2005
title The Crystal Structure Of Human Cd1d With And Without Alpha- Galactosylceramide
authors M.Koch, V.S.Stronge, D.Shepherd, S.D.Gadola, B.Mathew, G.Ritter, A.R.Fersht, G.S.Besra, R.R.Schmidt, E.Y.Jones, V.Cerundolo, Stru Proteomics In Europe (Spine)
compound source
Molecule: T-Cell Surface Glycoprotein Cd1d
Chain: A, C
Fragment: Cd1d Heavy Chain
Synonym: Cd1d Antigen, R3g1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cd1d
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Hms174
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23d

Molecule: Beta-2-Microglobulin
Chain: B, D
Synonym: Hdcma22p
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Hms174
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23d
symmetry Space Group: P 21 21 21
R_factor 0.234 R_Free 0.326
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.470 94.300 176.070 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand AGH enzyme
Gene
Ontology
ChainFunctionProcessComponent
D, B
  • cellular response to iron io...

  • Primary referenceThe crystal structure of human CD1d with and without alpha-galactosylceramide., Koch M, Stronge VS, Shepherd D, Gadola SD, Mathew B, Ritter G, Fersht AR, Besra GS, Schmidt RR, Jones EY, Cerundolo V, Nat Immunol 2005 Jul 10;. PMID:16007090
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (128 Kb) [Save to disk]
  • Biological Unit Coordinates (1zt4.pdb1.gz) 63 Kb
  • Biological Unit Coordinates (1zt4.pdb2.gz) 62 Kb
  • Biological Unit Coordinates (1zt4.pdb3.gz) 122 Kb
  • LPC: Ligand-Protein Contacts for 1ZT4
  • CSU: Contacts of Structural Units for 1ZT4
  • Likely Quarternary Molecular Structure file(s) for 1ZT4
  • Structure Factors (156 Kb)
  • Retrieve 1ZT4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZT4 from S2C, [Save to disk]
  • Re-refined 1zt4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ZT4 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 1ZT4
  • 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 1ZT4, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zt4_C] [1zt4] [1zt4_A] [1zt4_B] [1zt4_D]
  • SWISS-PROT database: [P61769] [P15813]
  • Domain organization of [B2MG_HUMAN] [CD1D_HUMAN] by SWISSPFAM
  • Domain found in 1ZT4: [IGc1 ] by SMART
  • Other resources with information on 1ZT4
  • Community annotation for 1ZT4 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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