Annotations: 6FFY

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Cystine-knot cytokines	8038790	3000846	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cystine-knot cytokines	8038790	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	F_UNCLASSIFIED	e6ffyA5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF00801	e6ffyA4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF00801	ECOD (1.6)
A	PF15902	e6ffyA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 10-bladed	F: PF15902	ECOD (1.6)
A	F_UNCLASSIFIED	e6ffyA6	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF15901	e6ffyA3	A: few secondary structure elements	X: Sortilin C-terminal domain (From Topology)	H: Sortilin C-terminal domain (From Topology)	T: Sortilin C-terminal domain	F: PF15901	ECOD (1.6)
B	PF00243	e6ffyB1	A: few secondary structure elements	X: Cystine-knot cytokines (From Topology)	H: Cystine-knot cytokines (From Topology)	T: Cystine-knot cytokines	F: PF00243	ECOD (1.6)
C	PF00243	e6ffyC1	A: few secondary structure elements	X: Cystine-knot cytokines (From Topology)	H: Cystine-knot cytokines (From Topology)	T: Cystine-knot cytokines	F: PF00243	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.10.90.10	Mainly Beta	Ribbon	Cystine Knot Cytokines, subunit B	Cystine-knot cytokines	CATH (4.3.0)
C	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	PF15902	Sortilin, neurotensin receptor 3, (Sortilin-Vps10)	Sortilin, neurotensin receptor 3,	-	Repeat
A	PF15901	Sortilin, neurotensin receptor 3, C-terminal (Sortilin_C)	Sortilin, neurotensin receptor 3, C-terminal	Sortilin_C is the C-terminal cytoplasmic tail of sortilin, a Vps10p domain-containing family of proteins [1,2]. Most sortilin is expressed within intracellular compartments, where it chaperones diverse ligands, including proBDNF and acid hydrolases. ...	Sortilin_C is the C-terminal cytoplasmic tail of sortilin, a Vps10p domain-containing family of proteins [1,2]. Most sortilin is expressed within intracellular compartments, where it chaperones diverse ligands, including proBDNF and acid hydrolases. The sortilin cytoplasmic tail is homologous to mannose 6-phosphate receptor and is required for the intracellular trafficking of cargo proteins via interactions with distinct adaptor molecules [3,4]. In addition to mediating lysosomal targeting of specific acid hydrolases, the sortilin cytoplasmic tail also directs trafficking of BDNF to the secretory pathway in neurons, where it can be released in response to depolarisation to modulate cell survival and synaptic plasticity [5].	Domain
A	PF18911	PKD domain (PKD_4)	PKD domain	This entry is composed of PKD domains found in bacterial surface proteins.	Domain
B, C	PF00243	Nerve growth factor family (NGF)	Nerve growth factor family	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	VPS10 domain-containing receptor SorCS2	-	protein localization cellular localization establishment of protein localization nitrogen compound transport transport organic substance transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process protein localization cellular localization establishment of protein localization nitrogen compound transport transport organic substance transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process intracellular protein transport regulation of cellular process negative regulation of signaling signaling modulation of chemical synaptic transmission negative regulation of biological process negative regulation of synaptic transmission negative regulation of cell communication cell communication synaptic signaling negative regulation of cellular process regulation of biological quality regulation of synaptic plasticity trans-synaptic signaling regulation of signaling regulation of biological process biological regulation cell-cell signaling chemical synaptic transmission regulation of trans-synaptic signaling long-term synaptic depression anterograde trans-synaptic signaling regulation of cell communication	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region somatodendritic compartment cell body perikaryon neuronal cell body endosome membrane membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle intracellular membrane-bounded organelle recycling endosome endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle recycling endosome membrane vesicle membrane cytoplasmic vesicle cytoplasm vesicle organelle membrane early endosome early endosome membrane neuron spine neuron projection dendritic spine plasma membrane bounded cell projection cell projection dendrite dendritic tree cytosol
B, C	Beta-nerve growth factor	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 nerve growth factor receptor binding cytokine receptor binding neurotrophin receptor binding tumor necrosis factor receptor superfamily binding death receptor 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 nerve growth factor receptor binding cytokine receptor binding neurotrophin receptor binding tumor necrosis factor receptor superfamily binding death receptor binding enzyme regulator activity molecular function inhibitor activity peptidase regulator activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity metalloendopeptidase inhibitor activity endopeptidase inhibitor activity enzyme activator activity cysteine-type endopeptidase activator activity involved in apoptotic process cysteine-type endopeptidase regulator activity involved in apoptotic process peptidase activator activity peptidase activator activity involved in apoptotic process death receptor agonist activity protein tyrosine kinase activator activity transmembrane receptor protein tyrosine kinase activator activity protein kinase regulator activity kinase activator activity protein kinase activator activity kinase regulator activity lipid binding	regulation of molecular function positive regulation of molecular function regulation of DNA binding regulation of binding biological regulation positive regulation of binding positive regulation of DNA binding regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process regulation of molecular function positive regulation of molecular function regulation of DNA binding regulation of binding biological regulation positive regulation of binding positive regulation of DNA binding regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process axon extension multicellular organismal process positive regulation of nervous system development regulation of growth axonogenesis regulation of cellular component size developmental growth cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development positive regulation of cell projection organization regulation of biological quality positive regulation of developmental growth system development developmental process regulation of cell projection organization positive regulation of cell development nervous system development developmental growth involved in morphogenesis generation of neurons positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cellular developmental process regulation of developmental process plasma membrane bounded cell projection morphogenesis cell development cell growth cell morphogenesis regulation of axon extension cellular component organization regulation of nervous system development neurogenesis regulation of extent of cell growth positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of axon extension cellular component organization or biogenesis positive regulation of axonogenesis regulation of anatomical structure morphogenesis regulation of cell size neuron projection extension regulation of multicellular organismal development regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth growth positive regulation of cell growth axon development regulation of cell growth cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis positive regulation of growth neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-serine phosphorylation positive regulation of phosphate metabolic process peptidyl-serine modification regulation of primary metabolic process positive regulation of protein modification process peptidyl-serine phosphorylation regulation of phosphate metabolic process phosphate-containing compound metabolic process peptidyl-amino acid modification protein metabolic process positive regulation of protein phosphorylation phosphorus metabolic process protein modification process organonitrogen compound metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process primary metabolic process positive regulation of peptidyl-serine phosphorylation macromolecule modification regulation of phosphorus metabolic process regulation of phosphorylation behavior system process learning or memory nervous system process cognition memory regulation of stem cell proliferation cell population proliferation positive regulation of cell population proliferation positive regulation of stem cell proliferation stem cell proliferation regulation of cell population proliferation cellular response to stimulus extrinsic apoptotic signaling pathway via death domain receptors response to stimulus cell surface receptor signaling pathway signaling cell death extrinsic apoptotic signaling pathway cell communication apoptotic signaling pathway signal transduction apoptotic process programmed cell death regulation of localization cellular localization transport modulation of chemical synaptic transmission localization synaptic signaling regulation of secretion by cell secretion by cell signal release establishment of localization in cell trans-synaptic signaling regulation of signaling neurotransmitter secretion regulation of transport secretion regulation of neurotransmitter transport export from cell cell-cell signaling neurotransmitter transport establishment of localization regulation of secretion chemical synaptic transmission signal release from synapse regulation of trans-synaptic signaling regulation of neurotransmitter secretion anterograde trans-synaptic signaling regulation of cell communication positive regulation of neuron projection development signal transduction in absence of ligand extrinsic apoptotic signaling pathway in absence of ligand regulation of epithelial cell apoptotic process negative regulation of programmed cell death regulation of type B pancreatic cell apoptotic process regulation of apoptotic process negative regulation of biological process regulation of programmed cell death epithelial cell apoptotic process type B pancreatic cell apoptotic process negative regulation of type B pancreatic cell apoptotic process negative regulation of apoptotic process negative regulation of epithelial cell apoptotic process negative regulation of cellular process positive regulation of collateral sprouting regulation of collateral sprouting collateral sprouting nerve development positive regulation of cell maturation regulation of neuron maturation cell maturation regulation of cell maturation positive regulation of neuron maturation developmental maturation anatomical structure maturation neuron maturation regulation of neuron differentiation regulation of calcium ion transport intracellular calcium ion homeostasis calcium ion transport monoatomic cation homeostasis monoatomic cation transport intracellular monoatomic ion homeostasis regulation of release of sequestered calcium ion into cytosol regulation of monoatomic ion transport inorganic ion transmembrane transport inorganic cation transmembrane transport maintenance of location transmembrane transport release of sequestered calcium ion into cytosol regulation of transmembrane transport chemical homeostasis inorganic ion homeostasis homeostatic process monoatomic ion transmembrane transport calcium ion homeostasis regulation of monoatomic ion transmembrane transport negative regulation of sequestering of calcium ion metal ion transport maintenance of location in cell regulation of calcium ion transmembrane transport monoatomic cation transmembrane transport intracellular monoatomic cation homeostasis monoatomic ion homeostasis monoatomic ion transport intracellular chemical homeostasis regulation of metal ion transport regulation of sequestering of calcium ion calcium ion transmembrane import into cytosol sequestering of calcium ion cellular homeostasis regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport cellular response to growth factor stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus cellular response to endogenous stimulus nerve growth factor signaling pathway neurotrophin signaling pathway response to nerve growth factor response to growth factor rhythmic process circadian rhythm adult locomotory behavior adult behavior locomotory behavior positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling cell surface receptor protein tyrosine kinase signaling pathway positive regulation of neurotrophin TRK receptor signaling pathway enzyme-linked receptor protein signaling pathway regulation of cellular response to growth factor stimulus neurotrophin TRK receptor signaling pathway regulation of neurotrophin TRK receptor signaling pathway regulation of protein ubiquitination positive regulation of post-translational protein modification protein ubiquitination regulation of protein modification by small protein conjugation or removal positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of post-translational protein modification post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal neuron apoptotic process negative regulation of neuron apoptotic process regulation of neuron apoptotic process positive regulation of neuron differentiation peripheral nervous system development sensory perception sensory perception of pain small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction regulation of Ras protein signal transduction positive regulation of Ras protein signal transduction Ras protein signal transduction positive regulation of small GTPase mediated signal transduction protein autophosphorylation regulation of protein autophosphorylation positive regulation of protein autophosphorylation	somatodendritic compartment cell projection dendrite dendritic tree neuron projection cellular anatomical entity plasma membrane bounded cell projection membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen endoplasmic reticulum lumen somatodendritic compartment cell projection dendrite dendritic tree neuron projection cellular anatomical entity plasma membrane bounded cell projection membrane-bounded organelle intracellular anatomical structure membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen endoplasmic reticulum lumen intracellular organelle organelle lumen organelle endoplasmic reticulum cytoplasm axon extracellular region extracellular space transport vesicle synapse intracellular vesicle presynapse cytoplasmic vesicle synaptic vesicle cell junction secretory vesicle vesicle exocytic vesicle endosome endosome lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000601	PKD domain	Domain
A	IPR031777	Sortilin, C-terminal	Domain
A	IPR006581	VPS10	Domain
A	IPR035986	PKD domain superfamily	Homologous Superfamily
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR031778	Sortilin, N-terminal	Domain
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B, C	IPR029034	Cystine-knot cytokine	Homologous Superfamily
B, C	IPR002072	Nerve growth factor-related	Domain
B, C	IPR020408	Nerve growth factor-like	Family
B, C	IPR019846	Nerve growth factor conserved site	Conserved Site
B, C	IPR020437	Nerve growth factor, beta subunit, mammalian	Family
B, C	IPR020425	Nerve growth factor, beta subunit	Family

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 R01GM133198.