9YQ8 | pdb_00009yq8

Cryo-EM complex of meizothrombinDESF1, factor Xa, and factor Va


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
C [auth L]SCOP2B SuperfamilyKringle-like 8038667 3000761 SCOP2B (2022-06-29)
B [auth A]SCOP2B Superfamilygalactose-binding domain-like 8041135 3000087 SCOP2B (2022-06-29)
A [auth E]SCOP2B SuperfamilyTrypsin-like serine proteases 8035341 3000114 SCOP2B (2022-06-29)
A [auth E]SCOP2B SuperfamilyEGF/Laminin-like 8035338 3000412 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
E [auth B]PF07732Multicopper oxidase (Cu-oxidase_3)Multicopper oxidaseThis entry contains many divergent copper oxidase-like domains that are not recognised by the Pfam:PF00394 model. Domain
D [auth H]PF00089Trypsin (Trypsin)TrypsinDomain
C [auth L]PF09396Thrombin light chain (Thrombin_light)Thrombin light chainThrombin is an enzyme that cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII. Prothrombin is activated on the surface of a phospholipid membrane where factor Xa removes the activation peptide and cleave ...Thrombin is an enzyme that cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII. Prothrombin is activated on the surface of a phospholipid membrane where factor Xa removes the activation peptide and cleaves the remaining part into light and heavy chains. This domain corresponds to the light chain of thrombin.
Domain
C [auth L]PF00051Kringle domain (Kringle)Kringle domainKringle domains have been found in plasminogen, hepatocyte growth factors, prothrombin, and apolipoprotein A. Structure is disulfide-rich, nearly all-beta. Domain
B [auth A]PF00754F5/8 type C domain (F5_F8_type_C)F5/8 type C domainThis domain is also known as the discoidin (DS) domain family [1]. Domain
B [auth A]PF07732Multicopper oxidase (Cu-oxidase_3)Multicopper oxidaseThis entry contains many divergent copper oxidase-like domains that are not recognised by the Pfam:PF00394 model. Domain
A [auth E]PF14670Coagulation Factor Xa inhibitory site (FXa_inhibition)Coagulation Factor Xa inhibitory siteThis short domain on coagulation enzyme factor Xa is found to be the target for a potent inhibitor of coagulation, TAK-442 [1]. Domain
A [auth E]PF00089Trypsin (Trypsin)TrypsinDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
E [auth B]Coagulation factor V heavy chain
D [auth H]Thrombin heavy chain
C [auth L]Meizothrombin
B [auth A]Coagulation factor Va light chain
A [auth E]Coagulation factor X

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
E [auth B]IPR033138Multicopper oxidases, conserved siteConserved Site
E [auth B]IPR008979Galactose-binding-like domain superfamilyHomologous Superfamily
E [auth B]IPR011707Multicopper oxidase-like, N-terminalDomain
E [auth B]IPR024715Coagulation factor 5/8-likeFamily
E [auth B]IPR000421Coagulation factor 5/8, C-terminal domainDomain
E [auth B]IPR008972CupredoxinHomologous Superfamily
E [auth B]IPR050633Neuropilin/Multicopper Oxidase/Coagulation FactorFamily
D [auth H]IPR018992Thrombin light chainDomain
D [auth H]IPR037111Thrombin light chain domain superfamilyHomologous Superfamily
D [auth H]IPR003966Prothrombin/thrombinFamily
D [auth H]IPR009003Peptidase S1, PA clanHomologous Superfamily
D [auth H]IPR033116Serine proteases, trypsin family, serine active siteActive Site
D [auth H]IPR001254Serine proteases, trypsin domainDomain
D [auth H]IPR035972Gamma-carboxyglutamic acid-rich (GLA) domain superfamilyHomologous Superfamily
D [auth H]IPR000001KringleDomain
D [auth H]IPR000294Gamma-carboxyglutamic acid-rich (GLA) domainDomain
D [auth H]IPR051659Serine Protease S1 Domain-Containing ProteinFamily
D [auth H]IPR018056Kringle, conserved siteConserved Site
D [auth H]IPR018114Serine protease-like, trypsin family, histidine active siteActive Site
D [auth H]IPR043504Peptidase_S1_PA_chymotrypsinUnknown
D [auth H]IPR013806Kringle-like foldHomologous Superfamily
D [auth H]IPR038178Kringle superfamilyHomologous Superfamily
D [auth H]IPR001314Peptidase S1A, chymotrypsin familyFamily
C [auth L]IPR018992Thrombin light chainDomain
C [auth L]IPR037111Thrombin light chain domain superfamilyHomologous Superfamily
C [auth L]IPR003966Prothrombin/thrombinFamily
C [auth L]IPR009003Peptidase S1, PA clanHomologous Superfamily
C [auth L]IPR033116Serine proteases, trypsin family, serine active siteActive Site
C [auth L]IPR001254Serine proteases, trypsin domainDomain
C [auth L]IPR035972Gamma-carboxyglutamic acid-rich (GLA) domain superfamilyHomologous Superfamily
C [auth L]IPR000001KringleDomain
C [auth L]IPR000294Gamma-carboxyglutamic acid-rich (GLA) domainDomain
C [auth L]IPR051659Serine Protease S1 Domain-Containing ProteinFamily
C [auth L]IPR018056Kringle, conserved siteConserved Site
C [auth L]IPR018114Serine protease-like, trypsin family, histidine active siteActive Site
C [auth L]IPR043504Peptidase_S1_PA_chymotrypsinUnknown
C [auth L]IPR013806Kringle-like foldHomologous Superfamily
C [auth L]IPR038178Kringle superfamilyHomologous Superfamily
C [auth L]IPR001314Peptidase S1A, chymotrypsin familyFamily
B [auth A]IPR033138Multicopper oxidases, conserved siteConserved Site
B [auth A]IPR008979Galactose-binding-like domain superfamilyHomologous Superfamily
B [auth A]IPR011707Multicopper oxidase-like, N-terminalDomain
B [auth A]IPR024715Coagulation factor 5/8-likeFamily
B [auth A]IPR000421Coagulation factor 5/8, C-terminal domainDomain
B [auth A]IPR008972CupredoxinHomologous Superfamily
B [auth A]IPR050633Neuropilin/Multicopper Oxidase/Coagulation FactorFamily
A [auth E]IPR000294Gamma-carboxyglutamic acid-rich (GLA) domainDomain
A [auth E]IPR018097EGF-like calcium-binding, conserved siteConserved Site
A [auth E]IPR018114Serine protease-like, trypsin family, histidine active siteActive Site
A [auth E]IPR000742EGF-like domainDomain
A [auth E]IPR043504Peptidase_S1_PA_chymotrypsinUnknown
A [auth E]IPR050442Peptidase S1 family, coagulation factorsFamily
A [auth E]IPR009003Peptidase S1, PA clanHomologous Superfamily
A [auth E]IPR017857Coagulation factor-like, Gla domain superfamilyHomologous Superfamily
A [auth E]IPR001314Peptidase S1A, chymotrypsin familyFamily
A [auth E]IPR033116Serine proteases, trypsin family, serine active siteActive Site
A [auth E]IPR001254Serine proteases, trypsin domainDomain
A [auth E]IPR035972Gamma-carboxyglutamic acid-rich (GLA) domain superfamilyHomologous Superfamily
A [auth E]IPR001881EGF-like calcium-binding domainDomain
A [auth E]IPR000152EGF-type aspartate/asparagine hydroxylation sitePTM
A [auth E]IPR012224Peptidase S1A, coagulation factor VII/IX/X/C/ZFamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
E [auth B]P12259
D [auth H]P00734
C [auth L]P00734
B [auth A]P12259
A [auth E]P00742