5E9D	Protein Binding	date	Oct 15, 2015
title	Rd-1 Mart-1 High Bound To Mart-1 Decameric Peptide (Ela) In With Hla-A2
authors	N.K.Singh, B.M.Baker
compound		source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha Chain: A, F Synonym: Mhc Class I Antigen A2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hla-A, Hlaa Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Beta-2-Microglobulin Chain: B, G Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: B2m, Cdabp0092, Hdcma22p Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Melanoma Derived Mart-1 Peptide Chain: C, H Engineered: Yes Mutation: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
Molecule: A6-Tcr Valpha Chain: D, I Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Trav12-2 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: A6-Tcr Vbeta Chain: E, J Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Trbv6-5 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1 21 1	R_factor 0.180 R_Free 0.232
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.438 164.484 95.201 90.00 100.56 90.00
method	X-Ray Diffraction	resolution	2.51 Å
Gene Ontology	Chain Function Process Component G, B cellular response to iron io...
Primary reference	An Engineered Switch in T Cell Receptor Specificity Leads to an Unusual but Functional Binding Geometry., Harris DT, Singh NK, Cai Q, Smith SN, Vander Kooi CW, Procko E, Kranz DM, Baker BM, Structure. 2016 May 24. pii: S0969-2126(16)30072-7. doi:, 10.1016/j.str.2016.04.011. PMID:27238970

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (416 Kb) [Save to disk] Biological Unit Coordinates (5e9d.pdb1.gz) 202 Kb Biological Unit Coordinates (5e9d.pdb2.gz) 205 Kb CSU: Contacts of Structural Units for 5E9D Structure Factors (913 Kb) Retrieve 5E9D in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5E9D from S2C, [Save to disk] Re-refined 5e9d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5E9D 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 5E9D

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5e9d_G] [5e9d_B] [5e9d_E] [5e9d] [5e9d_F] [5e9d_J] [5e9d_A] [5e9d_I] [5e9d_H] [5e9d_D] [5e9d_C] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5E9D: [IG] [IGc1] [IGv ] by SMART

Other resources with information on 5E9D

Community annotation for 5E9D at PDBWiki (http://pdbwiki.org)

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