PDB entry 3he6

View 3he6 on RCSB PDB site
Description: Crystal structure of mouse CD1d-alpha-galactosylceramide with mouse Valpha14-Vbeta8.2 NKT TCR
Class: immune system
Keywords: mouse CD1d, mouse NKT T-cell receptors, Cell membrane, Disulfide bond, Endosome, Glycoprotein, Immune response, Immunoglobulin domain, Innate immunity, Lysosome, Membrane, Transmembrane, MHC I, IMMUNE SYSTEM
Deposited on 2009-05-07, released 2009-07-28
The last revision prior to the SCOPe 2.03 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-25.
Experiment type: XRAY
Resolution: 2.9 Å
R-factor: 0.237
AEROSPACI score: 0.22 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: T-cell surface glycoprotein CD1d1
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P11609 (Start-278)
      • see remark 999 (200)
      • expression tag (279)
      • expression tag (281-298)
    Domains in SCOPe 2.03: d3he6a1, d3he6a2
  • Chain 'B':
    Compound: beta-2 microglobulin
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3he6b_
  • Chain 'C':
    Compound: Valpha14(mouse variable domain, human constant domain)
    Species: Mus musculus, Homo sapiens [TaxId:10090, 9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 3HE6 (0-End)
    Domains in SCOPe 2.03: d3he6c1, d3he6c2
  • Chain 'D':
    Compound: Vbeta8.2(mouse variable domain, human constant domain)
    Species: Mus musculus, Homo sapiens [TaxId:10090, 9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 3HE6 (Start-243)
    Domains in SCOPe 2.03: d3he6d1, d3he6d2
  • Heterogens: NAG, AGH, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >3he6A (A:)
    seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
    qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
    qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
    sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
    adetwylqatldveageeaglacrvkhsslggqdiilywgslhhildaqkmvwnhrhhhh
    hh
    

    Sequence, based on observed residues (ATOM records): (download)
    >3he6A (A:)
    ytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqweklq
    hmfqvyrvsftrdiqelvkmmsypieiqlsagcemypgasesflhvafqgkyvvrfwgts
    wqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlekqekpvaw
    lssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetwylqatld
    veageeaglacrvkhsslggqdiilywglhhildaqkmvwnhrhhh
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3he6B (B:)
    iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
    sfyilahteftptetdtyacrvkhasmaepktvywdrdm
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >3he6C (C:)
    tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
    ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
    avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
    ksdfacanafnnsiipedtffpspess
    

    Sequence, based on observed residues (ATOM records): (download)
    >3he6C (C:)
    tqveqspqslvvrqgensvlqcnysvtpdnhlrwfkqdtgkglvsltvlvdqkdktsngr
    ysatldkdakhstlhitatllddtatyicvvgdrgsalgrlhfgagtqlivipdiqnpdp
    avyqlrdsksksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsnks
    dfacanafnnsiipedtffpspe
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >3he6D (D:)
    eaavtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdi
    pdgykasrpsqenfslilelatpsqtsvyfcasgdaggnyaeqffgpgtrltvledlknv
    fppevavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeq
    palndsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeaw
    grad
    

    Sequence, based on observed residues (ATOM records): (download)
    >3he6D (D:)
    avtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdipd
    gykasrpsqenfslilelatpsqtsvyfcasgdaqffgpgtrltvledlknvfppevavf
    epseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpalndsry
    alssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgrad