1Q94 Immune System date Aug 22, 2003
title Structures Of Hla-A1101 In Complex With Immunodominant Nona Decamer Hiv-1 Epitopes Clearly Reveal The Presence Of A Mid Residue
authors L.Li, J.M.Mcnicholl, M.Bouvier
compound source
Molecule: Hla Class I Histocompatibility Antigen, A-11 Alph
Chain: A, D
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-A Or Hlaa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1
Other_details: From 1 Major Histocompatibility Complex

Molecule: Beta-2-Microglobulin
Chain: B, E
Synonym: Hdcma22p
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: Xa90
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phn1

Molecule: Nonamer Reverse Transcriptase (Aifqssmtk)
Chain: C, F
Engineered: Yes
Synthetic: Yes
Organism_scientific: Human Immunodeficiency Virus Type 1 Gr Subtype D (Isolate Z2cdc-Z34) (Hiv-1);
Organism_taxid: 11683
Other_details: Peptide Was Obtained Through Standard Solid- Peptide Synthesis
symmetry Space Group: P 1
R_factor 0.232 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.400 46.400 124.300 91.50 97.90 114.80
method X-Ray Diffractionresolution 2.40 Å
related structures by homologous chain: 1S7W, 1SYS
Gene
Ontology
ChainFunctionProcessComponent
E, B
  • cellular response to iron io...

    • Primary referenceStructures of HLA-A*1101 complexed with immunodominant nonamer and decamer HIV-1 epitopes clearly reveal the presence of a middle, secondary anchor residue., Li L, Bouvier M, J Immunol 2004 May 15;172(10):6175-84. PMID:15128805
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk]
  • Biological Unit Coordinates (1q94.pdb1.gz) 66 Kb
  • Biological Unit Coordinates (1q94.pdb2.gz) 67 Kb
  • CSU: Contacts of Structural Units for 1Q94
  • Likely Quarternary Molecular Structure file(s) for 1Q94
  • Structure Factors (519 Kb)
  • Retrieve 1Q94 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Q94 from S2C, [Save to disk]
  • Re-refined 1q94 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1Q94 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 1Q94
  • 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
  • 3D motif for 1Q94, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1q94a2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1q94a1, region A:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1q94b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1q94d2, region D:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1q94d1, region D:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1q94e_, 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: [1q94_B] [1q94_D] [1q94_C] [1q94_A] [1q94] [1q94_F] [1q94_E]
  • SWISS-PROT database: [P13746] [P61769] [P12499]
  • Domain organization of [1A11_HUMAN] [B2MG_HUMAN] [POL_HV1Z2] by SWISSPFAM
  • Domain found in 1Q94: [IGc1 ] by SMART
    • Other resources with information on 1Q94
  • Community annotation for 1Q94 at PDBWiki (http://pdbwiki.org)
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