PDB entry 2gd4

View 2gd4 on RCSB PDB site
Description: Crystal Structure of the Antithrombin-S195A Factor Xa-Pentasaccharide Complex
Class: hydrolase
Keywords: serpin, Michaelis complex, HYDROLASE
Deposited on 2006-03-15, released 2006-05-09
The last revision prior to the SCOPe 2.07 freeze date was dated 2017-07-12, with a file datestamp of 2017-07-07.
Experiment type: XRAY
Resolution: 3.3 Å
R-factor: N/A
AEROSPACI score: 0.08 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Coagulation factor X, Stuart factor, Stuart-Prower factor, Contains: Factor X light chain; Factor X heavy chain; Activated factor Xa heavy chain
    Species: Homo sapiens [TaxId:9606]
    Gene: F10
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d2gd4a1
  • Chain 'B':
    Compound: Coagulation factor, Stuart factor, Stuart-Prower factor, Contains: Factor X light chain; Factor X heavy chain; Activated factor Xa heavy chain
    Species: Homo sapiens [TaxId:9606]
    Gene: F10
    Database cross-references and differences (RAF-indexed):
    • Uniprot P00742 (0-End)
      • engineered (89)
    Domains in SCOPe 2.07: d2gd4b1
  • Chain 'C':
    Compound: antithrombin-III
    Species: Homo sapiens [TaxId:9606]
    Gene: SERPINC1, AT3
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01008
      • engineered (147)
      • engineered (357-358)
      • engineered (360)
    Domains in SCOPe 2.07: d2gd4c1
  • Chain 'H':
    Compound: Coagulation factor, Stuart factor, Stuart-Prower factor, Contains: Factor X light chain; Factor X heavy chain; Activated factor Xa heavy chain
    Species: Homo sapiens [TaxId:9606]
    Gene: F10
    Database cross-references and differences (RAF-indexed):
    • Uniprot P00742 (0-End)
      • engineered (89)
    Domains in SCOPe 2.07: d2gd4h1
  • Chain 'I':
    Compound: antithrombin-III
    Species: Homo sapiens [TaxId:9606]
    Gene: SERPINC1, AT3
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01008
      • engineered (147)
      • engineered (357-358)
      • engineered (360)
    Domains in SCOPe 2.07: d2gd4i1
  • Chain 'L':
    Compound: Coagulation factor X, Stuart factor, Stuart-Prower factor, Contains: Factor X light chain; Factor X heavy chain; Activated factor Xa heavy chain
    Species: Homo sapiens [TaxId:9606]
    Gene: F10
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d2gd4l1
  • Heterogens: CA, NAG, BMA, MAN, NTO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >2gd4A (A:)
    mrklcsldngdcdqfcheeqnsvvcscargytladngkaciptgpypcgkqtlerrkr
    

    Sequence, based on observed residues (ATOM records): (download)
    >2gd4A (A:)
    klcsldngdcdqfcheeqnsvvcscargytladngkaciptgpypcgkqtle
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >2gd4B (B:)
    ivggqeckdgecpwqallineenegfcggtilsefyiltaahclyqakrfkvrvgdrnte
    qeeggeavhevevvikhnrftketydfdiavlrlktpitfrmnvapaclperdwaestlm
    tqktgivsgfgrthekgrqstrlkmlevpyvdrnscklsssfiitqnmfcagydtkqeda
    cqgdaggphvtrfkdtyfvtgivswgegcarkgkygiytkvtaflkwidrsmktrglpka
    k
    

    Sequence, based on observed residues (ATOM records): (download)
    >2gd4B (B:)
    ivggqeckdgecpwqallineenegfcggtilsefyiltaahclyqakrfkvrvgdrnte
    qeeggeavhevevvikhnrftketydfdiavlrlktpitfrmnvapaclperdwaestlm
    tqktgivsgfgrthekgrqstrlkmlevpyvdrnscklsssfiitqnmfcagydtkqeda
    cqgdaggphvtrfkdtyfvtgivswgegcarkgkygiytkvtaflkwidrsmktrglpk
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >2gd4C (C:)
    lligfwdcvtchgspvdictakprdipmnpmciyrspekkatedegseqkipeatnrrvw
    elskansrfattfyqhladskndndniflsplsistafamtklgacndtlqqlmevfkfd
    tisektsdqihfffaklncrlyrkankasklvsanrlfgdksltfnetyqdiselvygak
    lqpldfkenaeqsraainkwvsnktegritdvipseaineltvlvlvntiyfkglwkskf
    spentrkelfykadgescsasmmyqegkfryrrvaegtqvlelpfkgdditmvlilpkpe
    kslakvekeltpevlqewldeleemmlvvhmprfriedgfslkeqlqdmglvdlfspaas
    alpgivaegrddlyvsdafhkaflevneegseaaastavviagrslnpnrvtfkanrpfl
    vfirevplntiifmgrvanpcvk
    

    Sequence, based on observed residues (ATOM records): (download)
    >2gd4C (C:)
    pvdictakprdipmnpmciyrspeqkipeatnrrvwelskansrfattfyqhladskndn
    dniflsplsistafamtklgacndtlqqlmevfkfdtisektsdqihfffaklncrlyrk
    ankasklvsanrlfgdksltfnetyqdiselvygaklqpldfkenaeqsraainkwvsnk
    tegritdvipseaineltvlvlvntiyfkglwkskfspentrkelfykadgescsasmmy
    qegkfryrrvaegtqvlelpfkgdditmvlilpkpekslakvekeltpevlqewldelee
    mmlvvhmprfriedgfslkeqlqdmglvdlfspaasalpgivaegrddlyvsdafhkafl
    evneegseaaastavviagrslnpnrvtfkanrpflvfirevplntiifmgrvanpcv
    

  • Chain 'H':
    Sequence, based on SEQRES records: (download)
    >2gd4H (H:)
    ivggqeckdgecpwqallineenegfcggtilsefyiltaahclyqakrfkvrvgdrnte
    qeeggeavhevevvikhnrftketydfdiavlrlktpitfrmnvapaclperdwaestlm
    tqktgivsgfgrthekgrqstrlkmlevpyvdrnscklsssfiitqnmfcagydtkqeda
    cqgdaggphvtrfkdtyfvtgivswgegcarkgkygiytkvtaflkwidrsmktrglpka
    k
    

    Sequence, based on observed residues (ATOM records): (download)
    >2gd4H (H:)
    ivggqeckdgecpwqallineenegfcggtilsefyiltaahclyqakrfkvrvgdrnte
    qeeggeavhevevvikhnrftketydfdiavlrlktpitfrmnvapaclperdwaestlm
    tqktgivsgfgrthekgrqstrlkmlevpyvdrnscklsssfiitqnmfcagydtkqeda
    cqgdaggphvtrfkdtyfvtgivswgegcarkgkygiytkvtaflkwidrsmkt
    

  • Chain 'I':
    Sequence, based on SEQRES records: (download)
    >2gd4I (I:)
    lligfwdcvtchgspvdictakprdipmnpmciyrspekkatedegseqkipeatnrrvw
    elskansrfattfyqhladskndndniflsplsistafamtklgacndtlqqlmevfkfd
    tisektsdqihfffaklncrlyrkankasklvsanrlfgdksltfnetyqdiselvygak
    lqpldfkenaeqsraainkwvsnktegritdvipseaineltvlvlvntiyfkglwkskf
    spentrkelfykadgescsasmmyqegkfryrrvaegtqvlelpfkgdditmvlilpkpe
    kslakvekeltpevlqewldeleemmlvvhmprfriedgfslkeqlqdmglvdlfspaas
    alpgivaegrddlyvsdafhkaflevneegseaaastavviagrslnpnrvtfkanrpfl
    vfirevplntiifmgrvanpcvk
    

    Sequence, based on observed residues (ATOM records): (download)
    >2gd4I (I:)
    vdictakprdipmnpmciyrspeqkipeatnrrvwelskansrfattfyqhladskndnd
    niflsplsistafamtklgacndtlqqlmevfkfdtisektsdqihfffaklncrlyrka
    nkasklvsanrlfgdksltfnetyqdiselvygaklqpldfkenaeqsraainkwvsnkt
    egritdvipseaineltvlvlvntiyfkglwkskfspentrkelfykadgescsasmmyq
    egkfryrrvaegtqvlelpfkgdditmvlilpkpekslakvekeltpevlqewldeleem
    mlvvhmprfriedgfslkeqlqdmglvdlfspaasalpgivaegrddlyvsdafhkafle
    vneegseaaastavviagrslnpnrvtfkanrpflvfirevplntiifmgrvanpcv
    

  • Chain 'L':
    Sequence, based on SEQRES records: (download)
    >2gd4L (L:)
    mrklcsldngdcdqfcheeqnsvvcscargytladngkaciptgpypcgkqtlerrkr
    

    Sequence, based on observed residues (ATOM records): (download)
    >2gd4L (L:)
    rklcsldngdcdqfcheeqnsvvcscargytladngkaciptgpypcgkqtler