5T6Y Immune System date Sep 02, 2016
title Hla-B57:01 Presenting Tstfedvkilaf
authors P.Pymm, J.Rossjohn, J.P.Vivian
compound source
Molecule: Hla Class I Histocompatibility Antigen, B-57 Alph
Chain: A
Fragment: Unp Residues 25-300
Synonym: Bw-57,Mhc Class I Antigen B57
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-B, Hlab
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-30

Molecule: Beta-2-Microglobulin
Chain: B
Fragment: Unp Residues 21-119
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-30

Molecule: Decapeptide: Thr-Ser-Thr-Phe-Glu-Asp-Val-Lys-Ile- Phe;
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.178 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.707 82.043 110.095 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.76 Å
ligand ACT, GOL enzyme
Gene
Ontology
ChainFunctionProcessComponent
B
  • cellular response to iron io...

  • Primary referenceMHC-I peptides get out of the groove and enable a novel mechanism of HIV-1 escape., Pymm P, Illing PT, Ramarathinam SH, O'Connor GM, Hughes VA, Hitchen C, Price DA, Ho BK, McVicar DW, Brooks AG, Purcell AW, Rossjohn J, Vivian JP, Nat Struct Mol Biol. 2017 Feb 20. doi: 10.1038/nsmb.3381. PMID:28218747
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (145 Kb) [Save to disk]
  • Biological Unit Coordinates (5t6y.pdb1.gz) 140 Kb
  • LPC: Ligand-Protein Contacts for 5T6Y
  • CSU: Contacts of Structural Units for 5T6Y
  • Structure Factors (952 Kb)
  • Retrieve 5T6Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5T6Y from S2C, [Save to disk]
  • Re-refined 5t6y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5T6Y 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 5T6Y
  • 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: [5t6y_B] [5t6y_C] [5t6y_A] [5t6y]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5T6Y
  • Community annotation for 5T6Y at PDBWiki (http://pdbwiki.org)

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