1IM3 Viral Protein Immune System date May 09, 2001
title Crystal Structure Of The Human Cytomegalovirus Protein Us2 Bound To The Mhc Class I Molecule Hla-A2tax
authors B.E.Gewurz, R.Gaudet, D.Tortorella, E.W.Wang, H.L.Ploegh, D.C.Wiley
compound source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha Chain;
Chain: A, E, I, M
Fragment: Extracellular Domain, Heavy Chain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-A2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet27

Molecule: Beta-2-Microglobulin
Chain: B, F, J, N
Fragment: Recombinant Residues 1-99
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Beta 2-Microglobulin
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm-1

Molecule: Human T-Cell Lymphotropic Virus Type 1 Tax Peptide;
Chain: C, G, K, O
Engineered: Yes

Synthetic: Yes
Other_details: Htlv Tax Peptide (Llfgypvyv) Was Produced By Fmoc Solid Phase Peptide Synthesis;

Molecule: Cytomegalovirus Protein Us2
Chain: D, H, L, P
Fragment: Recombinant Er-Lumenal Fragment
Engineered: Yes

Organism_scientific: Human Herpesvirus 5
Organism_common: Human Cytomegalovirus
Organism_taxid: 10359
Gene: Us2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet27d
symmetry Space Group: P 1
R_factor 0.206 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
95.480 96.700 99.540 109.02 109.46 107.93
method X-Ray Diffractionresolution 2.20 Å
note 1IM3 is a representative structure
related structures by homologous chain: 1INQ, 1QEW
Gene
Ontology
ChainFunctionProcessComponent
F, J, N, B
  • cellular response to iron io...

  • H, D, P, L


    Primary referenceAntigen presentation subverted: Structure of the human cytomegalovirus protein US2 bound to the class I molecule HLA-A2., Gewurz BE, Gaudet R, Tortorella D, Wang EW, Ploegh HL, Wiley DC, Proc Natl Acad Sci U S A 2001 Jun 5;98(12):6794-9. PMID:11391001
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (351 Kb) [Save to disk]
  • Biological Unit Coordinates (1im3.pdb1.gz) 92 Kb
  • Biological Unit Coordinates (1im3.pdb2.gz) 92 Kb
  • Biological Unit Coordinates (1im3.pdb3.gz) 91 Kb
  • Biological Unit Coordinates (1im3.pdb4.gz) 91 Kb
  • CSU: Contacts of Structural Units for 1IM3
  • Likely Quarternary Molecular Structure file(s) for 1IM3
  • Structure Factors (1523 Kb)
  • Retrieve 1IM3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IM3 from S2C, [Save to disk]
  • Re-refined 1im3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1IM3 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 1IM3
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1IM3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1im3a2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1im3a1, region A:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1im3b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1im3d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1im3e2, region E:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1im3e1, region E:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1im3f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1im3h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1im3i2, region I:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1im3i1, region I:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1im3j_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1im3l_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1im3m2, region M:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1im3m1, region M:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1im3n_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1im3p_, region P [Jmol] [rasmolscript] [script source]
  • Fold representative 1im3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1im3_H] [1im3] [1im3_J] [1im3_D] [1im3_P] [1im3_G] [1im3_L] [1im3_I] [1im3_K] [1im3_M] [1im3_O] [1im3_F] [1im3_E] [1im3_N] [1im3_C] [1im3_A] [1im3_B]
  • SWISS-PROT database: [P01892] [P61769] [P09713]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [US02_HCMVA] by SWISSPFAM
  • Domain found in 1IM3: [IGc1 ] by SMART
  • Other resources with information on 1IM3
  • Community annotation for 1IM3 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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