2J3F | pdb_00002j3f

L-ficolin complexed to N-acetyl-D-galactosamine

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2j3fa_	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	automated matches	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2j3fb_	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	automated matches	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2j3fc_	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	automated matches	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d2j3fe_	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	automated matches	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d2j3ff_	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	automated matches	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d2j3fd_	Alpha and beta proteins (a+b)	Fibrinogen C-terminal domain-like	Fibrinogen C-terminal domain-like	automated matches	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8070780	3001395	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8070780	3001395	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8070780	3001395	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8070780	3001395	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8070780	3001395	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Fibrinogen C-terminal domain-like	8070780	3001395	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)
A		e2j3fA1	A: Profilin-like	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: ACPS	F:	ECOD (20:10:01)
B		e2j3fB1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: ACR_tran	F:	ECOD (20:10:01)
C		e2j3fC1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: ACR_tran	F:	ECOD (20:10:01)
E		e2j3fE1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: ACR_tran	F:	ECOD (20:10:01)
F		e2j3fF1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: ACR_tran	F:	ECOD (20:10:01)
D		e2j3fD1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: ACR_tran	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
A	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	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)
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)
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)
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)
D	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
D	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, E, F	PF00147	Fibrinogen beta and gamma chains, C-terminal globular domain (Fibrinogen_C)	Fibrinogen beta and gamma chains, C-terminal globular domain		Domain
D	PF00147	Fibrinogen beta and gamma chains, C-terminal globular domain (Fibrinogen_C)	Fibrinogen beta and gamma chains, C-terminal globular domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, E, F	FICOLIN-2	protein binding binding signaling receptor binding molecular transducer activity pattern recognition receptor activity signaling receptor activity polysaccharide binding mannan binding carbohydrate binding antigen binding lipoteichoic acid immune receptor activity calcium-dependent protein binding proteoglycan binding carbohydrate derivative binding protein binding binding signaling receptor binding molecular transducer activity pattern recognition receptor activity signaling receptor activity polysaccharide binding mannan binding carbohydrate binding antigen binding lipoteichoic acid immune receptor activity calcium-dependent protein binding proteoglycan binding carbohydrate derivative binding cation binding ion binding metal ion binding small molecule binding	import into cell transport establishment of localization vesicle-mediated transport immune effector process phagocytosis, recognition opsonization localization immune system process phagocytosis cellular process cell recognition endocytosis cellular response to stimulus import into cell transport establishment of localization vesicle-mediated transport immune effector process phagocytosis, recognition opsonization localization immune system process phagocytosis cellular process cell recognition endocytosis cellular response to stimulus positive regulation of response to biotic stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process response to stimulus pattern recognition receptor signaling pathway response to biotic stimulus cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process immune response response to other organism immune response-activating cell surface receptor signaling pathway regulation of innate immune response response to external stimulus regulation of response to stimulus defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus signaling positive regulation of biological process innate immune response activating cell surface receptor signaling pathway positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress response to stress innate immune response response to external biotic stimulus cell surface pattern recognition receptor signaling pathway positive regulation of innate immune response cell surface receptor signaling pathway defense response biological regulation defense response to symbiont apoptotic cell clearance recognition of apoptotic cell humoral immune response complement activation complement activation, lectin pathway defense response to Gram-negative bacterium defense response to bacterium response to bacterium regulation of immune effector process regulation of localization positive regulation of cellular component organization regulation of cellular component organization cellular component organization positive regulation of endocytosis positive regulation of immune effector process cellular component organization or biogenesis positive regulation of cellular process regulation of endocytosis regulation of transport regulation of phagocytosis regulation of vesicle-mediated transport positive regulation of opsonization regulation of opsonization positive regulation of phagocytosis positive regulation of transport proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process defense response to Gram-positive bacterium	protein-containing complex collagen trimer cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region protein-containing complex collagen trimer cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle other organism part symbiont cell surface blood microparticle catalytic complex peptidase complex endopeptidase complex serine-type endopeptidase complex serine-type peptidase complex
D	FICOLIN-2	protein binding binding signaling receptor binding molecular transducer activity pattern recognition receptor activity signaling receptor activity polysaccharide binding mannan binding carbohydrate binding antigen binding lipoteichoic acid immune receptor activity calcium-dependent protein binding proteoglycan binding carbohydrate derivative binding protein binding binding signaling receptor binding molecular transducer activity pattern recognition receptor activity signaling receptor activity polysaccharide binding mannan binding carbohydrate binding antigen binding lipoteichoic acid immune receptor activity calcium-dependent protein binding proteoglycan binding carbohydrate derivative binding cation binding ion binding metal ion binding small molecule binding	import into cell transport establishment of localization vesicle-mediated transport immune effector process phagocytosis, recognition opsonization localization immune system process phagocytosis cellular process cell recognition endocytosis cellular response to stimulus import into cell transport establishment of localization vesicle-mediated transport immune effector process phagocytosis, recognition opsonization localization immune system process phagocytosis cellular process cell recognition endocytosis cellular response to stimulus positive regulation of response to biotic stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process response to stimulus pattern recognition receptor signaling pathway response to biotic stimulus cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process immune response response to other organism immune response-activating cell surface receptor signaling pathway regulation of innate immune response response to external stimulus regulation of response to stimulus defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus signaling positive regulation of biological process innate immune response activating cell surface receptor signaling pathway positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress response to stress innate immune response response to external biotic stimulus cell surface pattern recognition receptor signaling pathway positive regulation of innate immune response cell surface receptor signaling pathway defense response biological regulation defense response to symbiont apoptotic cell clearance recognition of apoptotic cell humoral immune response complement activation complement activation, lectin pathway defense response to Gram-negative bacterium defense response to bacterium response to bacterium regulation of immune effector process regulation of localization positive regulation of cellular component organization regulation of cellular component organization cellular component organization positive regulation of endocytosis positive regulation of immune effector process cellular component organization or biogenesis positive regulation of cellular process regulation of endocytosis regulation of transport regulation of phagocytosis regulation of vesicle-mediated transport positive regulation of opsonization regulation of opsonization positive regulation of phagocytosis positive regulation of transport proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process defense response to Gram-positive bacterium	protein-containing complex collagen trimer cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region protein-containing complex collagen trimer cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle other organism part symbiont cell surface blood microparticle catalytic complex peptidase complex endopeptidase complex serine-type endopeptidase complex serine-type peptidase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, E, F	IPR008160	Collagen triple helix repeat	Repeat
A, B, C, E, F	IPR020837	Fibrinogen, conserved site	Conserved Site
A, B, C, E, F	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
A, B, C, E, F	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
A, B, C, E, F	IPR050373	Fibrinogen C-terminal domain-containing protein	Family
A, B, C, E, F	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
D	IPR008160	Collagen triple helix repeat	Repeat
D	IPR020837	Fibrinogen, conserved site	Conserved Site
D	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
D	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
D	IPR050373	Fibrinogen C-terminal domain-containing protein	Family
D	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, E, F	Pharos: Q15485	malignant mesothelioma adenoma pituitary cancer colorectal cancer osteosarcoma psoriasis hepatocellular carcinoma pancreatic ductal adenocarcinoma
D	Pharos: Q15485	malignant mesothelioma adenoma pituitary cancer colorectal cancer osteosarcoma psoriasis hepatocellular carcinoma pancreatic ductal adenocarcinoma

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.