PDB entry 1z5l

View 1z5l on RCSB PDB site
Description: Structure of a highly potent short-chain galactosyl ceramide agonist bound to CD1D
Class: immune system
Keywords: Ig fold, MHC fold, IMMUNE SYSTEM
Deposited on 2005-03-18, released 2005-07-19
The last revision prior to the SCOPe 2.03 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: 0.243
AEROSPACI score: 0.33 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: T-cell surface glycoprotein CD1d antigen
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • GB CAA31568 (Start-278)
    Domains in SCOPe 2.03: d1z5la1, d1z5la2
  • Chain 'B':
    Compound: Beta-2-microglobulin
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • GB AAH85164 (Start-98)
    Domains in SCOPe 2.03: d1z5lb_
  • Chain 'C':
    Compound: T-cell surface glycoprotein CD1d antigen
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • GB CAA31568 (Start-278)
    Domains in SCOPe 2.03: d1z5lc1, d1z5lc2
  • Chain 'D':
    Compound: Beta-2-microglobulin
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • GB AAH85164 (Start-98)
    Domains in SCOPe 2.03: d1z5ld_
  • Heterogens: NAG, PBS, R16, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >1z5lA (A:)
    seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
    qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
    qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
    sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
    adetwylqatldveageeaglacrvkhsslggqdiilywhhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >1z5lA (A:)
    ytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqweklq
    hmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypsesflhvafqgkyvvrfwg
    tswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlekqekpv
    awlssvpghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetwylqatldve
    ageeaglacrvkhsslggqdiilyw
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >1z5lB (B:)
    iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
    sfyilahteftptetdtyacrvkhasmaepktvywdrdm
    

    Sequence, based on observed residues (ATOM records): (download)
    >1z5lB (B:)
    qktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdws
    fyilahteftptetdtyacrvkhasmaepktvywdrdm
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >1z5lC (C:)
    seaqqknytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsn
    qqweklqhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemypgnasesflhvaf
    qgkyvvrfwgtswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagk
    sdlekqekpvawlssvpssahghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpn
    adetwylqatldveageeaglacrvkhsslggqdiilywhhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >1z5lC (C:)
    nytfrclqmssfanrswsrtdsvvwlgdlqthrwsndsatisftkpwsqgklsnqqwekl
    qhmfqvyrvsftrdiqelvkmmspkedypieiqlsagcemysesflhvafqgkyvvrfwg
    tswqtvpgapswldlpikvlnadqgtsatvqmllndtcplfvrglleagksdlekqekpv
    awlssvphghrqlvchvsgfypkpvwvmwmrgdqeqqgthrgdflpnadetwylqatldv
    eageeaglacrvkhsslggqdiilyw
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >1z5lD (D:)
    iqktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdw
    sfyilahteftptetdtyacrvkhasmaepktvywdrdm
    

    Sequence, based on observed residues (ATOM records): (download)
    >1z5lD (D:)
    qktpqiqvysrhppengkpnilncyvtqfhpphieiqmlkngkkipkvemsdmsfskdws
    fyilahteftptetdtyacrvkhasmaepktvywdrdm