5VT2 | pdb_00005vt2

Crystal structure of growth differentiation factor

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
B	d5vt2b_	Small proteins	Cystine-knot cytokines	Cystine-knot cytokines	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d5vt2a_	Small proteins	Cystine-knot cytokines	Cystine-knot cytokines	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)
B	SCOP2B Superfamily	Cystine-knot cytokines	8070315	3000846	SCOP2B (2022-06-29)
A	SCOP2 Family	Transforming growth factor (TGF)-beta	8070314	4003433	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Cystine-knot cytokines	8070315	3000846	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)
B	TGF_beta	e5vt2B1	A: few secondary structure elements	X: Cystine-knot cytokines (From Topology)	H: Cystine-knot cytokines (From Topology)	T: Cystine-knot cytokines	F: TGF_beta	ECOD (1.6)
A	TGF_beta	e5vt2A1	A: few secondary structure elements	X: Cystine-knot cytokines (From Topology)	H: Cystine-knot cytokines (From Topology)	T: Cystine-knot cytokines	F: TGF_beta	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00019	Transforming growth factor beta like domain (TGF_beta)	Transforming growth factor beta like domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Growth/differentiation factor 15	protein binding binding molecular function activator activity signaling receptor binding molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity identical protein binding protein homodimerization activity protein dimerization activity cytokine activity hormone activity	response to nutrient levels regulation of response to nutrient levels regulation of biological process negative regulation of response to food response to stimulus negative regulation of response to nutrient levels negative regulation of response to stimulus biological regulation negative regulation of biological process negative regulation of appetite regulation of response to food regulation of response to stimulus response to food response to chemical response to nutrient levels regulation of response to nutrient levels regulation of biological process negative regulation of response to food response to stimulus negative regulation of response to nutrient levels negative regulation of response to stimulus biological regulation negative regulation of biological process negative regulation of appetite regulation of response to food regulation of response to stimulus response to food response to chemical regulation of biological quality regulation of appetite regulation of cellular process oxoacid metabolic process ketone metabolic process regulation of lipid metabolic process positive regulation of biological process organic acid metabolic process regulation of primary metabolic process regulation of fatty acid oxidation positive regulation of metabolic process fatty acid oxidation regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process lipid oxidation positive regulation of cellular process positive regulation of fatty acid metabolic process fatty acid metabolic process carboxylic acid metabolic process lipid modification primary metabolic process regulation of ketone metabolic process positive regulation of fatty acid oxidation regulation of fatty acid metabolic process metabolic process cellular process monocarboxylic acid metabolic process positive regulation of small molecule metabolic process regulation of metabolic process lipid metabolic process reduction of food intake in response to dietary excess multicellular organismal process homeostatic process eating behavior feeding behavior behavior multicellular organismal-level homeostasis response to dietary excess energy homeostasis cellular response to stimulus cell surface receptor signaling pathway signaling GDF15-GFRAL signaling pathway cell surface receptor protein tyrosine kinase signaling pathway cell communication cellular response to stress response to stress glial cell-derived neurotrophic factor receptor signaling pathway signal transduction enzyme-linked receptor protein signaling pathway cell-cell signaling positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of cell communication phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signaling response to metformin response to nitrogen compound developmental process regulation of multicellular organism growth regulation of growth regulation of developmental growth negative regulation of multicellular organism growth regulation of developmental process developmental growth negative regulation of developmental process growth multicellular organism growth negative regulation of developmental growth negative regulation of growth regulation of multicellular organismal process negative regulation of multicellular organismal process cell surface receptor protein serine/threonine kinase signaling pathway negative regulation of signaling regulation of transmembrane receptor protein serine/threonine kinase signaling pathway negative regulation of intracellular signal transduction negative regulation of cell communication negative regulation of cellular process negative regulation of signal transduction SMAD protein signal transduction regulation of SMAD protein signal transduction negative regulation of SMAD protein signal transduction negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway negative regulation of transforming growth factor beta receptor signaling pathway cellular response to growth factor stimulus cellular response to transforming growth factor beta stimulus regulation of transforming growth factor beta receptor signaling pathway cellular response to endogenous stimulus regulation of cellular response to transforming growth factor beta stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus response to transforming growth factor beta transforming growth factor beta receptor signaling pathway response to growth factor transforming growth factor beta receptor superfamily signaling pathway positive regulation of MAPK cascade regulation of MAPK cascade MAPK cascade positive regulation of cellular component organization regulation of cellular component organization regulation of syncytium formation by plasma membrane fusion cellular developmental process cell-cell fusion muscle cell differentiation myotube differentiation cellular component organization positive regulation of developmental process muscle structure development cell differentiation anatomical structure development cellular component organization or biogenesis syncytium formation positive regulation of myoblast fusion myoblast fusion regulation of myoblast fusion positive regulation of syncytium formation by plasma membrane fusion syncytium formation by plasma membrane fusion anatomical structure morphogenesis anatomical structure formation involved in morphogenesis striated muscle cell differentiation negative regulation of locomotion regulation of cell motility regulation of leukocyte migration leukocyte migration negative regulation of leukocyte migration negative regulation of immune system process immune system process regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration regulation of immune system process cell motility negative regulation of cell migration locomotion cellular response to chemical stimulus cellular response to chemical stress cellular response to nitrogen compound response to peptide hormone cellular response to growth hormone stimulus regulation of growth hormone receptor signaling pathway response to hormone cellular response to hormone stimulus growth hormone receptor signaling pathway cellular response to peptide hormone stimulus response to oxygen-containing compound cellular response to oxygen-containing compound response to growth hormone negative regulation of growth hormone receptor signaling pathway	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm intracellular organelle Golgi apparatus extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm intracellular organelle Golgi apparatus intracellular membrane-bounded organelle endomembrane system nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR029034	Cystine-knot cytokine	Homologous Superfamily
A, B	IPR015615	Transforming growth factor-beta-related	Family
A, B	IPR001839	Transforming growth factor-beta, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q99988	melanoma sideroblastic anemia Weight Gain coronary artery disease prostate cancer mouth disease congestive heart failure breast carcinoma subependymal giant cell astrocytoma lung adenocarcinoma malignant ependymoma atypical teratoid rhabdoid tumor chronic obstructive pulmonary disease myocardial ischemia nephrosclerosis melanoma sideroblastic anemia Weight Gain coronary artery disease prostate cancer mouth disease congestive heart failure breast carcinoma subependymal giant cell astrocytoma lung adenocarcinoma malignant ependymoma atypical teratoid rhabdoid tumor chronic obstructive pulmonary disease myocardial ischemia nephrosclerosis ovarian cancer gastric carcinoma glioblastoma sarcoidosis heart disease hepatocellular carcinoma systemic lupus erythematosus invasive ductal breast carcinoma lung cancer malignant glioma breast cancer nasopharyngeal carcinoma cutaneous melanoma non-small cell lung carcinoma ductal breast carcinoma in situ pancreatic ductal adenocarcinoma gastroesophageal reflux disease Hashimoto thyroiditis heart failure hypertensive disorder ulcerative colitis juvenile dermatomyositis malignant colon neoplasm digestive system cancer osteosarcoma esophageal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia 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.