2YVC | pdb_00002yvc

Crystal structure of the Radixin FERM domain complexed with the NEP cytoplasmic tail

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)
C	d2yvcc1	All alpha proteins	Acyl-CoA binding protein-like	Second domain of FERM	Second domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2yvcc2	All beta proteins	PH domain-like barrel	PH domain-like	Third domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2yvcc3	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	First domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2yvcb1	All alpha proteins	Acyl-CoA binding protein-like	Second domain of FERM	Second domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2yvcb2	All beta proteins	PH domain-like barrel	PH domain-like	Third domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2yvcb3	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	First domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2yvcb4	Artifacts	Tags	Tags	Tags	N-terminal Tags	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2yvca1	All alpha proteins	Acyl-CoA binding protein-like	Second domain of FERM	Second domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2yvca2	All beta proteins	PH domain-like barrel	PH domain-like	Third domain of FERM	Radixin	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2yvca3	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	First domain of FERM	Radixin	mouse (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)
C	SCOP2B Superfamily	Ubiquitin-like	8038750	3000157	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PH domain-like	8038751	3000134	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	FERM central domain-like	8038749	3001227	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FERM central domain-like	8038749	3001227	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PH domain-like	8038751	3000134	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ubiquitin-like	8038750	3000157	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ubiquitin-like	8038750	3000157	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FERM central domain-like	8038749	3001227	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PH domain-like	8038751	3000134	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	e2yvcC1	A: Cloacin translocation domain	X: Cloacin translocation domain	H: Cloacin translocation domain	T: Urease_alpha	F:	ECOD (20:10:01)
C	e2yvcC2	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: p53 tetramerization domain	H: p53 tetramerization domain	T: Cation_efflux	F:	ECOD (20:10:01)
C	e2yvcC3	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: DUF3197	F:	ECOD (20:10:01)
B	e2yvcB1	A: Cloacin translocation domain	X: Cloacin translocation domain	H: Cloacin translocation domain	T: Urease_alpha	F:	ECOD (20:10:01)
B	e2yvcB2	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: p53 tetramerization domain	H: p53 tetramerization domain	T: Cation_efflux	F:	ECOD (20:10:01)
B	e2yvcB3	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: DUF3197	F:	ECOD (20:10:01)
A	e2yvcA1	A: Cloacin translocation domain	X: Cloacin translocation domain	H: Cloacin translocation domain	T: Urease_alpha	F:	ECOD (20:10:01)
A	e2yvcA2	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: p53 tetramerization domain	H: p53 tetramerization domain	T: Cation_efflux	F:	ECOD (20:10:01)
A	e2yvcA3	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: DUF3197	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
C	1.20.80.10	Mainly Alpha	Up-down Bundle	Acyl-CoA Binding Protein		CATH (4.3.0)
C	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
B	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
B	1.20.80.10	Mainly Alpha	Up-down Bundle	Acyl-CoA Binding Protein		CATH (4.3.0)
B	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
A	1.20.80.10	Mainly Alpha	Up-down Bundle	Acyl-CoA Binding Protein		CATH (4.3.0)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF09379	FERM N-terminal domain (FERM_N)	FERM N-terminal domain	This domain is the N-terminal ubiquitin-like structural domain of the FERM domain.	Domain
A, B, C	PF09380	FERM C-terminal PH-like domain (FERM_C)	FERM C-terminal PH-like domain		Domain
A, B, C	PF00373	FERM central domain (FERM_M)	FERM central domain	This domain is the central structural domain of the FERM domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, E, F	Neprilysin	peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity ion binding binding anion binding phosphatidylglycerol binding phospholipid binding lipid binding cardiolipin binding small molecule binding metallocarboxypeptidase activity peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity ion binding binding anion binding phosphatidylglycerol binding phospholipid binding lipid binding cardiolipin binding small molecule binding metallocarboxypeptidase activity exopeptidase activity metalloexopeptidase activity carboxypeptidase activity endopeptidase activity modified amino acid binding phosphatidylserine binding metalloendopeptidase activity identical protein binding protein binding protein homodimerization activity protein dimerization activity oligopeptidase activity peptide binding cation binding transition metal ion binding zinc ion binding metal ion binding	multicellular organismal process catabolic process amyloid-beta metabolic process amyloid-beta clearance by cellular catabolic process metabolic process cellular process amyloid-beta clearance developmental process placenta development animal organ development anatomical structure development replicative senescence cell cycle cell cycle process multicellular organismal process catabolic process amyloid-beta metabolic process amyloid-beta clearance by cellular catabolic process metabolic process cellular process amyloid-beta clearance developmental process placenta development animal organ development anatomical structure development replicative senescence cell cycle cell cycle process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic process behavior system process learning or memory nervous system process cognition memory neuropeptide catabolic process substance P catabolic process peptide metabolic process peptide catabolic process creatinine metabolic process small molecule metabolic process lactam metabolic process cellular response to stimulus response to light stimulus response to stimulus cellular response to radiation response to UV response to UV-B cellular response to environmental stimulus cellular response to UV-B cellular response to light stimulus response to radiation response to abiotic stimulus cellular response to abiotic stimulus cellular response to UV positive regulation of nervous system development regulation of cellular process regulation of developmental process cellular developmental process positive regulation of biological process cell development regulation of cell differentiation regulation of neurogenesis regulation of cell development regulation of nervous system development positive regulation of developmental process multicellular organism development neurogenesis positive regulation of cell differentiation cell differentiation positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of cellular process system development regulation of multicellular organismal development regulation of biological process biological regulation positive regulation of cell development nervous system development positive regulation of multicellular organismal process bradykinin catabolic process multicellular organism growth developmental growth growth kidney development renal system development regulation of systemic arterial blood pressure by renin-angiotensin regulation of systemic arterial blood pressure by hormone peptide hormone processing regulation of systemic arterial blood pressure mediated by a chemical signal signaling receptor ligand precursor processing protein maturation circulatory system process proteolysis regulation of biological quality blood circulation regulation of blood pressure regulation of hormone levels regulation of systemic arterial blood pressure by circulatory renin-angiotensin gene expression macromolecule biosynthetic process hormone metabolic process regulation of systemic arterial blood pressure endocrine process biosynthetic process regulation of angiotensin levels in blood protein processing angiotensin maturation head development forebrain development brain development pallium development central nervous system development telencephalon development hippocampus development limbic system development response to hormone response to endogenous stimulus response to chemical response to estrogen positive regulation of cell communication modulation of chemical synaptic transmission signaling cell communication long-term synaptic potentiation synaptic signaling positive regulation of long-term synaptic potentiation regulation of synaptic plasticity trans-synaptic signaling regulation of signaling cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of long-term synaptic potentiation regulation of cell communication positive regulation of signaling tube development respiratory tube development lung development respiratory system development neuropeptide processing hormone catabolic process sensory perception sensory perception of pain cellular response to UV-A response to UV-A amygdala development response to peptide response to cytokine cellular response to cytokine stimulus	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol apical part of cell cluster of actin-based cell projections brush border somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol apical part of cell cluster of actin-based cell projections brush border somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection membrane-bounded organelle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle trans-Golgi network cell body neuronal cell body axon transport vesicle synapse intracellular vesicle presynapse cytoplasmic vesicle synaptic vesicle cell junction secretory vesicle vesicle exocytic vesicle intracellular membraneless organelle cilium ciliary basal body microtubule organizing center cytoskeleton membraneless organelle microtubule cytoskeleton centrosome cell periphery plasma membrane membrane microdomain membrane raft nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen early endosome endosome neuron projection terminus extracellular region
A, B, C	Radixin	protein kinase A binding protein binding binding ATPase binding enzyme binding protein domain specific binding cell adhesion molecule binding cytoskeletal protein binding actin 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 regulation of cellular component organization organelle assembly regulation of cellular component biogenesis regulation of organelle organization cellular component biogenesis cellular component organization organelle organization cellular component assembly regulation of organelle assembly cellular component organization or biogenesis localization protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization intracellular protein localization localization within membrane protein localization to membrane regulation of cell cycle phase transition cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition mitotic cell cycle regulation of mitotic cell cycle positive regulation of mitotic cell cycle phase transition positive regulation of cell cycle process positive regulation of mitotic cell cycle cell cycle regulation of cell cycle cell cycle process positive regulation of G1/S transition of mitotic cell cycle regulation of cell cycle process positive regulation of cell cycle regulation of mitotic cell cycle phase transition positive regulation of cell cycle G1/S phase transition mitotic cell cycle process regulation of G1/S transition of mitotic cell cycle positive regulation of cell cycle phase transition G1/S transition of mitotic cell cycle mitotic cell cycle phase transition plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly microvillus organization microvillus assembly cell projection assembly cellular response to stimulus response to thyroid hormone response to stimulus response to endogenous stimulus cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular response to thyroid hormone stimulus cellular response to hormone stimulus regulation of localization regulation of postsynaptic neurotransmitter receptor diffusion trapping neurotransmitter receptor diffusion trapping regulation of postsynaptic membrane neurotransmitter receptor levels regulation of cellular localization receptor diffusion trapping regulation of biological quality receptor localization to synapse postsynaptic neurotransmitter receptor diffusion trapping regulation of receptor localization to synapse adherens junction organization regulation of adherens junction organization cell junction organization cell-cell junction organization regulation of cellular component size negative regulation of biological process protein-containing complex disassembly regulation of protein-containing complex disassembly actin filament depolymerization regulation of actin filament depolymerization actin filament capping actin filament-based process negative regulation of supramolecular fiber organization negative regulation of actin filament polymerization cellular component disassembly barbed-end actin filament capping negative regulation of cellular component organization actin filament organization negative regulation of protein depolymerization negative regulation of protein-containing complex assembly regulation of protein polymerization regulation of supramolecular fiber organization supramolecular fiber organization regulation of cytoskeleton organization regulation of actin filament-based process regulation of protein-containing complex assembly negative regulation of protein-containing complex disassembly negative regulation of cellular process protein-containing complex assembly negative regulation of protein polymerization regulation of actin filament polymerization actin polymerization or depolymerization protein polymerization regulation of actin filament organization actin cytoskeleton organization actin filament polymerization protein-containing complex organization regulation of protein depolymerization negative regulation of cytoskeleton organization regulation of actin polymerization or depolymerization negative regulation of organelle organization regulation of actin filament length regulation of actin cytoskeleton organization negative regulation of actin filament depolymerization protein depolymerization cytoskeleton organization regulation of anatomical structure size apical protein localization cellular response to growth factor stimulus cellular response to platelet-derived growth factor stimulus response to growth factor response to platelet-derived growth factor establishment of protein localization establishment of localization regulation of signaling small GTPase-mediated signal transduction signaling regulation of small GTPase mediated signal transduction regulation of signal transduction regulation of Rap protein signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette regulation of cell communication signal transduction Rap protein signal transduction catabolic process positive regulation of protein metabolic process macromolecule catabolic process regulation of primary metabolic process protein metabolic process regulation of protein metabolic process primary metabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process regulation of protein catabolic process positive regulation of protein localization to early endosome regulation of protein localization protein localization to endosome protein localization to early endosome regulation of protein localization to endosome protein localization to organelle positive regulation of protein localization positive regulation of protein localization to endosome regulation of protein localization to early endosome developmental process regulation of developmental process regulation of cell shape cell morphogenesis regulation of cell morphogenesis anatomical structure morphogenesis anatomical structure development regulation of anatomical structure morphogenesis epithelium development endothelial cell differentiation cellular developmental process endothelium development cell development tissue development epithelial cell differentiation endothelial cell development epithelial cell development cell differentiation establishment of endothelial barrier establishment of protein localization to membrane establishment of protein localization to plasma membrane positive regulation of early endosome to late endosome transport transport vesicle-mediated transport establishment of localization in cell positive regulation of intracellular transport regulation of intracellular transport regulation of transport intracellular transport regulation of vesicle-mediated transport endosomal transport vesicle-mediated transport between endosomal compartments regulation of early endosome to late endosome transport early endosome to late endosome transport positive regulation of transport	cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery sarcolemma plasma membrane membrane T-tubule apical part of cell stereocilium base stereocilium actin-based cell projection cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery sarcolemma plasma membrane membrane T-tubule apical part of cell stereocilium base stereocilium actin-based cell projection organelle stereocilium bundle neuron projection cluster of actin-based cell projections intracellular anatomical structure cytoplasm cytosol cell-cell junction adherens junction anchoring junction cell junction ruffle microvillus filopodium midbody cell tip cell pole focal adhesion cell-substrate junction myelin sheath plasma membrane region apical plasma membrane cell division site cleavage furrow cell cortex cortical cytoskeleton intracellular membraneless organelle actin cytoskeleton intracellular organelle cytoskeleton membraneless organelle cortical actin cytoskeleton

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, E, F	IPR018497	Peptidase M13, C-terminal domain	Domain
D, E, F	IPR008753	Peptidase M13, N-terminal domain	Domain
D, E, F	IPR000718	Peptidase M13	Family
D, E, F	IPR024079	Metallopeptidase, catalytic domain superfamily	Homologous Superfamily
D, E, F	IPR042089	Peptidase M13, domain 2	Homologous Superfamily
A, B, C	IPR000299	FERM domain	Domain
A, B, C	IPR019748	FERM central domain	Domain
A, B, C	IPR018980	FERM, C-terminal PH-like domain	Domain
A, B, C	IPR000798	Ezrin/radixin/moesin-like	Family
A, B, C	IPR008954	Moesin tail domain superfamily	Homologous Superfamily
A, B, C	IPR035963	FERM superfamily, second domain	Homologous Superfamily
A, B, C	IPR011259	Ezrin/radixin/moesin, C-terminal	Domain
A, B, C	IPR019747	FERM conserved site	Conserved Site
A, B, C	IPR018979	FERM, N-terminal	Domain
A, B, C	IPR014352	FERM/acyl-CoA-binding protein superfamily	Homologous Superfamily
A, B, C	IPR041789	ERM family, FERM domain C-lobe	Domain
A, B, C	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B, C	IPR046810	Ezrin/radixin/moesin, alpha-helical domain	Domain
A, B, C	IPR019749	Band 4.1 domain	Domain
A, B, C	IPR011174	Ezrin/radixin/moesin	Family
A, B, C	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily