PDB entry 6q3s

View 6q3s on RCSB PDB site
Description: Engineered Human HLA_A2 MHC Class I molecule in complex with TCR and SV9 peptide
Class: immune system
Keywords: MHC molecule, engineered disulphide bond, IMMUNE SYSTEM, TCR
Deposited on 2018-12-04, released 2019-07-24
The last revision prior to the SCOPe 2.07 freeze date was dated 2019-07-24, with a file datestamp of 2019-07-19.
Experiment type: XRAY
Resolution: 2.5 Å
R-factor: N/A
AEROSPACI score: 0.2 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: HLA class I histocompatibility antigen, A-2 alpha chain
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-A, HLAA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01892 (0-End)
      • conflict (83)
      • conflict (138)
    Domains in SCOPe 2.07: d6q3sa1, d6q3sa2
  • Chain 'B':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Gene: B2M, CDABP0092, HDCMA22P
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (1-99)
      • initiating methionine (0)
    Domains in SCOPe 2.07: d6q3sb1, d6q3sb2
  • Chain 'C':
    Compound: ser-leu-leu-met-trp-ile-thr-gln-val
    Species: Homo sapiens [TaxId:9606]
    Gene:
    Database cross-references and differences (RAF-indexed):
    • PDB 6Q3S (0-8)
  • Chain 'D':
    Compound: T cell receptor alpha variable 21,T-cell receptor, sp3.4 alpha chain
    Species: Homo sapiens [TaxId:9606]
    Gene: TRAV21
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d6q3sd1, d6q3sd2
  • Chain 'E':
    Compound: T cell receptor beta variable 6-5,Human nkt tcr beta chain
    Species: Homo sapiens [TaxId:9606]
    Gene: B2M, HDCMA22P
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A0K0K1A5 (0-92)
      • linker (93-113)
    • Uniprot K7N5M4 (114-240)
      • conflict (199)
    Domains in SCOPe 2.07: d6q3se1, d6q3se2
  • Heterogens: GOL, ACT, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >6q3sA (A:)
    gshsmryfftsvsrpgrgeprfiavgyvddtqfvrfdsdaasqrmeprapwieqegpeyw
    dgetrkvkahsqthrvdlgtlrgcynqseagshtvqrmygcdvgsdwrflrgyhqyaydg
    kdyialkedlrswtaadmcaqttkhkweaahvaeqlraylegtcvewlrrylengketlq
    rtdapkthmthhavsdheatlrcwalsfypaeitltwqrdgedqtqdtelvetrpagdgt
    fqkwaavvvpsgqeqrytchvqheglpkpltlrwep
    

    Sequence, based on observed residues (ATOM records): (download)
    >6q3sA (A:)
    gshsmryfftsvsrpgrgeprfiavgyvddtqfvrfdsdaasqrmeprapwieqegpeyw
    dgetrkvkahsqthrvdlgtlrgcynqseagshtvqrmygcdvgsdwrflrgyhqyaydg
    kdyialkedlrswtaadmcaqttkhkweaahvaeqlraylegtcvewlrrylengketlq
    rtdapkthmthhavsdheatlrcwalsfypaeitltwqrdgedqtqdtelvetrpagdgt
    fqkwaavvvpsgqeqrytchvqheglpkpltlrw
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >6q3sB (B:)
    miqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskd
    wsfyllyyteftptekdeyacrvnhvtlsqpkivkwdrdm
    

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >6q3sD (D:)
    qevtqipaalsvpegenlvlncsftdsaiynlqwfrqdpgkgltsllliqssqreqtsgr
    lnasldkssgrstlyiaasqpgdsatylcavrptsggsyiptfgrgtslivhpyiqnpdp
    avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
    ksdfacanafnnsiipedtffpspess
    

    Sequence, based on observed residues (ATOM records): (download)
    >6q3sD (D:)
    qevtqipaalsvpegenlvlncsftdsaiynlqwfrqdpgkgltsllliqssqreqtsgr
    lnasldkssgrstlyiaasqpgdsatylcavrptsggsyiptfgrgtslivhpyiqnpdp
    avyqlrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsn
    ksdfacanafnnsiipedtffps
    

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download)
    >6q3sE (E:)
    gvtqtpkfqvlktgqsmtlqcaqdmnheymswyrqdpgmglrlihysvgagitdqgevpn
    gynvsrsttedfplrllsaapsqtsvyfcassyvgntgelffgegsrltvledlknvfpp
    evavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpal
    ndsryalssrlrvsatfwqdprnhfrcqvqfyglsendewtqdrakpvtqivsaeawgra
    d