2R52 | pdb_00002r52

Crystal structure analysis of Bone Morphogenetic Protein-6 (BMP-6)

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	d2r52a_	Small proteins	Cystine-knot cytokines	Cystine-knot cytokines	Transforming growth factor (TGF)-beta	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2r52b_	Small proteins	Cystine-knot cytokines	Cystine-knot cytokines	Transforming growth factor (TGF)-beta	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	Cystine-knot cytokines	8070311	3000846	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cystine-knot cytokines	8070311	3000846	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	TGF_beta	e2r52A1	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)
B	TGF_beta	e2r52B1	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.10.90.10	Mainly Beta	Ribbon	Cystine Knot Cytokines, subunit B	Cystine-knot cytokines	CATH (4.3.0)
B	2.10.90.10	Mainly Beta	Ribbon	Cystine Knot Cytokines, subunit B	Cystine-knot cytokines	CATH (4.3.0)

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	Bone morphogenetic protein 6	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 protein heterodimerization activity protein dimerization activity BMP receptor binding receptor serine/threonine kinase binding transmembrane receptor protein serine/threonine kinase binding 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 protein heterodimerization activity protein dimerization activity BMP receptor binding receptor serine/threonine kinase binding transmembrane receptor protein serine/threonine kinase binding cytokine activity	developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis cellular response to stimulus positive regulation of cell communication cell surface receptor protein serine/threonine kinase signaling pathway regulation of cellular process positive regulation of signal transduction response to stimulus signaling regulation of transmembrane receptor protein serine/threonine kinase signaling pathway positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction enzyme-linked receptor protein signaling pathway positive regulation of cellular process regulation of biological process regulation of signaling cell surface receptor signaling pathway biological regulation positive regulation of intracellular signal transduction positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway SMAD protein signal transduction regulation of response to stimulus regulation of cell communication cellular process regulation of SMAD protein signal transduction positive regulation of SMAD protein signal transduction positive regulation of signaling regulation of cell adhesion negative regulation of biological process negative regulation of cell adhesion cell adhesion cell-cell adhesion negative regulation of cell-cell adhesion mediated by cadherin cell-cell adhesion mediated by cadherin negative regulation of cell-cell adhesion negative regulation of cellular process regulation of cell-cell adhesion regulation of cell-cell adhesion mediated by cadherin regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process cellular response to iron ion cellular response to metal ion cellular response to chemical stimulus response to metal ion response to iron ion response to chemical bone development multicellular organismal-level iron ion homeostasis multicellular organismal-level homeostasis multicellular organismal-level chemical homeostasis endochondral ossification replacement ossification endochondral bone morphogenesis anatomical structure morphogenesis ossification skeletal system morphogenesis animal organ morphogenesis bone morphogenesis genitalia development reproductive system development reproductive process sex differentiation developmental process involved in reproduction male sex differentiation male genitalia development reproductive structure development regulation of hormone biosynthetic process regulation of lipid metabolic process regulation of primary metabolic process regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process primary alcohol biosynthetic process regulation of biological quality positive regulation of aldosterone biosynthetic process hormone biosynthetic process regulation of steroid hormone biosynthetic process regulation of alcohol biosynthetic process olefinic compound biosynthetic process regulation of hormone levels C21-steroid hormone biosynthetic process primary metabolic process regulation of ketone metabolic process positive regulation of steroid biosynthetic process positive regulation of hormone biosynthetic process regulation of aldosterone biosynthetic process mineralocorticoid biosynthetic process regulation of steroid biosynthetic process positive regulation of steroid hormone biosynthetic process ketone metabolic process regulation of hormone metabolic process steroid metabolic process lipid biosynthetic process alcohol metabolic process aldehyde biosynthetic process C21-steroid hormone metabolic process mineralocorticoid metabolic process aldosterone metabolic process steroid biosynthetic process steroid hormone biosynthetic process aldosterone biosynthetic process small molecule biosynthetic process positive regulation of hormone metabolic process regulation of ketone biosynthetic process regulation of steroid metabolic process hormone metabolic process aldehyde metabolic process regulation of aldosterone metabolic process positive regulation of lipid biosynthetic process alcohol biosynthetic process positive regulation of steroid metabolic process olefinic compound metabolic process regulation of lipid biosynthetic process positive regulation of small molecule metabolic process positive regulation of alcohol biosynthetic process ketone biosynthetic process primary alcohol metabolic process lipid metabolic process regulation of developmental process regulation of biomineral tissue development regulation of bone mineralization positive regulation of ossification positive regulation of developmental process positive regulation of biomineral tissue development biomineral tissue development regulation of multicellular organismal process regulation of multicellular organismal development bone mineralization positive regulation of bone mineralization positive regulation of multicellular organismal process regulation of ossification regulation of lipopolysaccharide-mediated signaling pathway positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus response to lipid cellular response to lipopolysaccharide response to biotic stimulus lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus positive regulation of response to external stimulus response to bacterium response to external biotic stimulus response to other organism response to oxygen-containing compound response to external stimulus cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to lipid positive regulation of lipopolysaccharide-mediated signaling pathway response to molecule of bacterial origin cellular developmental process endothelium development regulation of cell differentiation epithelial cell differentiation regulation of epithelial cell differentiation positive regulation of cell differentiation cell differentiation positive regulation of endothelial cell differentiation epithelium development endothelial cell differentiation regulation of endothelial cell differentiation positive regulation of epithelial cell differentiation regulation of vascular permeability system process circulatory system process positive regulation of vascular permeability vascular process in circulatory system blood circulation endocrine system development cell development type B pancreatic cell development epithelial cell development pancreas development endocrine pancreas development enteroendocrine cell differentiation type B pancreatic cell differentiation RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process kidney development renal system development positive regulation of DNA-templated transcription positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of localization regulation of aldosterone secretion positive regulation of steroid hormone secretion regulation of system process localization regulation of steroid hormone secretion aldosterone secretion mineralocorticoid secretion positive regulation of corticosteroid hormone secretion lipid transport regulation of corticosteroid hormone secretion establishment of localization regulation of secretion positive regulation of mineralocorticoid secretion endocrine hormone secretion positive regulation of lipid transport lipid export from cell regulation of mineralocorticoid secretion positive regulation of aldosterone secretion regulation of endocrine process corticosteroid hormone secretion regulation of hormone secretion transport steroid hormone secretion regulation of lipid transport positive regulation of secretion by cell organic hydroxy compound transport hormone secretion secretion by cell positive regulation of hormone secretion regulation of secretion by cell positive regulation of secretion signal release secretion regulation of transport lipid localization export from cell cell-cell signaling positive regulation of lipid localization endocrine process positive regulation of transport regulation of lipid localization macromolecule localization hormone transport osteoblast differentiation cellular response to BMP stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to endogenous stimulus response to BMP transforming growth factor beta receptor superfamily signaling pathway response to growth factor BMP signaling pathway immune response immune system process response to activity regulation of cartilage development regulation of chondrocyte differentiation positive regulation of chondrocyte differentiation chondrocyte differentiation positive regulation of cartilage development cell population proliferation positive regulation of cell population proliferation positive regulation of epithelial cell proliferation regulation of cell population proliferation regulation of epithelial cell proliferation epithelial cell proliferation nervous system development generation of neurons neurogenesis neuron differentiation response to retinoic acid response to corticosteroid response to hormone response to steroid hormone response to glucocorticoid establishment of protein localization nitrogen compound transport regulation of protein localization positive regulation of establishment of protein localization protein localization to extracellular region positive regulation of protein transport intracellular protein localization regulation of establishment of protein localization establishment of protein localization to extracellular region regulation of protein transport protein secretion positive regulation of protein secretion regulation of protein secretion protein transport positive regulation of protein localization positive regulation of neuron differentiation regulation of neuron differentiation response to mechanical stimulus response to abiotic stimulus cellular response to mechanical stimulus cellular response to abiotic stimulus cellular response to external stimulus cellular response to environmental stimulus regulation of osteoblast differentiation positive regulation of osteoblast differentiation adherens junction organization regulation of cellular component organization negative regulation of cellular component organization negative regulation of adherens junction organization cellular component organization regulation of adherens junction organization cell junction organization cellular component organization or biogenesis cell-cell junction organization sensory organ development eye development visual system development sensory system development defense response response to stress inflammatory response endothelial cell proliferation regulation of endothelial cell proliferation positive regulation of endothelial cell proliferation response to magnesium ion	protein-containing complex enzyme activator complex cellular anatomical structure extracellular region extracellular space membrane-bounded organelle organelle vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR029034	Cystine-knot cytokine	Homologous Superfamily
A, B	IPR017948	Transforming growth factor beta, conserved site	Conserved Site
A, B	IPR001839	Transforming growth factor-beta, C-terminal	Domain
A, B	IPR015615	Transforming growth factor-beta-related	Family
A, B	IPR001111	TGF-beta, propeptide	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P22004	hereditary hemochromatosis rheumatoid arthritis adult T-cell leukemia/lymphoma allergic contact dermatitis osteoarthritis susceptibility 1 plasma cell myeloma acute T cell leukemia atypical teratoid rhabdoid tumor ductal breast carcinoma in situ lung adenocarcinoma malignant ependymoma non-small cell lung carcinoma Osteoarthrosis Deformans breast carcinoma exocrine pancreatic carcinoma hereditary hemochromatosis rheumatoid arthritis adult T-cell leukemia/lymphoma allergic contact dermatitis osteoarthritis susceptibility 1 plasma cell myeloma acute T cell leukemia atypical teratoid rhabdoid tumor ductal breast carcinoma in situ lung adenocarcinoma malignant ependymoma non-small cell lung carcinoma Osteoarthrosis Deformans breast carcinoma exocrine pancreatic carcinoma interstitial cystitis lung cancer malignant pancreatic neoplasm osteoarthritis periodontitis colorectal cancer invasive ductal breast carcinoma lung carcinoma medulloblastoma

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.