2PF5 | pdb_00002pf5

Crystal Structure of the Human TSG-6 Link Module

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	d2pf5a_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	Link domain	TSG-6, Link module	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2pf5b_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	Link domain	TSG-6, Link module	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2pf5c_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	Link domain	TSG-6, Link module	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d2pf5d_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	Link domain	TSG-6, Link module	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d2pf5e_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	Link domain	TSG-6, Link module	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	C-type lectin-like	8035605	3001261	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C-type lectin-like	8035605	3001261	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	C-type lectin-like	8035605	3001261	SCOP2B (2022-06-29)
D	SCOP2 Family	Link domain	8023225	4002511	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	C-type lectin-like	8035605	3001261	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	C-type lectin-like	8035605	3001261	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		e2pf5A1	A: C-type lectin-like	X: C-type lectin-like	H: C-type lectin-like	T: Xlink	F:	ECOD (20:10:01)
B		e2pf5B1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Peptidase_C1	F:	ECOD (20:10:01)
C		e2pf5C1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Peptidase_C1	F:	ECOD (20:10:01)
D		e2pf5D1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Peptidase_C1	F:	ECOD (20:10:01)
E		e2pf5E1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Peptidase_C1	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)
B	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)
C	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)
D	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)
E	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF00193	Extracellular link domain (Xlink)	Extracellular link domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	Tumor necrosis factor-inducible protein TSG-6	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding hydrolase activity, acting on ester bonds carboxylesterase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity protein binding fibronectin binding glycosaminoglycan binding cation binding ion binding binding calcium ion binding metal ion binding small molecule binding hydrolase activity, acting on ester bonds carboxylesterase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity protein binding fibronectin binding glycosaminoglycan binding carbohydrate derivative binding hyaluronic acid binding	regulation of localization regulation of biological process cellular localization regulation of cellular process regulation of protein localization positive regulation of receptor clustering biological regulation positive regulation of biological process positive regulation of protein localization to membrane localization within membrane protein localization to membrane localization regulation of cellular localization macromolecule localization receptor clustering regulation of localization regulation of biological process cellular localization regulation of cellular process regulation of protein localization positive regulation of receptor clustering biological regulation positive regulation of biological process positive regulation of protein localization to membrane localization within membrane protein localization to membrane localization regulation of cellular localization macromolecule localization receptor clustering positive regulation of protein localization cellular process intracellular protein localization regulation of receptor clustering regulation of protein localization to membrane positive regulation of cellular process developmental process regulation of osteoblast differentiation multicellular organismal process regulation of developmental process cellular developmental process negative regulation of osteoblast differentiation negative regulation of developmental process negative regulation of biological process regulation of cell differentiation osteoblast differentiation ossification cell differentiation negative regulation of cellular process negative regulation of cell differentiation cellular response to stimulus negative regulation of locomotion regulation of cell motility response to stimulus negative regulation of chemotaxis taxis cell migration regulation of immune system process negative regulation of cell migration chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration response to external stimulus neutrophil migration granulocyte migration leukocyte migration negative regulation of leukocyte migration regulation of response to stimulus regulation of locomotion response to chemical negative regulation of response to external stimulus regulation of neutrophil chemotaxis negative regulation of cell motility regulation of neutrophil migration negative regulation of neutrophil chemotaxis negative regulation of leukocyte chemotaxis regulation of response to external stimulus neutrophil chemotaxis regulation of granulocyte chemotaxis regulation of cell migration myeloid leukocyte migration cell motility locomotion cell chemotaxis negative regulation of response to stimulus negative regulation of granulocyte chemotaxis regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process immune system process granulocyte chemotaxis negative regulation of neutrophil migration leukocyte chemotaxis regulation of defense response negative regulation of inflammatory response defense response regulation of inflammatory response response to stress regulation of response to stress negative regulation of defense response inflammatory response hyaluronan metabolic process glycosaminoglycan metabolic process aminoglycan metabolic process carbohydrate derivative metabolic process metabolic process macromolecule metabolic process signaling cell-cell signaling cell communication cell surface receptor protein serine/threonine kinase signaling pathway cellular response to growth factor stimulus negative regulation of signaling regulation of transmembrane receptor protein serine/threonine kinase signaling pathway regulation of signal transduction negative regulation of cellular response to growth factor stimulus negative regulation of BMP signaling pathway negative regulation of cell communication cellular response to endogenous stimulus signal transduction BMP signaling pathway enzyme-linked receptor protein signaling pathway cellular response to BMP stimulus regulation of signaling cell surface receptor signaling pathway regulation of BMP signaling pathway response to endogenous stimulus regulation of cellular response to growth factor stimulus negative regulation of signal transduction response to BMP regulation of cell communication transforming growth factor beta receptor superfamily signaling pathway response to growth factor negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway myeloid leukocyte differentiation regulation of leukocyte differentiation cell development regulation of cell development regulation of osteoclast differentiation multicellular organism development osteoclast differentiation anatomical structure development regulation of multicellular organismal process negative regulation of hemopoiesis regulation of multicellular organismal development negative regulation of leukocyte differentiation hemopoiesis regulation of myeloid cell differentiation regulation of myeloid leukocyte differentiation negative regulation of myeloid cell differentiation negative regulation of osteoclast differentiation negative regulation of myeloid leukocyte differentiation negative regulation of cell development myeloid cell differentiation regulation of hemopoiesis negative regulation of multicellular organismal process leukocyte differentiation cellular component organization fibronectin fibril organization cellular component organization or biogenesis supramolecular fiber organization positive regulation of locomotion positive regulation of cell migration positive regulation of cell motility cell adhesion ovulation cycle process sexual reproduction developmental growth reproductive process sex differentiation cellular process involved in reproduction in multicellular organism development of primary female sexual characteristics developmental process involved in reproduction female gamete generation gamete generation ovulation cycle development of primary sexual characteristics ovarian cumulus expansion reproductive structure development ovarian follicle development mammalian oogenesis stage system development rhythmic process gonad development reproductive system development female gonad development multicellular organismal reproductive process oogenesis growth animal organ development female sex differentiation fused antrum stage antral ovarian follicle growth germ cell development	membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen intracellular vesicle ficolin-1-rich granule intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen cytoplasmic vesicle ficolin-1-rich granule lumen organelle membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen intracellular vesicle ficolin-1-rich granule intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen cytoplasmic vesicle ficolin-1-rich granule lumen organelle secretory granule secretory vesicle cytoplasm vesicle tertiary granule lumen tertiary granule extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR016187	C-type lectin fold	Homologous Superfamily
A, B, C, D, E	IPR035914	Spermadhesin, CUB domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR016186	C-type lectin-like/link domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR000859	CUB domain	Domain
A, B, C, D, E	IPR000538	Link domain	Domain
A, B, C, D, E	IPR052129	Spermadhesin-Link domain-containing protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E	Pharos: P98066	juvenile idiopathic arthritis acute lung injury influenza middle cerebral artery infarction allergic contact dermatitis Arsenic Poisoning hepatocellular carcinoma skin disease invasive ductal breast carcinoma ulcerative colitis malignant mesothelioma chronic obstructive pulmonary disease nasopharyngeal carcinoma cystic fibrosis ovarian cancer juvenile idiopathic arthritis acute lung injury influenza middle cerebral artery infarction allergic contact dermatitis Arsenic Poisoning hepatocellular carcinoma skin disease invasive ductal breast carcinoma ulcerative colitis malignant mesothelioma chronic obstructive pulmonary disease nasopharyngeal carcinoma cystic fibrosis ovarian cancer esophageal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia glioblastoma rheumatoid arthritis lung cancer adrenoleukodystrophy malignant pancreatic neoplasm astrocytic tumor congestive heart failure pancreatic ductal adenocarcinoma exocrine pancreatic carcinoma pilocytic astrocytoma head and neck cancer interstitial cystitis tuberculosis juvenile dermatomyositis malignant glioma MALT lymphoma breast cancer multiple sclerosis cutaneous lupus erythematosus oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma gastric carcinoma psoriasis

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.