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 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: XRAY
Resolution: 3.3 Å
R-factor: N/A
AEROSPACI score: 0.12 (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 2.08: 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 2.08: 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 2.08: 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 2.08: 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 2.08: 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 2.08: d2gd4l1
  • Heterogens: CA, NAG, 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