2DYP	Immune System	date	Sep 15, 2006
title	Crystal Structure Of Lilrb2(Lir2ilt4cd85d) Complexed With
authors	M.Shiroishi, K.Kuroki, L.Rasubala, D.Kohda, K.Maenaka
compound		source
Molecule: Hla Class I Histocompatibility Antigen, Alpha Cha Chain: A Fragment: Residues In Data Base 25-300 Synonym: Hla G Antigen Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgmt7
Molecule: Beta-2-Microglobulin Chain: B Fragment: Residues In Data Base 24-219 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgmt7
Molecule: 9 Mer Peptide From Histone H2a.X Chain: C Engineered: Yes		Synthetic: Yes Other_details: This Peptide Was Chemically Synthesized
Molecule: Leukocyte Immunoglobulin-Like Receptor Subfamily 2; Chain: D Synonym: Leukocyte Immunoglobulin-Like Receptor 2, Lir-2, Immunoglobulin- Like Transcript 4, Ilt-4, Monocytemacropha Immunoglobulin-Like Receptor 10, Mir-10, Cd85d Antigen; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgmt7
symmetry	Space Group: P 31 2 1	R_factor 0.233 R_Free 0.278
crystal cell	length a length b length c angle alpha angle beta angle gamma 81.400 81.400 186.733 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.50 Å
Gene Ontology	Chain Function Process Component B cellular response to iron io...
Primary reference	Structural basis for recognition of the nonclassical MHC molecule HLA-G by the leukocyte Ig-like receptor B2 (LILRB2/LIR2/ILT4/CD85d)., Shiroishi M, Kuroki K, Rasubala L, Tsumoto K, Kumagai I, Kurimoto E, Kato K, Kohda D, Maenaka K, Proc Natl Acad Sci U S A. 2006 Oct 31;103(44):16412-7. Epub 2006 Oct 20. PMID:17056715

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (99 Kb) [Save to disk] Biological Unit Coordinates (2dyp.pdb1.gz) 94 Kb CSU: Contacts of Structural Units for 2DYP Likely Quarternary Molecular Structure file(s) for 2DYP Structure Factors (195 Kb) Retrieve 2DYP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DYP from S2C, [Save to disk] Re-refined 2dyp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DYP 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 2DYP

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 2DYP, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2dyp_A] [2dyp_B] [2dyp_D] [2dyp] [2dyp_C] SWISS-PROT database: [P61769] [P16104] [P17693] [Q8N423] Domain organization of [B2MG_HUMAN] [H2AX_HUMAN] [HLAG_HUMAN] [LIRB2_HUMAN] by SWISSPFAM Domains found in 2DYP: [IG] [IGc1 ] by SMART

Other resources with information on 2DYP

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

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