1SGF | pdb_00001sgf

CRYSTAL STRUCTURE OF 7S NGF: A COMPLEX OF NERVE GROWTH FACTOR WITH FOUR BINDING PROTEINS (SERINE PROTEINASES)

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth Z]	d1sgfz_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Eukaryotic proteases	7S NGF protease subunits	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth G]	d1sgfg_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Eukaryotic proteases	7S NGF protease subunits	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth Y]	d1sgfy_	Small proteins	Cystine-knot cytokines	Cystine-knot cytokines	Neurotrophin	beta-Nerve growth factor	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1sgfb_	Small proteins	Cystine-knot cytokines	Cystine-knot cytokines	Neurotrophin	beta-Nerve growth factor	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth X]	d1sgfx_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Eukaryotic proteases	7S NGF protease subunits	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1sgfa_	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Eukaryotic proteases	7S NGF protease subunits	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth Y]	SCOP2B Superfamily	Cystine-knot cytokines	8038790	3000846	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cystine-knot cytokines	8038790	3000846	SCOP2B (2022-06-29)
D [auth X]	SCOP2B Superfamily	Trypsin-like serine proteases	8042230	3000114	SCOP2B (2022-06-29)
A	SCOP2 Family	Eukaryotic proteases	8029851	4000286	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Trypsin-like serine proteases	8042230	3000114	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)
F [auth Z]	Peptidase_C4	e1sgfZ1	A: alpha bundles	X: Cloacin translocation domain	H: LigT-related	T: LigT-related	F: Peptidase_C4	ECOD (develop294)
C [auth G]	Peptidase_C4	e1sgfG1	A: alpha bundles	X: Cloacin translocation domain	H: LigT-related	T: LigT-related	F: Peptidase_C4	ECOD (develop294)
E [auth Y]	zf-C2H2	e1sgfY1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: zf-C2H2	ECOD (develop294)
B	zf-C2H2	e1sgfB1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: zf-C2H2	ECOD (develop294)
D [auth X]	Peptidase_C4	e1sgfX1	A: alpha bundles	X: Cloacin translocation domain	H: LigT-related	T: LigT-related	F: Peptidase_C4	ECOD (develop294)
A	Peptidase_C4	e1sgfA1	A: alpha bundles	X: Cloacin translocation domain	H: LigT-related	T: LigT-related	F: Peptidase_C4	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth Z]	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
C [auth G]	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
E [auth Y]	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)
D [auth X]	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
A	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth G], F [auth Z]	PF00089	Trypsin (Trypsin)	Trypsin		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth G], F [auth Z]	NERVE GROWTH FACTOR	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity cation binding ion binding binding metal ion binding small molecule binding	multicellular organismal process system process regulation of systemic arterial blood pressure circulatory system process regulation of blood pressure biological regulation regulation of biological quality blood circulation zymogen activation primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process multicellular organismal process system process regulation of systemic arterial blood pressure circulatory system process regulation of blood pressure biological regulation regulation of biological quality blood circulation zymogen activation primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process	cellular anatomical structure apical part of cell membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle cellular anatomical structure apical part of cell membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle extracellular region extracellular space nucleus acrosomal vesicle
B, E [auth Y]	NERVE GROWTH FACTOR	molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity protein binding binding signaling receptor binding nerve growth factor receptor binding cytokine receptor binding neurotrophin receptor binding tumor necrosis factor receptor superfamily binding death receptor binding molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity protein binding binding signaling receptor binding 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 biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological 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 biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological 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 cellular process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process cell population proliferation 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 cellular component organization regulation of axon extension 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 positive regulation of growth anatomical structure morphogenesis neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size behavior system process learning or memory nervous system process cognition memory regulation of stem cell 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 cell proliferation in forebrain head development forebrain development animal organ development brain development central nervous system development neural precursor cell proliferation 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 sensory perception of hot stimulus thermoception sensory perception sensory perception of temperature stimulus 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 monoatomic ion transmembrane transport regulation of monoatomic ion transmembrane transport calcium ion transport metal ion transport regulation of calcium ion transmembrane transport monoatomic cation transmembrane transport monoatomic ion transport monoatomic cation transport regulation of metal ion transport calcium ion transmembrane import into cytosol regulation of release of sequestered calcium ion into cytosol regulation of monoatomic ion transport transmembrane transport release of sequestered calcium ion into cytosol regulation of transmembrane transport 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 modification process positive regulation of protein metabolic process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of protein modification process protein ubiquitination protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of post-translational protein modification regulation of protein metabolic process primary metabolic process macromolecule modification post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction 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 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	somatodendritic compartment cell projection cellular anatomical structure dendrite dendritic tree neuron projection 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 cellular anatomical structure dendrite dendritic tree neuron projection 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
A, D [auth X]	NERVE GROWTH FACTOR	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity cation binding ion binding binding metal ion binding small molecule binding	multicellular organismal process system process regulation of systemic arterial blood pressure circulatory system process regulation of blood pressure biological regulation regulation of biological quality blood circulation cellular response to stimulus positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of cellular process positive regulation of signal transduction response to stimulus multicellular organismal process system process regulation of systemic arterial blood pressure circulatory system process regulation of blood pressure biological regulation regulation of biological quality blood circulation cellular response to stimulus positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of cellular process positive regulation of signal transduction response to stimulus signaling 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 positive regulation of cellular process regulation of biological process regulation of signaling positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of response to stimulus regulation of cell communication cellular process phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signaling zymogen activation primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process protein metabolic process macromolecule metabolic process small GTPase-mediated signal transduction	cellular anatomical structure apical part of cell membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle cellular anatomical structure apical part of cell membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle extracellular region extracellular space nucleus acrosomal vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth G], F [auth Z]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
C [auth G], F [auth Z]	IPR001314	Peptidase S1A, chymotrypsin family	Family
C [auth G], F [auth Z]	IPR033116	Serine proteases, trypsin family, serine active site	Active Site
C [auth G], F [auth Z]	IPR001254	Serine proteases, trypsin domain	Domain
C [auth G], F [auth Z]	IPR018114	Serine proteases, trypsin family, histidine active site	Active Site
C [auth G], F [auth Z]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
B, E [auth Y]	IPR029034	Cystine-knot cytokine	Homologous Superfamily
B, E [auth Y]	IPR002072	Nerve growth factor-related	Domain
B, E [auth Y]	IPR020408	Nerve growth factor-like	Family
B, E [auth Y]	IPR019846	Nerve growth factor conserved site	Conserved Site
B, E [auth Y]	IPR020437	Nerve growth factor, beta subunit, mammalian	Family
B, E [auth Y]	IPR020425	Nerve growth factor, beta subunit	Family
A, D [auth X]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, D [auth X]	IPR001314	Peptidase S1A, chymotrypsin family	Family
A, D [auth X]	IPR001254	Serine proteases, trypsin domain	Domain
A, D [auth X]	IPR018114	Serine proteases, trypsin family, histidine active site	Active Site
A, D [auth X]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown

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.