1B88 Immune System date Feb 09, 1999
title V-Alpha 2.6 Mouse T Cell Receptor (Tcr) Domain
authors D.Plaksin, S.Chacko, J.Navaza, D.H.Margulies, E.A.Padlan
compound source
Molecule: T Cell Receptor V-Alpha Domain
Chain: A, B
Fragment: V-Alpha Domain
Synonym: Tcr
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balbc
Cell_line: B4.2.3 T Cell Hybridoma
Cell: T Lymphocyte
Cellular_location: Plasma Membrane
Gene: Tcrav2s6j38
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_cellular_location: Inclusion Bodies
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a
symmetry Space Group: P 21 21 21
R_factor 0.224 R_Free 0.324
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.987 76.187 88.402 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
related structures by homologous chain: 1KB5, 1KJ2
Primary referenceThe X-ray crystal structure of a Valpha2.6Jalpha38 mouse T cell receptor domain at 2.5 A resolution: alternate modes of dimerization and crystal packing., Plaksin D, Chacko S, Navaza J, Margulies DH, Padlan EA, J Mol Biol 1999 Jun 25;289(5):1153-61. PMID:10373358
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (1b88.pdb1.gz) 45 Kb
  • CSU: Contacts of Structural Units for 1B88
  • Likely Quarternary Molecular Structure file(s) for 1B88
  • Retrieve 1B88 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1B88 from S2C, [Save to disk]
  • View 1B88 in 3D
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  • Visual 3D analysis of 1B88
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1B88, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1b88a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1b88b_, region B [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: [1b88_A] [1b88_B] [1b88]
  • SWISS-PROT database: [Q5R1B3]
  • Domain organization of [Q5R1B3_MOUSE] by SWISSPFAM
  • Domain found in 1B88: [IGv ] by SMART
  • Other resources with information on 1B88
  • Community annotation for 1B88 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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