4KP3 | pdb_00004kp3

Crystal Structure of MyoVa-GTD in Complex with Two Cargos

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
A	d4kp3a_	All alpha proteins	alpha-alpha superhelix	DIL domain-like	DIL domains from class V myosins	MyoVa globular tail domain (GTD)	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth B]	d4kp3b_	All alpha proteins	alpha-alpha superhelix	DIL domain-like	DIL domains from class V myosins	MyoVa globular tail domain (GTD)	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth C]	Kunitz_BPTI	e4kp3C1	A: a/b three-layered sandwiches	X: C-terminal domain in some PLP-dependent transferases	H: C-terminal domain in some PLP-dependent transferases	T: C-terminal domain in some PLP-dependent transferases	F: Kunitz_BPTI	ECOD (v294.1)
E [auth D]	RH1	e4kp3D1	A: a/b three-layered sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: RH1	ECOD (v294.1)
A	MIR	e4kp3A3	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: MIR	ECOD (v294.1)
D [auth B]	MCD_N	e4kp3B1	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Family A G protein-coupled receptor-like	F: MCD_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	1.20.58.1770	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
E [auth D]	1.20.58.1770	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C], E [auth D]	PF09744	RILP homology 1 domain (RH1)	RILP homology 1 domain	This is the RILP homology 1 (RH1) protein-protein interaction domain found at the N-terminal of Rab36-binding proteins including Rab interacting lysosomal proteins (RILP), RILP1/2 NK-interacting protein 3 (JIP3) and NK-interacting protein 4 (JIP4). T ...	This is the RILP homology 1 (RH1) protein-protein interaction domain found at the N-terminal of Rab36-binding proteins including Rab interacting lysosomal proteins (RILP), RILP1/2 NK-interacting protein 3 (JIP3) and NK-interacting protein 4 (JIP4). This domain binds to the myosin Va globular tail domain (MyoVa-GTD) [1].	Domain
A, D [auth B]	PF01843	DIL domain (DIL)	DIL domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C], E [auth D]	RILP-like protein 2	small GTPase binding protein binding binding enzyme binding GTPase binding dynein light intermediate chain binding protein dimerization activity identical protein binding	cellular localization establishment of protein localization transport establishment of protein localization to plasma membrane protein transport within lipid bilayer cellular component organization localization establishment of localization in cell cellular component organization or biogenesis intracellular protein localization membrane organization protein localization to cell periphery establishment of protein localization to membrane protein localization to plasma membrane cellular localization establishment of protein localization transport establishment of protein localization to plasma membrane protein transport within lipid bilayer cellular component organization localization establishment of localization in cell cellular component organization or biogenesis intracellular protein localization membrane organization protein localization to cell periphery establishment of protein localization to membrane protein localization to plasma membrane intracellular transport localization within membrane protein localization to membrane establishment of localization protein transport from ciliary membrane to plasma membrane protein transport macromolecule localization cellular process intracellular protein transport developmental process epithelium development cellular developmental process cell development tissue development cell morphogenesis epithelial cell differentiation anatomical structure morphogenesis epithelial cell development epithelial cell morphogenesis cell differentiation anatomical structure development organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis organelle organization cellular component assembly cilium assembly cilium organization cell projection assembly	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection membrane intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection membrane intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol ciliary basal body
C [auth E], F	Melanophilin	small GTPase binding protein binding binding enzyme binding GTPase binding protein-macromolecule adaptor activity molecular adaptor activity cytoskeletal protein binding actin binding myosin binding myosin V binding microtubule plus-end binding microtubule binding tubulin binding small GTPase binding protein binding binding enzyme binding GTPase binding protein-macromolecule adaptor activity molecular adaptor activity cytoskeletal protein binding actin binding myosin binding myosin V binding microtubule plus-end binding microtubule binding tubulin binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	developmental process pigment cell differentiation pigmentation cellular developmental process cell differentiation developmental pigmentation melanocyte differentiation cellular process cellular localization establishment of protein localization transport intracellular transport establishment of localization localization developmental process pigment cell differentiation pigmentation cellular developmental process cell differentiation developmental pigmentation melanocyte differentiation cellular process cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport vesicle localization pigment granule localization organelle localization cellular pigmentation melanosome localization protein targeting	membrane-bounded organelle intracellular anatomical structure pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cytoskeleton membraneless organelle membrane-bounded organelle intracellular anatomical structure pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cytoskeleton membraneless organelle intracellular membraneless organelle actin cytoskeleton somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection protein-containing complex myosin complex unconventional myosin complex cell cortex cortical cytoskeleton cell periphery cortical actin cytoskeleton actin filament bundle actomyosin stress fiber contractile actin filament bundle microtubule organizing center microtubule cytoskeleton perinuclear region of cytoplasm
A, D [auth B]	Unconventional myosin-Va	small GTPase binding protein binding binding enzyme binding GTPase binding cytoskeletal protein binding actin binding protein-containing complex binding actin filament binding cytoskeletal motor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding small GTPase binding protein binding binding enzyme binding GTPase binding cytoskeletal protein binding actin binding protein-containing complex binding actin filament binding cytoskeletal motor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding calmodulin binding identical protein binding cation binding calcium ion binding metal ion binding syntaxin-1 binding SNARE binding syntaxin binding ATP-dependent protein binding kinase binding protein kinase binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity calcium-dependent protein binding disordered domain specific binding protein domain specific binding polypeptide conformation or assembly isomerase activity isomerase activity microfilament motor activity macromolecular conformation isomerase activity	vesicle localization localization organelle localization secretory granule localization post-Golgi vesicle-mediated transport transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport positive regulation of protein localization to plasma membrane regulation of localization cellular localization regulation of cellular process vesicle localization localization organelle localization secretory granule localization post-Golgi vesicle-mediated transport transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport positive regulation of protein localization to plasma membrane regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery regulation of biological process protein localization to cell periphery protein localization to plasma membrane biological regulation positive regulation of protein localization to membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of cellular localization macromolecule localization positive regulation of protein localization regulation of protein localization to plasma membrane pigment metabolic process pigment biosynthetic process melanin metabolic process secondary metabolic process biosynthetic process secondary metabolite biosynthetic process phenol-containing compound metabolic process phenol-containing compound biosynthetic process metabolic process melanin biosynthetic process monoamine transport nitrogen compound transport negative regulation of amine transport regulation of catecholamine secretion signaling negative regulation of biological process negative regulation of transport organic hydroxy compound transport dopamine transport cell communication secretion by cell regulation of secretion by cell negative regulation of secretion catecholamine transport negative regulation of dopamine secretion signal release negative regulation of cellular process negative regulation of secretion by cell secretion regulation of transport export from cell cell-cell signaling negative regulation of catecholamine secretion dopamine secretion regulation of secretion catecholamine secretion amine transport regulation of amine transport regulation of dopamine secretion amine metabolic process catecholamine metabolic process dopamine metabolic process catechol-containing compound metabolic process biogenic amine metabolic process pigmentation developmental pigmentation developmental process anatomical structure morphogenesis odontogenesis anatomical structure development animal organ development animal organ morphogenesis establishment of organelle localization establishment of melanosome localization establishment of vesicle localization cellular pigmentation pigment granule transport establishment of pigment granule localization pigment granule localization establishment of localization in cell melanosome transport melanosome localization negative regulation of signaling modulation of chemical synaptic transmission synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic negative regulation of synaptic transmission negative regulation of cell communication synaptic signaling trans-synaptic signaling regulation of signaling chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication negative regulation of synaptic transmission, glutamatergic cellular component organization organelle organization actin cytoskeleton organization actin filament organization actin filament-based process cellular component organization or biogenesis supramolecular fiber organization cytoskeleton organization actin filament-based movement establishment of protein localization hormone secretion protein localization to extracellular region peptide secretion regulation of biological quality regulation of hormone levels establishment of protein localization to extracellular region protein secretion peptide transport protein transport peptide hormone secretion hormone transport insulin secretion response to stimulus defense response response to stress reactive gliosis inflammatory response neuroinflammatory response cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly protein transport along microtubule axo-dendritic protein transport microtubule-based protein transport intracellular transport axo-dendritic transport microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process intracellular protein transport inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis regulation of postsynaptic cytosolic calcium ion concentration regulation of cytosolic calcium ion concentration cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis import into cell endocytosis pigment cell differentiation cellular developmental process cell differentiation melanocyte differentiation establishment of ER localization endoplasmic reticulum localization endoplasmic reticulum organization establishment of endoplasmic reticulum localization to postsynapse endomembrane system organization cellular response to stimulus cellular response to nitrogen compound response to peptide hormone regulation of cellular response to insulin stimulus positive regulation of response to stimulus cellular response to endogenous stimulus response to hormone positive regulation of cellular response to insulin stimulus cellular response to hormone stimulus response to endogenous stimulus response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus regulation of response to stimulus response to chemical response to insulin cellular response to insulin stimulus cell junction organization synapse organization regulation of vascular associated smooth muscle cell migration positive regulation of locomotion vascular associated smooth muscle cell migration regulation of cell motility regulation of smooth muscle cell migration positive regulation of smooth muscle cell migration positive regulation of cell migration smooth muscle cell migration muscle cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion positive regulation of vascular associated smooth muscle cell migration catabolic process macroautophagy autophagy process utilizing autophagic mechanism multicellular organismal process epithelium development epidermis development molting cycle process hair cycle developmental maturation tissue development skin development anatomical structure maturation skin epidermis development hair follicle development molting cycle hair cycle process hair follicle maturation sensory perception of light stimulus system process sensory perception nervous system process visual perception regulation of vesicle-mediated transport exocytosis regulation of exocytosis behavior locomotory behavior locomotion involved in locomotory behavior myelination multicellular organism development axon ensheathment ensheathment of neurons nervous system development system development vesicle transport along actin filament vesicle cytoskeletal trafficking actin filament-based transport fatty acid metabolic process long-chain fatty acid metabolic process monocarboxylic acid biosynthetic process oxoacid metabolic process small molecule biosynthetic process long-chain fatty acid biosynthetic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid metabolic process organic acid biosynthetic process fatty acid biosynthetic process carboxylic acid biosynthetic process small molecule metabolic process monocarboxylic acid metabolic process lipid metabolic process	cellular anatomical structure membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton actomyosin cytoplasm cytosol membrane-bounded organelle intracellular vesicle cellular anatomical structure membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton actomyosin cytoplasm cytosol membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle endomembrane system cytoplasmic vesicle secretory granule secretory vesicle vesicle endoplasmic reticulum smooth endoplasmic reticulum somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection protein-containing complex myosin complex synapse cell junction glutamatergic synapse non-motile cilium 9+0 non-motile cilium cilium photoreceptor outer segment photoreceptor cell cilium unconventional myosin complex Golgi apparatus endosome recycling endosome ruffle cell leading edge cell body neuronal cell body axon actomyosin, myosin complex part insulin-responsive compartment postsynapse transport vesicle presynapse synaptic vesicle exocytic vesicle postsynaptic cytoskeleton postsynaptic actin cytoskeleton pigment granule melanosome polymeric cytoskeletal fiber intermediate filament cytoskeleton intermediate filament supramolecular fiber supramolecular polymer supramolecular complex filopodium tip actin-based cell projection filopodium Schaffer collateral - CA1 synapse ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C], E [auth D]	IPR034744	RH2 domain	Domain
B [auth C], E [auth D]	IPR034743	RH1 domain	Domain
B [auth C], E [auth D]	IPR021563	Rab interacting lysosomal protein, dimerization domain	Domain
B [auth C], E [auth D]	IPR051241	DZIP and RILPL	Family
C [auth E], F	IPR006788	Rab effector MyRIP/Melanophilin	Domain
C [auth E], F	IPR010911	Rab-binding domain	Domain
C [auth E], F	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
C [auth E], F	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
C [auth E], F	IPR051745	Intracellular Transport Effector	Family
C [auth E], F	IPR041282	FYVE-type zinc finger	Domain
C [auth E], F	IPR037442	Melanophilin, FYVE-related domain	Domain
A, D [auth B]	IPR002710	Dilute domain	Domain
A, D [auth B]	IPR000048	IQ motif, EF-hand binding site	Binding Site
A, D [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, D [auth B]	IPR004009	Myosin, SH3 domain	Domain
A, D [auth B]	IPR058662	Unconventional myosin-Va/b domain	Domain
A, D [auth B]	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
A, D [auth B]	IPR001609	Myosin head, motor domain-like	Domain
A, D [auth B]	IPR036103	Class V myosin, motor domain	Domain
A, D [auth B]	IPR037988	Myosin 5a, cargo-binding domain	Domain