1JY2

Crystal Structure of the Central Region of Bovine Fibrinogen (E5 fragment) at 1.4 Angstroms Resolution

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth N]	d1jy2n_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen alpha chain	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
D [auth Q]	d1jy2q_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen alpha chain	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B [auth O]	d1jy2o_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen beta chain	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
E [auth R]	d1jy2r_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen beta chain	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
C [auth P]	d1jy2p_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen gamma chain	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
F [auth S]	d1jy2s_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen gamma chain	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth N]	SCOP2 Family	Fibrinogen coiled-coil and central regions	8025071	4003777	SCOP2 (2022-06-29)
A [auth N]	SCOP2 Superfamily	Fibrinogen coiled-coil and central regions	8037450	3001470	SCOP2 (2022-06-29)
D [auth Q]	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8037450	3001470	SCOP2B (2022-06-29)
B [auth O]	SCOP2 Family	Fibrinogen coiled-coil and central regions	8025075	4003777	SCOP2 (2022-06-29)
B [auth O]	SCOP2 Superfamily	Fibrinogen coiled-coil and central regions	8037454	3001470	SCOP2 (2022-06-29)
E [auth R]	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8037454	3001470	SCOP2B (2022-06-29)
C [auth P]	SCOP2 Family	Fibrinogen coiled-coil and central regions	8025077	4003777	SCOP2 (2022-06-29)
C [auth P]	SCOP2 Superfamily	Fibrinogen coiled-coil and central regions	8037456	3001470	SCOP2 (2022-06-29)
F [auth S]	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8037456	3001470	SCOP2B (2022-06-29)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth N]	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 [auth Q]	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 [auth O]	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 [auth R]	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 [auth P]	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)
F [auth S]	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth N], D [auth Q]	PF08702	Fibrinogen alpha/beta chain family (Fib_alpha)	Fibrinogen alpha/beta chain family	-	Coiled-coil
B [auth O], E [auth R]	PF08702	Fibrinogen alpha/beta chain family (Fib_alpha)	Fibrinogen alpha/beta chain family	-	Coiled-coil
C [auth P], F [auth S]	PF08702	Fibrinogen alpha/beta chain family (Fib_alpha)	Fibrinogen alpha/beta chain family	-	Coiled-coil

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth N], D [auth Q]	FIBRINOGEN ALPHA CHAIN	protein binding binding signaling receptor binding	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 response to stimulus immune response immune system process adaptive immune response cellular response to stimulus positive regulation of cell communication 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 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 positive regulation of cell adhesion regulation of cell adhesion 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 multicellular organismal process regulation of body fluid levels blood coagulation, common pathway cellular biosynthetic process protein maturation organic substance metabolic process response to stress blood coagulation, fibrin clot formation organic substance biosynthetic process coagulation protein metabolic process regulation of biological quality response to wounding wound healing protein activation cascade organonitrogen compound metabolic process cellular metabolic process hemostasis primary metabolic process gene expression macromolecule biosynthetic process blood coagulation biosynthetic process metabolic process macromolecule metabolic process 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 response to external stimulus regulation of response to wounding regulation of coagulation regulation of response to stress regulation of multicellular organismal process regulation of hemostasis 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 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 negative regulation of endothelial cell apoptotic process regulation of epithelial cell apoptotic process epithelial cell apoptotic process negative regulation of epithelial cell apoptotic process endothelial cell apoptotic process regulation of endothelial cell apoptotic process homotypic cell-cell adhesion cell activation platelet aggregation platelet activation regulation of localization nitrogen compound transport regulation of hormone secretion regulation of peptide secretion transport positive regulation of secretion by cell hormone secretion peptide secretion localization secretion by cell regulation of secretion by cell positive regulation of hormone secretion positive regulation of secretion amide transport signal release regulation of peptide hormone secretion positive regulation of peptide secretion secretion regulation of transport regulation of hormone levels positive regulation of peptide hormone secretion organic substance transport regulation of peptide transport cell-cell signaling export from cell establishment of localization regulation of secretion peptide transport positive regulation of transport peptide hormone secretion hormone transport	protein-containing complex extracellular region extracellular space cellular anatomical entity fibrinogen complex
B [auth O], E [auth R]	FIBRINOGEN BETA CHAIN	protein binding binding signaling receptor binding	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis response to stimulus immune response immune system process cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis response to stimulus immune response immune system process adaptive immune response biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to other organism response to stress innate immune response response to external biotic stimulus multicellular organismal process regulation of body fluid levels cellular biosynthetic process protein maturation organic substance metabolic process blood coagulation, fibrin clot formation organic substance biosynthetic process coagulation protein metabolic process regulation of biological quality response to wounding wound healing protein activation cascade organonitrogen compound metabolic process cellular metabolic process hemostasis biological regulation primary metabolic process gene expression macromolecule biosynthetic process blood coagulation biosynthetic process metabolic process macromolecule metabolic process homotypic cell-cell adhesion cell activation platelet aggregation cell-cell adhesion platelet activation	protein-containing complex extracellular region extracellular space cellular anatomical entity fibrinogen complex cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix
C [auth P], F [auth S]	FIBRINOGEN GAMMA-B CHAIN	protein binding binding signaling receptor binding cation binding ion binding metal ion binding small molecule binding	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis multicellular organismal process regulation of body fluid levels wound healing cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis multicellular organismal process regulation of body fluid levels wound healing response to stimulus homotypic cell-cell adhesion cell activation hemostasis biological regulation platelet aggregation blood coagulation cell-cell adhesion response to stress coagulation regulation of biological quality response to wounding platelet activation	protein-containing complex extracellular region extracellular space cellular anatomical entity fibrinogen complex cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth N], D [auth Q]	IPR037579	Fibrinogen	Family
A [auth N], D [auth Q]	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
A [auth N], D [auth Q]	IPR021996	Fibrinogen alpha C domain	Domain
B [auth O], E [auth R]	IPR037579	Fibrinogen	Family
B [auth O], E [auth R]	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
B [auth O], E [auth R]	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
B [auth O], E [auth R]	IPR020837	Fibrinogen, conserved site	Conserved Site
B [auth O], E [auth R]	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
B [auth O], E [auth R]	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
C [auth P], F [auth S]	IPR037579	Fibrinogen	Family
C [auth P], F [auth S]	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
C [auth P], F [auth S]	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
C [auth P], F [auth S]	IPR020837	Fibrinogen, conserved site	Conserved Site
C [auth P], F [auth S]	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
C [auth P], F [auth S]	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.