PDB entry 3are

View 3are on RCSB PDB site
Description: Ternary crystal structure of the mouse NKT TCR-CD1d-4'deoxy-alpha-galactosylceramide
Class: immune system
Keywords: mouse NKT TCR, mouse CD1d, IMMUNE SYSTEM
Deposited on 2010-11-27, released 2011-03-30
The last revision prior to the SCOPe 2.06 freeze date was dated 2014-01-29, with a file datestamp of 2014-01-24.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: 0.223
AEROSPACI score: 0.19 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Antigen-presenting glycoprotein CD1d1
    Species: Mus musculus [TaxId:10090]
    Gene: Cd1d1, Cd1.1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P11609 (Start-278)
      • see remark 999 (200)
      • expression tag (279-299)
    Domains in SCOPe 2.06: d3area1, d3area2, d3area3
  • Chain 'B':
    Compound: Beta-2-microglobulin
    Species: Mus musculus [TaxId:10090]
    Gene: B2M
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d3areb_
  • Chain 'C':
    Compound: NKT Valpha14-Jalpha18
    Species: Mus musculus, Homo sapiens [TaxId:10090, 9606]
    Gene:
    Database cross-references and differences (RAF-indexed):
    • PDB 3ARE (0-End)
    Domains in SCOPe 2.06: d3arec1, d3arec2
  • Chain 'D':
    Compound: Vbeta8.2
    Species: Mus musculus, Homo sapiens [TaxId:10090, 9606]
    Gene:
    Database cross-references and differences (RAF-indexed):
    • PDB 3ARE (Start-243)
    Domains in SCOPe 2.06: d3ared1, d3ared2
  • Heterogens: NAG, 4GH, PEG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >3areA (A:)
    seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
    qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
    qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
    sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
    adetwylqatldveageeaglacrvkhsslggqdiilywgslhhildaqkmvwnhrhhhh
    hh
    

    Sequence, based on observed residues (ATOM records): (download)
    >3areA (A:)
    nytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqwekl
    qhmfqvyrvsftrdiqelvkmmskedypieiqlsagcemygnasesflhvafqgkyvvrf
    wgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlekqek
    pvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetwylq
    atldveageeaglacrvkhsslggqdiilywgslhhildaqkmvwnhrhhhh
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3areB (B:)
    iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
    sfyilahteftptetdtyacrvkhasmaepktvywdrdm
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >3areC (C:)
    tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
    ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
    avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
    ksdfacanafnnsiipedtffpspess
    

    Sequence, based on observed residues (ATOM records): (download)
    >3areC (C:)
    tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
    ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
    avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
    kdfacanafnnsiipedtffpsp
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >3areD (D:)
    eaavtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdi
    pdgykasrpsqenfslilelatpsqtsvyfcasgdaggnyaeqffgpgtrltvledlknv
    fppevavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeq
    palndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeaw
    grad
    

    Sequence, based on observed residues (ATOM records): (download)
    >3areD (D:)
    avtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdipd
    gykasrpsqenfslilelatpsqtsvyfcasgdaaeqffgpgtrltvledlknvfppeva
    vfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpalnds
    ryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgrad