1N73 | pdb_00001n73

Fibrin D-Dimer, Lamprey complexed with the PEPTIDE LIGAND: GLY-HIS-ARG-PRO-AMIDE

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d1n73f1	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domains	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
F	d1n73f2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen gamma chain	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
C	d1n73c1	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domains	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
C	d1n73c2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen gamma chain	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
E	d1n73e1	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domains	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
E	d1n73e2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen beta chain	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
B	d1n73b1	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domains	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
B	d1n73b2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen beta chain	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
D	d1n73d_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen alpha chain	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)
A	d1n73a_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen alpha chain	(Petromyzon marinus ) [TaxId: 7757 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8041490	3001395	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041491	3001470	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8041490	3001395	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041491	3001470	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041489	3001470	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8041486	3001395	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8041486	3001395	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041489	3001470	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041487	3001470	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041487	3001470	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Chloroa_b-bind	e1n73F1	A: beta barrels	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Chloroa_b-bind	ECOD (v294.2)
C	Biotin_carb_C	e1n73C1	A: beta barrels	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: Biotin_carb_C	ECOD (v294.2)
E	Chloroa_b-bind	e1n73E1	A: beta barrels	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Chloroa_b-bind	ECOD (v294.2)
B	Chloroa_b-bind	e1n73B1	A: beta barrels	X: HAD domain-like	H: The swivelling beta/beta/alpha domain	T: The swivelling beta/beta/alpha domain	F: Chloroa_b-bind	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
F	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	CATH (4.3.0)
F	1.20.5.50	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
C	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
C	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	CATH (4.3.0)
C	1.20.5.50	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
E	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
E	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	CATH (4.3.0)
E	1.20.5.50	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
B	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
B	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	CATH (4.3.0)
B	1.20.5.50	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
D	1.20.5.50	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
A	1.20.5.50	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G, H, I, J	peptide ligand: Gly-his-Arg-Pro-amide	protein binding binding signaling receptor binding protein-folding chaperone binding structural molecule activity extracellular matrix structural constituent	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis protein polymerization response to stimulus immune response immune system process cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis protein polymerization response to stimulus immune response immune system process adaptive immune response cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling positive regulation of MAPK cascade biological regulation positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling regulation of tube diameter multicellular organismal process system process regulation of tube size regulation of system process positive regulation of vasoconstriction circulatory system process regulation of blood circulation vascular process in circulatory system regulation of vasoconstriction positive regulation of multicellular organismal process regulation of multicellular organismal process blood vessel diameter maintenance regulation of biological quality vasoconstriction blood circulation regulation of anatomical structure size response to metal ion response to chemical response to calcium ion extrinsic apoptotic signaling pathway via death domain receptors negative regulation of signaling negative regulation of biological process regulation of programmed cell death extrinsic apoptotic signaling pathway negative regulation of cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process negative regulation of extrinsic apoptotic signaling pathway via death domain receptors cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway via death domain receptors apoptotic process programmed cell death regulation of apoptotic signaling pathway regulation of localization transport positive regulation of secretion by cell positive regulation of exocytosis vesicle-mediated transport localization regulation of secretion by cell secretion by cell positive regulation of secretion regulation of transport secretion export from cell regulation of vesicle-mediated transport establishment of localization regulation of secretion positive regulation of transport exocytosis regulation of exocytosis regulation of body fluid levels regulation of response to external stimulus regulation of response to wounding regulation of coagulation response to stress regulation of response to stress coagulation response to wounding regulation of hemostasis wound healing negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation hemostasis response to external stimulus negative regulation of response to wounding blood coagulation negative regulation of hemostasis fibrinolysis negative regulation of coagulation negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to biotic stimulus defense response to other organism innate immune response response to external biotic stimulus protein activation cascade primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process blood coagulation, fibrin clot formation metabolic process protein metabolic process macromolecule metabolic process homotypic cell-cell adhesion cell activation platelet aggregation cell-cell adhesion platelet activation zymogen activation proteolysis protein processing plasminogen activation positive regulation of substrate adhesion-dependent cell spreading regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion positive regulation of cell-substrate adhesion substrate adhesion-dependent cell spreading establishment of protein localization regulation of protein localization positive regulation of establishment of protein localization protein localization to extracellular region positive regulation of protein transport intracellular protein localization regulation of establishment of protein localization establishment of protein localization to extracellular region regulation of protein transport protein secretion positive regulation of protein secretion regulation of protein secretion protein transport macromolecule localization positive regulation of protein localization response to endogenous stimulus cellular response to leptin stimulus cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to leptin cellular response to hormone stimulus positive regulation of cell-cell adhesion heterotypic cell-cell adhesion positive regulation of heterotypic cell-cell adhesion regulation of cell-cell adhesion regulation of heterotypic cell-cell adhesion humoral immune response antibacterial humoral response antimicrobial humoral response defense response to bacterium induction of bacterial agglutination response to bacterium negative regulation of endothelial cell apoptotic process endothelial cell apoptotic process regulation of endothelial cell apoptotic process nitrogen compound transport regulation of hormone secretion regulation of peptide secretion hormone secretion peptide secretion positive regulation of hormone secretion signal release regulation of peptide hormone secretion positive regulation of peptide secretion regulation of hormone levels positive regulation of peptide hormone secretion regulation of peptide transport cell-cell signaling peptide transport peptide hormone secretion hormone transport response to peptide cellular response to interleukin-1 response to cytokine cellular response to cytokine stimulus response to interleukin-1	protein-containing complex cellular anatomical structure extracellular region extracellular protein-containing complex fibrinogen complex cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane cell cortex intracellular anatomical structure cytoplasm protein-containing complex cellular anatomical structure extracellular region extracellular protein-containing complex fibrinogen complex cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane cell cortex intracellular anatomical structure cytoplasm extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle extracellular matrix external encapsulating structure blood microparticle intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle secretory granule secretory vesicle platelet alpha granule synapse cell junction vesicle lumen membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular organelle lumen organelle lumen platelet alpha granule lumen endoplasmic reticulum
C, F	Fibrin gamma chain	protein binding binding signaling receptor binding structural molecule activity extracellular matrix structural constituent cation binding ion binding metal ion binding small molecule binding protein-macromolecule adaptor activity molecular adaptor activity	cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of biological process regulation of cellular process positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of biological process regulation of cellular process positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process positive regulation of cell-cell adhesion heterotypic cell-cell adhesion cell adhesion cell-cell adhesion positive regulation of heterotypic cell-cell adhesion regulation of cell-cell adhesion regulation of heterotypic cell-cell adhesion positive regulation of cellular process multicellular organismal process regulation of body fluid levels response to stimulus blood coagulation, common pathway protein maturation response to stress blood coagulation, fibrin clot formation coagulation protein metabolic process regulation of biological quality response to wounding wound healing protein activation cascade hemostasis primary metabolic process gene expression macromolecule biosynthetic process blood coagulation biosynthetic process metabolic process macromolecule metabolic process regulation of response to external stimulus negative regulation of biological process regulation of response to wounding regulation of coagulation regulation of response to stress regulation of multicellular organismal process regulation of hemostasis negative regulation of response to stimulus negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation response to external stimulus negative regulation of response to wounding negative regulation of hemostasis fibrinolysis negative regulation of coagulation regulation of response to stimulus negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process homotypic cell-cell adhesion cell activation platelet aggregation platelet activation	protein-containing complex cellular anatomical structure extracellular region extracellular protein-containing complex fibrinogen complex
B, E	Fibrin beta chain	protein binding binding signaling receptor binding structural molecule activity extracellular matrix structural constituent protein-macromolecule adaptor activity molecular adaptor activity	cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of biological process regulation of cellular process positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of biological process regulation of cellular process positive regulation of cell adhesion regulation of cell adhesion biological regulation positive regulation of biological process positive regulation of cell-cell adhesion heterotypic cell-cell adhesion cell adhesion cell-cell adhesion positive regulation of heterotypic cell-cell adhesion regulation of cell-cell adhesion regulation of heterotypic cell-cell adhesion positive regulation of cellular process multicellular organismal process regulation of body fluid levels response to stimulus blood coagulation, common pathway protein maturation response to stress blood coagulation, fibrin clot formation coagulation protein metabolic process regulation of biological quality response to wounding wound healing protein activation cascade hemostasis primary metabolic process gene expression macromolecule biosynthetic process blood coagulation biosynthetic process metabolic process macromolecule metabolic process regulation of response to external stimulus negative regulation of biological process regulation of response to wounding regulation of coagulation regulation of response to stress regulation of multicellular organismal process regulation of hemostasis negative regulation of response to stimulus negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation response to external stimulus negative regulation of response to wounding negative regulation of hemostasis fibrinolysis negative regulation of coagulation regulation of response to stimulus negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process homotypic cell-cell adhesion cell activation platelet aggregation platelet activation	protein-containing complex cellular anatomical structure extracellular region extracellular protein-containing complex fibrinogen complex
A, D	Fibrin alpha-1 chain	protein binding binding signaling receptor binding structural molecule activity extracellular matrix structural constituent protein-macromolecule adaptor activity molecular adaptor activity	multicellular organismal process regulation of body fluid levels response to stimulus regulation of response to external stimulus negative regulation of biological process regulation of response to wounding regulation of coagulation response to stress regulation of response to stress coagulation regulation of multicellular organismal process regulation of biological quality response to wounding regulation of hemostasis multicellular organismal process regulation of body fluid levels response to stimulus regulation of response to external stimulus negative regulation of biological process regulation of response to wounding regulation of coagulation response to stress regulation of response to stress coagulation regulation of multicellular organismal process regulation of biological quality response to wounding regulation of hemostasis wound healing regulation of biological process negative regulation of response to stimulus negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation biological regulation hemostasis response to external stimulus negative regulation of response to wounding blood coagulation negative regulation of hemostasis fibrinolysis negative regulation of coagulation regulation of response to stimulus negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis homotypic cell-cell adhesion cell activation platelet aggregation cell adhesion cell-cell adhesion platelet activation regulation of cellular process positive regulation of cell adhesion regulation of cell adhesion positive regulation of biological process positive regulation of cell-cell adhesion heterotypic cell-cell adhesion positive regulation of heterotypic cell-cell adhesion regulation of cell-cell adhesion regulation of heterotypic cell-cell adhesion positive regulation of cellular process blood coagulation, common pathway protein maturation blood coagulation, fibrin clot formation protein metabolic process protein activation cascade primary metabolic process gene expression macromolecule biosynthetic process biosynthetic process metabolic process macromolecule metabolic process	protein-containing complex cellular anatomical structure extracellular region extracellular protein-containing complex fibrinogen complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G, H, I, J	IPR037579	Fibrinogen/angiopoietin-like	Family
G, H, I, J	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
G, H, I, J	IPR020837	Fibrinogen, conserved site	Conserved Site
G, H, I, J	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
G, H, I, J	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
G, H, I, J	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
C, F	IPR037579	Fibrinogen/angiopoietin-like	Family
C, F	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
C, F	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
C, F	IPR020837	Fibrinogen, conserved site	Conserved Site
C, F	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
C, F	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
B, E	IPR037579	Fibrinogen/angiopoietin-like	Family
B, E	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
B, E	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
B, E	IPR020837	Fibrinogen, conserved site	Conserved Site
B, E	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
B, E	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
A, D	IPR037579	Fibrinogen/angiopoietin-like	Family
A, D	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
G, H, I, J	: P02675	congenital afibrinogenemia Dysfibrinogenemia, Congenital osteoporosis familial dysfibrinogenemia Parkinson disease pancreatic ductal adenocarcinoma vascular disease familial hypofibrinogenemia lung adenocarcinoma

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.