1QR1 Immune System date Jun 17, 1999
title Poor Binding Of A Her-2neu Epitope (Gp2) To Hla-A2.1 Is Due Of Interactions In The Center Of The Peptide
authors J.J.Kuhns, M.A.Batalia, S.Yan, E.J.Collins
compound source
Molecule: Hla-A2.1 Heavy Chain
Chain: A, D
Fragment: Residues 1-275 Of Extracellular Portion
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(Plyss)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1

Molecule: Beta-2 Microglobulin
Chain: B, E
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Phn1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1

Molecule: Gp2 Peptide
Chain: C, F
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide By Fmoc Chemistry
symmetry Space Group: P 1
R_factor 0.242 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.337 63.609 75.135 81.88 76.25 77.83
method X-Ray Diffractionresolution 2.40 Å
related structures by homologous chain: 1BII, 1SYS
Gene
Ontology
ChainFunctionProcessComponent
E, B


Primary referencePoor binding of a HER-2/neu epitope (GP2) to HLA-A2.1 is due to a lack of interactions with the center of the peptide., Kuhns JJ, Batalia MA, Yan S, Collins EJ, J Biol Chem 1999 Dec 17;274(51):36422-7. PMID:10593938
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk]
  • Biological Unit Coordinates (1qr1.pdb1.gz) 64 Kb
  • Biological Unit Coordinates (1qr1.pdb2.gz) 64 Kb
  • CSU: Contacts of Structural Units for 1QR1
  • Likely Quarternary Molecular Structure file(s) for 1QR1
  • Retrieve 1QR1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QR1 from S2C, [Save to disk]
  • View 1QR1 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 1QR1
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1QR1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qr1a2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1qr1a1, region A:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1qr1b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1qr1d2, region D:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1qr1d1, region D:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1qr1e_, region E [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: [1qr1_D] [1qr1_E] [1qr1] [1qr1_C] [1qr1_B] [1qr1_A] [1qr1_F]
  • SWISS-PROT database: [P01892] [P61769] [P04626]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [ERBB2_HUMAN] by SWISSPFAM
  • Domain found in 1QR1: [IGc1 ] by SMART
  • Other resources with information on 1QR1
  • Community annotation for 1QR1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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