1R5V Evidence that structural rearrangements and/or flexibility during TCR binding can contribute to T-cell activation date
authors Krogsgaard, M., Prado, N., Adams, E.J., He, X.L., Chow, D.C., Wilson, D.B., Garcia, K.C., Davis, M.M.
compound source
symmetry
R_factor
R_Free 0.241
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.50
related structures by homologous chain: 1LNU, 1T5X, 2SEB
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceEvidence that structural rearrangements and/or flexibility during TCR binding can contribute to T cell activation., Krogsgaard M, Prado N, Adams EJ, He XL, Chow DC, Wilson DB, Garcia KC, Davis MM, Mol Cell 2003 Dec;12(6):1367-78. PMID:14690592
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk]
  • Biological Unit Coordinates (1r5v.pdb1.gz) 124 Kb
  • Biological Unit Coordinates (1r5v.pdb2.gz) 64 Kb
  • Biological Unit Coordinates (1r5v.pdb3.gz) 64 Kb
  • CSU: Contacts of Structural Units for 1R5V
  • Likely Quarternary Molecular Structure file(s) for 1R5V
  • Retrieve 1R5V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R5V from S2C, [Save to disk]
    • View 1R5V 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 1R5V
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1R5V, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r5va2, region A:3-81 [Jmol] [rasmolscript] [script source]
        - Domain d1r5va1, region A:82-182 [Jmol] [rasmolscript] [script source]
        - Domain d1r5vb1, region B:121-215 [Jmol] [rasmolscript] [script source]
        - Domain d1r5vb2, region B:31-120 [Jmol] [rasmolscript] [script source]
        - Domain d1r5vc2, region C:3-81 [Jmol] [rasmolscript] [script source]
        - Domain d1r5vc1, region C:82-182 [Jmol] [rasmolscript] [script source]
        - Domain d1r5vd1, region D:121-215 [Jmol] [rasmolscript] [script source]
        - Domain d1r5vd2, region D:31-120 [Jmol] [rasmolscript] [script source]
  • Fold representative 1r5v 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: [1r5v_E] [1r5v_D] [1r5v_C] [1r5v_F] [1r5v_B] [1r5v] [1r5v_A]
  • SWISS-PROT database: [P04224] [P18468]
  • Domain organization of [HA22_MOUSE] [HB2I_MOUSE] by SWISSPFAM
  • Domains found in 1R5V: [IGc1] [MHC_II_alpha] [MHC_II_beta ] by SMART
    • Other resources with information on 1R5V
  • Community annotation for 1R5V 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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