PDB entry 3g0d

View 3g0d on RCSB PDB site
Description: Crystal structure of dipeptidyl peptidase IV in complex with a pyrimidinedione inhibitor 2
Class: hydrolase/hydrolase inhibitor
Keywords: DPP4, pyrimidinone, pyrimidindione, Aminopeptidase, Cell membrane, Glycoprotein, Hydrolase, Membrane, Protease, Secreted, Serine protease, Signal-anchor, Transmembrane, HYDROLASE-HYDROLASE INHIBITOR complex
Deposited on 2009-01-27, released 2010-02-16
The last revision prior to the SCOPe 2.06 freeze date was dated 2011-02-02, with a file datestamp of 2011-01-28.
Experiment type: XRAY
Resolution: 2.39 Å
R-factor: 0.189
AEROSPACI score: 0.35 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: dipeptidyl peptidase 4
    Species: Homo sapiens [TaxId:9606]
    Gene: ADCP2, CD26, DPP4
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d3g0da1, d3g0da2
  • Chain 'B':
    Compound: dipeptidyl peptidase 4
    Species: Homo sapiens [TaxId:9606]
    Gene: ADCP2, CD26, DPP4
    Database cross-references and differences (RAF-indexed):
    • Uniprot P27487 (12-739)
      • expression tag (9-11)
    Domains in SCOPe 2.06: d3g0db1, d3g0db2, d3g0db3
  • Chain 'C':
    Compound: dipeptidyl peptidase 4
    Species: Homo sapiens [TaxId:9606]
    Gene: ADCP2, CD26, DPP4
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d3g0dc1, d3g0dc2
  • Chain 'D':
    Compound: dipeptidyl peptidase 4
    Species: Homo sapiens [TaxId:9606]
    Gene: ADCP2, CD26, DPP4
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d3g0dd1, d3g0dd2
  • Heterogens: XIH, NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >3g0dA (A:)
    adpggshhhhhhsrktytltdylkntyrlklyslrwisdheylykqennilvfnaeygns
    svflenstfdefghsindysispdgqfilleynyvkqwrhsytasydiydlnkrqlitee
    ripnntqwvtwspvghklayvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeee
    vfsaysalwwspngtflayaqfndtevplieysfysdeslqypktvrvpypkagavnptv
    kffvvntdslssvtnatsiqitapasmligdhylcdvtwatqerislqwlrriqnysvmd
    icdydessgrwnclvarqhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicy
    fqidkkdctfitkgtwevigiealtsdylyyisneykgmpggrnlykiqlsdytkvtcls
    celnpercqyysvsfskeakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqn
    vqmpskkldfiilnetkfwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwaty
    lasteniivasfdgrgsgyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriai
    wgwsyggyvtsmvlgsgsgvfkcgiavapvsrweyydsvyterymglptpednldhyrns
    tvmsraenfkqveyllihgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasst
    ahqhiythmshfikqcfslp
    

    Sequence, based on observed residues (ATOM records): (download)
    >3g0dA (A:)
    ktytltdylkntyrlklyslrwisdheylyknilvfnaeygnssvflenstfdefghsin
    dysispdgqfilleynyvkqwrhsytasydiydlnkrqliteeripnntqwvtwspvghk
    layvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeeevfsaysalwwspngtfl
    ayaqfndtevplieysfysdeslqypktvrvpypkagavnptvkffvvntdslssvtnat
    siqitapasmligdhylcdvtwatqerislqwlrriqnysvmdicdydessgrwnclvar
    qhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicyfqidkkdctfitkgtwe
    vigiealtsdylyyisneykgmpggrnlykiqlsdytkvtclscelnpercqyysvsfsk
    eakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqnvqmpskkldfiilnetk
    fwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwatylasteniivasfdgrgs
    gyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriaiwgwsyggyvtsmvlgsg
    sgvfkcgiavapvsrweyydsvyterymglptpednldhyrnstvmsraenfkqveylli
    hgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasstahqhiythmshfikqcf
    slp
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >3g0dB (B:)
    adpggshhhhhhsrktytltdylkntyrlklyslrwisdheylykqennilvfnaeygns
    svflenstfdefghsindysispdgqfilleynyvkqwrhsytasydiydlnkrqlitee
    ripnntqwvtwspvghklayvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeee
    vfsaysalwwspngtflayaqfndtevplieysfysdeslqypktvrvpypkagavnptv
    kffvvntdslssvtnatsiqitapasmligdhylcdvtwatqerislqwlrriqnysvmd
    icdydessgrwnclvarqhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicy
    fqidkkdctfitkgtwevigiealtsdylyyisneykgmpggrnlykiqlsdytkvtcls
    celnpercqyysvsfskeakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqn
    vqmpskkldfiilnetkfwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwaty
    lasteniivasfdgrgsgyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriai
    wgwsyggyvtsmvlgsgsgvfkcgiavapvsrweyydsvyterymglptpednldhyrns
    tvmsraenfkqveyllihgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasst
    ahqhiythmshfikqcfslp
    

    Sequence, based on observed residues (ATOM records): (download)
    >3g0dB (B:)
    hhhsrktytltdylkntyrlklyslrwisdheylyknilvfnaeygnssvflenstfdef
    ghsindysispdgqfilleynyvkqwrhsytasydiydlnkrqliteeripnntqwvtws
    pvghklayvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeeevfsaysalwwsp
    ngtflayaqfndtevplieysfysdeslqypktvrvpypkagavnptvkffvvntdslss
    vtnatsiqitapasmligdhylcdvtwatqerislqwlrriqnysvmdicdydessgrwn
    clvarqhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicyfqidkkdctfit
    kgtwevigiealtsdylyyisneykgmpggrnlykiqlsdytkvtclscelnpercqyys
    vsfskeakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqnvqmpskkldfii
    lnetkfwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwatylasteniivasf
    dgrgsgyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriaiwgwsyggyvtsm
    vlgsgsgvfkcgiavapvsrweyydsvyterymglptpednldhyrnstvmsraenfkqv
    eyllihgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasstahqhiythmshf
    ikqcfslp
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >3g0dC (C:)
    adpggshhhhhhsrktytltdylkntyrlklyslrwisdheylykqennilvfnaeygns
    svflenstfdefghsindysispdgqfilleynyvkqwrhsytasydiydlnkrqlitee
    ripnntqwvtwspvghklayvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeee
    vfsaysalwwspngtflayaqfndtevplieysfysdeslqypktvrvpypkagavnptv
    kffvvntdslssvtnatsiqitapasmligdhylcdvtwatqerislqwlrriqnysvmd
    icdydessgrwnclvarqhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicy
    fqidkkdctfitkgtwevigiealtsdylyyisneykgmpggrnlykiqlsdytkvtcls
    celnpercqyysvsfskeakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqn
    vqmpskkldfiilnetkfwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwaty
    lasteniivasfdgrgsgyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriai
    wgwsyggyvtsmvlgsgsgvfkcgiavapvsrweyydsvyterymglptpednldhyrns
    tvmsraenfkqveyllihgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasst
    ahqhiythmshfikqcfslp
    

    Sequence, based on observed residues (ATOM records): (download)
    >3g0dC (C:)
    ktytltdylkntyrlklyslrwisdheylyknilvfnaeygnssvflenstfdefghsin
    dysispdgqfilleynyvkqwrhsytasydiydlnkrqliteeripnntqwvtwspvghk
    layvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeeevfsaysalwwspngtfl
    ayaqfndtevplieysfysdeslqypktvrvpypkagavnptvkffvvntdslssvtnat
    siqitapasmligdhylcdvtwatqerislqwlrriqnysvmdicdydessgrwnclvar
    qhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicyfqidkkdctfitkgtwe
    vigiealtsdylyyisneykgmpggrnlykiqlsdytkvtclscelnpercqyysvsfsk
    eakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqnvqmpskkldfiilnetk
    fwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwatylasteniivasfdgrgs
    gyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriaiwgwsyggyvtsmvlgsg
    sgvfkcgiavapvsrweyydsvyterymglptpednldhyrnstvmsraenfkqveylli
    hgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasstahqhiythmshfikqcf
    slp
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >3g0dD (D:)
    adpggshhhhhhsrktytltdylkntyrlklyslrwisdheylykqennilvfnaeygns
    svflenstfdefghsindysispdgqfilleynyvkqwrhsytasydiydlnkrqlitee
    ripnntqwvtwspvghklayvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeee
    vfsaysalwwspngtflayaqfndtevplieysfysdeslqypktvrvpypkagavnptv
    kffvvntdslssvtnatsiqitapasmligdhylcdvtwatqerislqwlrriqnysvmd
    icdydessgrwnclvarqhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicy
    fqidkkdctfitkgtwevigiealtsdylyyisneykgmpggrnlykiqlsdytkvtcls
    celnpercqyysvsfskeakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqn
    vqmpskkldfiilnetkfwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwaty
    lasteniivasfdgrgsgyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriai
    wgwsyggyvtsmvlgsgsgvfkcgiavapvsrweyydsvyterymglptpednldhyrns
    tvmsraenfkqveyllihgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasst
    ahqhiythmshfikqcfslp
    

    Sequence, based on observed residues (ATOM records): (download)
    >3g0dD (D:)
    ktytltdylkntyrlklyslrwisdheylykqnilvfnaeygnssvlenstfdefghsin
    dysispdgqfilleynyvkqwrhsytasydiydlnkrqliteeripnntqwvtwspvghk
    layvwnndiyvkiepnlpsyritwtgkediiyngitdwvyeeevfsaysalwwspngtfl
    ayaqfndtevplieysfysdeslqypktvrvpypkagavnptvkffvvntdslssvtnat
    siqitapasmligdhylcdvtwatqerislqwlrriqnysvmdicdydessgrwnclvar
    qhiemsttgwvgrfrpsephftldgnsfykiisneegyrhicyfqidkkdctfitkgtwe
    vigiealtsdylyyisneykgmpggrnlykiqlsdytkvtclscelnpercqyysvsfsk
    eakyyqlrcsgpglplytlhssvndkglrvlednsaldkmlqnvqmpskkldfiilnetk
    fwyqmilpphfdkskkypllldvyagpcsqkadtvfrlnwatylasteniivasfdgrgs
    gyqgdkimhainrrlgtfevedqieaarqfskmgfvdnkriaiwgwsyggyvtsmvlgsg
    sgvfkcgiavapvsrweyydsvyterymglptpednldhyrnstvmsraenfkqveylli
    hgtaddnvhfqqsaqiskalvdvgvdfqamwytdedhgiasstahqhiythmshfikqcf
    slp