1M1J | pdb_00001m1j

Crystal structure of native chicken fibrinogen with two different bound ligands

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD 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)
F	d1m1jf1	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	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
F	d1m1jf2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen gamma chain	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
C	d1m1jc1	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	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
C	d1m1jc2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen gamma chain	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
E	d1m1je1	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	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
E	d1m1je2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen beta chain	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
B	d1m1jb1	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	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
B	d1m1jb2	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen beta chain	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
D	d1m1jd_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen alpha chain	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
A	d1m1ja_	Coiled coil proteins	Parallel coiled-coil	Fibrinogen coiled-coil and central regions	Fibrinogen coiled-coil and central regions	Fibrinogen alpha chain	(Gallus gallus ) [TaxId: 9031 ],	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 coiled-coil and central regions	8041541	3001470	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8041540	3001395	SCOP2B (2022-06-29)
C	SCOP2 Family	Fibrinogen C-terminal domain-like	8029161	4002544	SCOP2 (2022-06-29)
C	SCOP2 Family	Fibrinogen coiled-coil and central regions	8029162	4003777	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Fibrinogen C-terminal domain-like	8041540	3001395	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Fibrinogen coiled-coil and central regions	8041541	3001470	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8041532	3001395	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041538	3001470	SCOP2B (2022-06-29)
B	SCOP2 Family	Fibrinogen C-terminal domain-like	8029153	4002544	SCOP2 (2022-06-29)
B	SCOP2 Family	Fibrinogen coiled-coil and central regions	8029159	4003777	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Fibrinogen C-terminal domain-like	8041532	3001395	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Fibrinogen coiled-coil and central regions	8041538	3001470	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Fibrinogen coiled-coil and central regions	8041533	3001470	SCOP2B (2022-06-29)
A	SCOP2 Family	Fibrinogen coiled-coil and central regions	8029154	4003777	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Fibrinogen coiled-coil and central regions	8041533	3001470	SCOP2 (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	Fibrinogen_C	e1m1jF1	A: a+b complex topology	X: Fibrinogen C-terminal domain-like (From Topology)	H: Fibrinogen C-terminal domain-like (From Topology)	T: Fibrinogen C-terminal domain-like	F: Fibrinogen_C	ECOD (1.6)
C	Fibrinogen_C	e1m1jC1	A: a+b complex topology	X: Fibrinogen C-terminal domain-like (From Topology)	H: Fibrinogen C-terminal domain-like (From Topology)	T: Fibrinogen C-terminal domain-like	F: Fibrinogen_C	ECOD (1.6)
E	Fibrinogen_C	e1m1jE1	A: a+b complex topology	X: Fibrinogen C-terminal domain-like (From Topology)	H: Fibrinogen C-terminal domain-like (From Topology)	T: Fibrinogen C-terminal domain-like	F: Fibrinogen_C	ECOD (1.6)
B	Fibrinogen_C	e1m1jB1	A: a+b complex topology	X: Fibrinogen C-terminal domain-like (From Topology)	H: Fibrinogen C-terminal domain-like (From Topology)	T: Fibrinogen C-terminal domain-like	F: Fibrinogen_C	ECOD (1.6)

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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, F	PF00147	Fibrinogen beta and gamma chains, C-terminal globular domain (Fibrinogen_C)	Fibrinogen beta and gamma chains, C-terminal globular domain		Domain
C, F	PF08702	Fibrinogen alpha/beta chain family (Fib_alpha)	Fibrinogen alpha/beta chain family	-	Coiled-coil
B, E	PF00147	Fibrinogen beta and gamma chains, C-terminal globular domain (Fibrinogen_C)	Fibrinogen beta and gamma chains, C-terminal globular domain		Domain
B, E	PF08702	Fibrinogen alpha/beta chain family (Fib_alpha)	Fibrinogen alpha/beta chain family	-	Coiled-coil
A, D	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
I, J	GLY-HIS-ARG-PRO peptide	-	-	-
G, H	GLY-PRO-ARG-PRO peptide	-	-	-
C, F	Fibrinogen gamma chain	protein binding binding signaling receptor binding cation binding ion binding metal ion binding small molecule binding protein-macromolecule adaptor activity molecular adaptor activity	multicellular organismal process regulation of body fluid levels wound healing response to stimulus cell activation hemostasis biological regulation blood coagulation response to stress coagulation cellular process regulation of biological quality response to wounding platelet activation multicellular organismal process regulation of body fluid levels wound healing response to stimulus cell activation hemostasis biological regulation blood coagulation response to stress coagulation cellular process regulation of biological quality response to wounding platelet activation cellular component organization cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis	protein-containing complex cellular anatomical structure extracellular region extracellular space fibrinogen complex
B, E	Fibrinogen beta chain	protein binding binding signaling receptor binding cation binding ion binding metal ion binding small molecule binding protein-macromolecule adaptor activity molecular adaptor activity	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 protein activation cascade response to stimulus hemostasis biological regulation primary metabolic process gene expression macromolecule biosynthetic process blood coagulation protein maturation biosynthetic process response to stress blood coagulation, fibrin clot formation coagulation metabolic process protein metabolic process macromolecule metabolic process regulation of biological quality response to wounding homotypic cell-cell adhesion cell activation platelet aggregation cell-cell adhesion platelet activation	protein-containing complex cellular anatomical structure extracellular region extracellular space fibrinogen complex
A, D	Fibrinogen alpha subunit	protein binding binding signaling receptor binding 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 space fibrinogen complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
C, F	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
C, F	IPR020837	Fibrinogen, conserved site	Conserved Site
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
A, D	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
A, D	IPR020837	Fibrinogen, conserved site	Conserved Site
A, D	IPR021996	Fibrinogen alpha C domain	Domain
A, D	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
A, D	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily

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.