6UJO Immune System date Oct 03, 2019
title Hhat L75f Neoantigen Peptide Kqwlvwlfl Presented By Hla-A206
authors J.R.Devlin, B.M.Baker, C.Vander Kooi
compound source
Molecule: Mhc Class I Antigen
Chain: A
Fragment: Unp Residues 25-299
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-A
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl1 Blue

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: 562
Expression_system_strain: Xl1 Blue

Molecule: Protein-Cysteine N-Palmitoyltransferase Hhat
Chain: C
Fragment: Neoantigen Peptide (Unp Residues 68-76)
Engineered: Yes
Mutation: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 1 2 1
R_factor 0.172 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
97.541 37.692 120.113 90.00 91.48 90.00
method X-Ray Diffractionresolution 2.25 Å
Gene
Ontology
ChainFunctionProcessComponent
B
  • cellular response to iron io...

    • Primary referenceStructural dissimilarity from self drives neoepitope escape from immune tolerance., Devlin JR, Alonso JA, Ayres CM, Keller GLJ, Bobisse S, Vander Kooi CW, Coukos G, Gfeller D, Harari A, Baker BM, Nat Chem Biol. 2020 Nov;16(11):1269-1276. doi: 10.1038/s41589-020-0610-1. Epub, 2020 Aug 17. PMID:32807968
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]
  • Biological Unit Coordinates (6ujo.pdb1.gz) 133 Kb
  • CSU: Contacts of Structural Units for 6UJO
  • Structure Factors (631 Kb)
  • Retrieve 6UJO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6UJO from S2C, [Save to disk]
    • View 6UJO 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 6UJO
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6ujo_B] [6ujo_C] [6ujo_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6UJO
  • Community annotation for 6UJO at PDBWiki (http://pdbwiki.org)

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