PDB entry 2fik

View 2fik on RCSB PDB site
Description: Structure of a microbial glycosphingolipid bound to mouse CD1d
Class: immune system
Keywords: NKT cells, CD1d, MHC-fold, immune system, bacterial antigen, TCR
Deposited on 2005-12-29, released 2006-03-21
The last revision prior to the SCOPe 2.07 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-25.
Experiment type: XRAY
Resolution: 1.8 Å
R-factor: 0.209
AEROSPACI score: 0.47 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: T-cell surface 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)
    Domains in SCOPe 2.07: d2fika1, d2fika2
  • Chain 'B':
    Compound: B(2)-microglobulin
    Species: Mus musculus [TaxId:10090]
    Gene: BETA-2-MICROGLOBULIN
    Database cross-references and differences (RAF-indexed):
    • GB AAA39671
      • see remark 999 (84)
    Domains in SCOPe 2.07: d2fikb_
  • Heterogens: NAG, GSL, PLM, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >2fikA (A:)
    seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
    qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
    qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
    sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
    adetwylqatldveageeaglacrvkhsslggqdiilywgshhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >2fikA (A:)
    ytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqweklq
    hmfqvyrvsftrdiqelvkypieiqlsagcemypgnasesflhvafqgkyvvrfwgtswq
    tvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlekqekpvawls
    svpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetwylqatldve
    ageeaglacrvkhsslggqdiilyw
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >2fikB (B:)
    iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
    sfyilahteftptetdtyacrvkhasmaepktvywdrdm
    

    Sequence, based on observed residues (ATOM records): (download)
    >2fikB (B:)
    qktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdws
    fyilahteftptetdtyacrvkhasmaepktvywdrd