1KG0	Viral Protein Immune System	date	Nov 25, 2001
title	Structure Of The Epstein-Barr Virus Gp42 Protein Bound To Th Class II Receptor Hla-Dr1
authors	M.M.Mullen, K.M.Haan, R.Longnecker, T.S.Jardetzky
compound		source
Molecule: Mhc Class II Receptor Hla-Dr1 Chain: A Fragment: Alpha Chain, Extracellular Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Mhc Class II Receptor Hla-Dr1 Chain: B Fragment: Beta Chain, Extracellular Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Hemagglutinin Ha Peptide Chain: D Fragment: Antigenic Peptide Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630 Other_details: Synthetic Peptide Derived From Influenza Hemagglutinin Sequence;
Molecule: Gp42 Protein Chain: C Fragment: Extracellular Domain Engineered: Yes		Organism_scientific: Human Herpesvirus 4 Organism_common: Epstein-Barr Virus Organism_taxid: 10376 Strain: Gd1 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pbac-Gus3
symmetry	Space Group: P 63 2 2	R_factor 0.221 R_Free 0.247
crystal cell	length a length b length c angle alpha angle beta angle gamma 170.400 170.400 101.000 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.65 Å
related structures	by homologous chain: 1IAO, 1JWM, 1R5I
Gene Ontology	Chain Function Process Component A B
Primary reference	Structure of the Epstein-Barr virus gp42 protein bound to the MHC class II receptor HLA-DR1., Mullen MM, Haan KM, Longnecker R, Jardetzky TS, Mol Cell 2002 Feb;9(2):375-85. PMID:11864610

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk] Biological Unit Coordinates (1kg0.pdb1.gz) 100 Kb CSU: Contacts of Structural Units for 1KG0 Likely Quarternary Molecular Structure file(s) for 1KG0 Retrieve 1KG0 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1KG0 from S2C, [Save to disk]

View 1KG0 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 1KG0

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1KG0, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1kg0a2, region A:3-81 [Jmol] [rasmolscript] [script source]     - Domain d1kg0a1, region A:82-182 [Jmol] [rasmolscript] [script source]     - Domain d1kg0b2, region B:3-92 [Jmol] [rasmolscript] [script source]     - Domain d1kg0b1, region B:93-190 [Jmol] [rasmolscript] [script source]     - Domain d1kg0c_, region C [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1kg0_D] [1kg0_A] [1kg0_C] [1kg0] [1kg0_B] SWISS-PROT database: [P04229] [P01903] [P03205] Belongs to the epstein barr virus (human herpes virus 4) gp42 (gp42) family according to TCDB. Domain organization of [2B11_HUMAN] [DRA_HUMAN] [GP42_EBVB9] by SWISSPFAM Domains found in 1KG0: [CLECT] [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART

Other resources with information on 1KG0

Community annotation for 1KG0 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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