PDB entry 3c60

View 3c60 on RCSB PDB site
Description: Crystal structure of mouse MHC class II I-Ab/3K peptide complexed with mouse TCR YAe62
Class: sugar binding protein/immune system
Keywords: TCR-pMHC complex, Glycoprotein, Immune response, Membrane, MHC II, Transmembrane, SUGAR BINDING PROTEIN/IMMUNE SYSTEM COMPLEX
Deposited on 2008-02-01, released 2008-04-29
The last revision prior to the SCOPe 2.04 freeze date was dated 2009-02-24, with a file datestamp of 2009-02-03.
Experiment type: XRAY
Resolution: 3.05 Å
R-factor: 0.267
AEROSPACI score: 0.17 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: TCR YAe62 alpha chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 3C6O (0-198)
    Domains in SCOPe 2.04: d3c60a1, d3c60a2
  • Chain 'B':
    Compound: TCR YAe62 beta chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 3C6O (0-235)
    Domains in SCOPe 2.04: d3c60b1, d3c60b2
  • Chain 'C':
    Compound: H-2 class II histocompatibility antigen, A-B alpha chain
    Species: Mus musculus [TaxId:10090]
    Gene: H2-Aa
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.04: d3c60c1, d3c60c2
  • Chain 'D':
    Compound: 3K peptide, Linker, and H-2 class II histocompatibility antigen (A beta chain)
    Species: Mus musculus [TaxId:10090]
    Gene: H2-Ab1, H2-iabeta
    Database cross-references and differences (RAF-indexed):
    • Uniprot P14483 (Start-216)
      • engineered (215)
    • PDB 3C6O (0-12)
    Domains in SCOPe 2.04: d3c60d1, d3c60d2
  • Chain 'E':
    Compound: TCR YAe62 alpha chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 3C6O (0-198)
    Domains in SCOPe 2.04: d3c60e1, d3c60e2
  • Chain 'F':
    Compound: TCR YAe62 beta chain
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 3C6O (0-235)
    Domains in SCOPe 2.04: d3c60f1, d3c60f2
  • Chain 'G':
    Compound: H-2 class II histocompatibility antigen, A-B alpha chain
    Species: Mus musculus [TaxId:10090]
    Gene: H2-Aa
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.04: d3c60g1, d3c60g2
  • Chain 'H':
    Compound: 3K peptide, Linker, and H-2 class II histocompatibility antigen (A beta chain)
    Species: Mus musculus [TaxId:10090]
    Gene: H2-Ab1, H2-iabeta
    Database cross-references and differences (RAF-indexed):
    • Uniprot P14483 (Start-216)
      • engineered (215)
    • PDB 3C6O (0-12)
    Domains in SCOPe 2.04: d3c60h1, d3c60h2

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3c60A (A:)
    dsvtqmqgqvtlsendflfinctysttgyptlfwyvqysgegpqlllqvttannkgssrg
    featydkgttsfhlqktsvqeidsavyycaansgtyqrfgtgtklqvvpniqnpdpavyq
    lrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsnksdf
    acanafnnsiipedtffps
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3c60B (B:)
    avtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdipd
    gykasrpsqenfslilelatpsqtsvyfcasgdfwgdtlyfgagtrlsvledlknvfppe
    vavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpaln
    dsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeaw
    

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3c60C (C:)
    ieadhvgtygisvyqspgdigqytfefdgdelfyvdldkketvwmlpefgqlasfdpqgg
    lqniavvkhnlgvltkrsnstpatneapqatvfpkspvllgqpntlicfvdnifppvini
    twlrnsksvadgvyetsffvnrdysfhklsyltfipsdddiydckvehwgleepvlkhwe
    pe
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >3c60D (D:)
    feaqkakankavdggggslvprgsggggserhfvyqfmgecyftngtqriryvtryiynr
    eeyvrydsdvgehravtelgrpdaeywnsqpeilertraeldtvcrhnyegpethtslrr
    leqpnvvislsrtealnhhntlvcsvtdfypakikvrwfrngqeetvgvsstqlirngdw
    tfqvlvmlemtprrgevytchvehpslkspitvewka
    

    Sequence, based on observed residues (ATOM records): (download)
    >3c60D (D:)
    feaqkakankavderhfvyqfmgecyftngtqriryvtryiynreeyvrydsdvgehrav
    telgrpdaeywnsqpeilertraeldtvcrhnyegpethtslrrleqpnvvislsrteal
    nhhntlvcsvtdfypakikvrwfrngqeetvgvsstqlirngdwtfqvlvmlemtprrge
    vytchvehpslkspitvewka
    

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3c60E (E:)
    dsvtqmqgqvtlsendflfinctysttgyptlfwyvqysgegpqlllqvttannkgssrg
    featydkgttsfhlqktsvqeidsavyycaansgtyqrfgtgtklqvvpniqnpdpavyq
    lrdskssdksvclftdfdsqtnvsqskdsdvyitdkcvldmrsmdfksnsavawsnksdf
    acanafnnsiipedtffps
    

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3c60F (F:)
    avtqsprnkvavtggkvtlscnqtnnhnnmywyrqdtghglrlihysygagstekgdipd
    gykasrpsqenfslilelatpsqtsvyfcasgdfwgdtlyfgagtrlsvledlknvfppe
    vavfepseaeishtqkatlvclatgfypdhvelswwvngkevhsgvctdpqplkeqpaln
    dsryalssrlrvsatfwqnprnhfrcqvqfyglsendewtqdrakpvtqivsaeaw
    

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3c60G (G:)
    ieadhvgtygisvyqspgdigqytfefdgdelfyvdldkketvwmlpefgqlasfdpqgg
    lqniavvkhnlgvltkrsnstpatneapqatvfpkspvllgqpntlicfvdnifppvini
    twlrnsksvadgvyetsffvnrdysfhklsyltfipsdddiydckvehwgleepvlkhwe
    pe
    

  • Chain 'H':
    Sequence, based on SEQRES records: (download)
    >3c60H (H:)
    feaqkakankavdggggslvprgsggggserhfvyqfmgecyftngtqriryvtryiynr
    eeyvrydsdvgehravtelgrpdaeywnsqpeilertraeldtvcrhnyegpethtslrr
    leqpnvvislsrtealnhhntlvcsvtdfypakikvrwfrngqeetvgvsstqlirngdw
    tfqvlvmlemtprrgevytchvehpslkspitvewka
    

    Sequence, based on observed residues (ATOM records): (download)
    >3c60H (H:)
    feaqkakankavderhfvyqfmgecyftngtqriryvtryiynreeyvrydsdvgehrav
    telgrpdaeywnsqpeilertraeldtvcrhnyegpethtslrrleqpnvvislsrteal
    nhhntlvcsvtdfypakikvrwfrngqeetvgvsstqlirngdwtfqvlvmlemtprrge
    vytchvehpslkspitvewka