2ZOK	Immune System	date	May 22, 2008
title	Crystal Structure Of H-2db In Complex With Jhmv Epitope S510
authors	A.Theodossis, M.A.Dunstone, J.Rossjohn
compound		source
Molecule: H-2 Class I Histocompatibility Antigen, D-B Alpha Chain: A, C, E, G Fragment: Extracellular Domain, Unp Residues 25-299 Synonym: H-2d(B) Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid
Molecule: Beta-2-Microglobulin Chain: B, D, F, H Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid
Molecule: 9-Meric Peptide From Spike Glycoprotein Chain: I, L, J, K Fragment: Unp Residues 510-518 Synonym: Peptidic Epitope S510 Engineered: Yes		Synthetic: Yes Other_details: Synthetic Peptide
symmetry	Space Group: P 1 21 1	R_factor 0.206 R_Free 0.266
crystal cell	length a length b length c angle alpha angle beta angle gamma 79.538 86.056 152.072 90.00 90.01 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	ABA, GOL, SO4	enzyme
Gene Ontology	Chain Function Process Component H, F, D, B
Primary reference	Structural and biological basis of CTL escape in coronavirus-infected mice., Butler NS, Theodossis A, Webb AI, Dunstone MA, Nastovska R, Ramarathinam SH, Rossjohn J, Purcell AW, Perlman S, J Immunol. 2008 Mar 15;180(6):3926-37. PMID:18322201

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (271 Kb) [Save to disk] Biological Unit Coordinates (2zok.pdb1.gz) 70 Kb Biological Unit Coordinates (2zok.pdb2.gz) 70 Kb Biological Unit Coordinates (2zok.pdb3.gz) 69 Kb Biological Unit Coordinates (2zok.pdb4.gz) 71 Kb Biological Unit Coordinates (2zok.pdb5.gz) 135 Kb Biological Unit Coordinates (2zok.pdb6.gz) 135 Kb LPC: Ligand-Protein Contacts for 2ZOK CSU: Contacts of Structural Units for 2ZOK Likely Quarternary Molecular Structure file(s) for 2ZOK Structure Factors (1772 Kb) Retrieve 2ZOK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ZOK from S2C, [Save to disk] Re-refined 2zok structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2ZOK 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 2ZOK

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 2ZOK, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2zok_K] [2zok_B] [2zok] [2zok_G] [2zok_E] [2zok_I] [2zok_F] [2zok_C] [2zok_L] [2zok_D] [2zok_H] [2zok_A] [2zok_J] SWISS-PROT database: [P01887] [P01899] [Q02385] Domain organization of [B2MG_MOUSE] [HA11_MOUSE] [SPIKE_CVMJC] by SWISSPFAM Domain found in 2ZOK: [IGc1 ] by SMART

Other resources with information on 2ZOK

Community annotation for 2ZOK 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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