1TVB	Immune System	date	Jun 29, 2004
title	Crystal Structure Of Melanoma Antigen Gp100(209-217) Bound T Class I Mhc Hla-A2
authors	O.Y.Borbulevych, B.M.Baker
compound		source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha Chain: A, D Fragment: Alpha-Chain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hla-A, Hlaa Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Phn1
Molecule: Beta-2-Microglobulin Chain: B, E Fragment: Beta-Chain 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: Phn1 Expression_system_vector_type: Plasmid Expression_system_plasmid: Plm1
Molecule: Epitope Of Melanocyte Protein Pmel 17 Chain: C, F Fragment: Residues 209-217 Engineered: Yes Other_details: Native Epitope		Synthetic: Yes Other_details: Sequence Occurs Naturally In Humans
symmetry	Space Group: P 1 21 1	R_factor 0.165 R_Free 0.216
crystal cell	length a length b length c angle alpha angle beta angle gamma 58.388 84.452 84.016 90.00 90.01 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	GOL	enzyme
related structures	by homologous chain: 1LDS, 1TVH, 1XR9
Gene Ontology	Chain Function Process Component A, D E, B
Primary reference	Increased Immunogenicity of an Anchor-Modified Tumor-Associated Antigen Is Due to the Enhanced Stability of the Peptide/MHC Complex: Implications for Vaccine Design., Borbulevych OY, Baxter TK, Yu Z, Restifo NP, Baker BM, J Immunol 2005 Apr 15;174(8):4812-20. PMID:15814707

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk] Biological Unit Coordinates (1tvb.pdb1.gz) 77 Kb Biological Unit Coordinates (1tvb.pdb2.gz) 77 Kb LPC: Ligand-Protein Contacts for 1TVB CSU: Contacts of Structural Units for 1TVB Likely Quarternary Molecular Structure file(s) for 1TVB Structure Factors (1007 Kb) Retrieve 1TVB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1TVB from S2C, [Save to disk] Re-refined 1tvb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1TVB 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1TVB

Cartoon representation from PDB Cartoon 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 Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 1TVB, from MSDmotif at EBI Fold representative 1tvb from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1tvb_E] [1tvb_A] [1tvb_B] [1tvb_C] [1tvb_D] [1tvb] [1tvb_F] SWISS-PROT database: [P01892] [P61769] [P40967] Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [PME17_HUMAN] by SWISSPFAM Domain found in 1TVB: [IGc1 ] by SMART Alignments of the sequence of 1TVB with the sequences similar proteins can be viewed for 1TVB's classification [1A02_HUMAN] [B2MG_HUMAN] [PME17_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [1A02_HUMAN] [B2MG_HUMAN] [PME17_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1TVB

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

Movements, Movies and Images

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