6J56

Crystal structure of Myosin VI CBD in complex with Tom1 MBM

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Myosin VI cargo binding domain-like	8094330	4004627	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Myosin VI CBD-like	8094331	3002524	SCOP2 (2022-06-29)
C [auth B]	SCOP2B Superfamily	Myosin VI CBD-like	8094331	3002524	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	PF16521	e6j56A1	A: a+b complex topology	X: Myosin VI cargo binding domain (From Topology)	H: Myosin VI cargo binding domain (From Topology)	T: Myosin VI cargo binding domain	F: PF16521	ECOD (1.6)
C [auth B]	PF16521	e6j56B1	A: a+b complex topology	X: Myosin VI cargo binding domain (From Topology)	H: Myosin VI cargo binding domain (From Topology)	T: Myosin VI cargo binding domain	F: PF16521	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	PF16521	Myosin VI cargo binding domain (Myosin-VI_CBD)	Myosin VI cargo binding domain	Myosin-VI_CBD is a C-terminal family that allows unconventional myosin-VI to recognise and select its binding cargoes. Several adaptor proteins have been reported to interact specifically with the CBD, thus defining the specific subcellular functions ...	Myosin-VI_CBD is a C-terminal family that allows unconventional myosin-VI to recognise and select its binding cargoes. Several adaptor proteins have been reported to interact specifically with the CBD, thus defining the specific subcellular functions of myosin VI. The crystal structure determination of the myosin VI CBD/Dab2 (an endocytic adaptor protein Disabled-2 that is a cargo) complex shows that the Myosin-VI_CBD forms a cargo-induced dimer, suggesting that the motor undergoes monomer-to-dimer conversion that is dependent upon cargo binding. In the absence of cargo myosin VI exists as a stable monomer. This cargo binding-mediated monomer-to-dimer conversion mechanism adopted by myosin VI may be shared by other unconventional myosins, such as myosin VII and myosin X [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B]	Unconventional myosin-VI	cytoskeletal protein binding actin binding protein-containing complex binding protein binding 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 cytoskeletal protein binding actin binding protein-containing complex binding protein binding 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 organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ADP binding calmodulin binding identical protein binding minus-end directed microfilament motor activity microfilament motor activity ATP-dependent activity	response to stimulus response to chemical response to xenobiotic stimulus multicellular organismal process system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus cellular developmental process sensory organ development epidermis development epithelial cell differentiation hair cell differentiation response to stimulus response to chemical response to xenobiotic stimulus multicellular organismal process system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus cellular developmental process sensory organ development epidermis development epithelial cell differentiation hair cell differentiation neurogenesis multicellular organism development neuron differentiation inner ear development cell differentiation anatomical structure development system development developmental process mechanoreceptor differentiation epithelium development epidermal cell differentiation ear development animal organ development inner ear auditory receptor cell differentiation nervous system development tissue development inner ear receptor cell differentiation generation of neurons cellular process 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 ear morphogenesis embryonic organ morphogenesis embryonic morphogenesis embryo development anatomical structure morphogenesis sensory organ morphogenesis inner ear morphogenesis animal organ morphogenesis embryonic organ development localization import into cell transport endocytosis establishment of localization vesicle-mediated transport protein localization cellular localization establishment of protein localization nitrogen compound transport organic substance transport intracellular transport protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization intracellular protein transport regulation of localization regulation of biological process regulation of transport secretion biological regulation regulation of secretion cellular response to stimulus regulation of cellular process signaling signal transduction by p53 class mediator DNA damage response, signal transduction by p53 class mediator intracellular signal transduction cell communication cellular response to stress DNA damage response response to stress signal transduction in response to DNA damage signal transduction vesicle transport along actin filament vesicle cytoskeletal trafficking vesicle localization establishment of organelle localization establishment of vesicle localization organelle localization cytoskeleton-dependent intracellular transport actin filament-based transport	clathrin-coated pit membrane cellular anatomical entity endomembrane system apical part of cell membrane-bounded organelle intracellular anatomical structure nuclear membrane nucleus intracellular membrane-bounded organelle intracellular organelle organelle envelope organelle nuclear envelope clathrin-coated pit membrane cellular anatomical entity endomembrane system apical part of cell membrane-bounded organelle intracellular anatomical structure nuclear membrane nucleus intracellular membrane-bounded organelle intracellular organelle organelle envelope organelle nuclear envelope organelle membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoskeleton intracellular non-membrane-bounded organelle actin cytoskeleton non-membrane-bounded organelle cytoplasm cytosol intracellular vesicle cytoplasmic vesicle endocytic vesicle coated vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane clathrin-coated vesicle coated vesicle clathrin-coated vesicle membrane protein-containing complex myosin complex unconventional myosin complex vacuole autophagosome vacuolar membrane lytic vacuole lytic vacuole membrane lysosomal membrane lysosome Golgi apparatus ruffle cell projection cell leading edge plasma membrane bounded cell projection actin-based cell projection microvillus perinuclear region of cytoplasm polymeric cytoskeletal fiber actin filament supramolecular fiber supramolecular polymer supramolecular complex filamentous actin filopodium cell periphery cell cortex plasma membrane leading edge membrane ruffle membrane plasma membrane region cell projection membrane membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen endosome
B [auth C], D	Peptide from Target of Myb protein 1	clathrin binding protein binding binding ubiquitin binding ubiquitin-like protein binding myosin VI binding cytoskeletal protein binding myosin binding clathrin heavy chain binding phosphatidylinositol-5-phosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding clathrin binding protein binding binding ubiquitin binding ubiquitin-like protein binding myosin VI binding cytoskeletal protein binding myosin binding clathrin heavy chain binding phosphatidylinositol-5-phosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding polyubiquitin modification-dependent protein binding modification-dependent protein binding	membrane organization catabolic process transport macroautophagy membrane fusion organelle membrane fusion cellular metabolic process autophagy establishment of localization vesicle-mediated transport vesicle organization cellular component organization organelle fusion cellular catabolic process localization membrane organization catabolic process transport macroautophagy membrane fusion organelle membrane fusion cellular metabolic process autophagy establishment of localization vesicle-mediated transport vesicle organization cellular component organization organelle fusion cellular catabolic process localization organelle organization autophagosome-lysosome fusion cellular process metabolic process cellular component organization or biogenesis vesicle fusion process utilizing autophagic mechanism import into cell endocytosis protein localization establishment of protein localization cellular localization nitrogen compound transport organic substance transport protein transport cellular macromolecule localization macromolecule localization positive regulation of organelle organization regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization regulation of autophagosome maturation positive regulation of biological process protein-containing complex disassembly positive regulation of cellular metabolic process regulation of autophagy regulation of protein-containing complex disassembly positive regulation of metabolic process autophagosome maturation positive regulation of macroautophagy positive regulation of protein-containing complex disassembly positive regulation of cellular process cellular component disassembly positive regulation of autophagy regulation of biological process protein-containing complex organization biological regulation regulation of cellular metabolic process regulation of catabolic process positive regulation of autophagosome maturation regulation of organelle organization positive regulation of catabolic process regulation of macroautophagy regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of metabolic process cellular response to stimulus response to stimulus signaling signal transduction cell communication establishment of localization in cell intracellular transport endosomal transport regulation of endosome organization endosome organization endomembrane system organization substrate localization to autophagosome autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis cellular component assembly	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle lytic vacuole lysosome vacuolar membrane azurophil granule vacuole lytic vacuole membrane lysosomal membrane primary lysosome azurophil granule membrane cytosol cell periphery plasma membrane early endosome endosome endosome membrane early endosome membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, C [auth B]	IPR032412	Myosin VI, cargo binding domain	Domain
A, C [auth B]	IPR004009	Myosin, N-terminal, SH3-like	Domain
A, C [auth B]	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
A, C [auth B]	IPR049016	Myosin VI, lever arm	Domain
A, C [auth B]	IPR036114	Class VI myosin, motor domain	Domain
A, C [auth B]	IPR001609	Myosin head, motor domain	Domain
A, C [auth B]	IPR008989	Myosin S1 fragment, N-terminal	Homologous Superfamily
B [auth C], D	IPR002014	VHS domain	Domain
B [auth C], D	IPR008942	ENTH/VHS	Homologous Superfamily
B [auth C], D	IPR014645	Target of Myb protein 1	Family
B [auth C], D	IPR038425	GAT domain superfamily	Homologous Superfamily
B [auth C], D	IPR004152	GAT domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C [auth B]	Pharos: Q9UM54	nonsyndromic genetic deafness autosomal recessive nonsyndromic deafness 37 autosomal dominant nonsyndromic deafness 22 cardiomyopathy malignant mesothelioma Organic Mental Disorders, Substance-Induced pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia progressive supranuclear palsy spina bifida autosomal dominant nonsyndromic deafness 1 substance dependence breast cancer hypertrophic cardiomyopathy lung adenocarcinoma medulloblastoma nonsyndromic genetic deafness autosomal recessive nonsyndromic deafness 37 autosomal dominant nonsyndromic deafness 22 cardiomyopathy malignant mesothelioma Organic Mental Disorders, Substance-Induced pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia progressive supranuclear palsy spina bifida autosomal dominant nonsyndromic deafness 1 substance dependence breast cancer hypertrophic cardiomyopathy lung adenocarcinoma medulloblastoma ovarian cancer Pick disease prostate carcinoma substance abuse breast fibroadenoma tuberculosis drug dependence ductal breast carcinoma in situ interstitial cystitis lung cancer pancreatic intraductal papillary-mucinous carcinoma substance-related disorder Down syndrome gastric carcinoma invasive ductal breast carcinoma
B [auth C], D	Pharos: O60784	bipolar disorder ulcerative colitis major affective disorder 2 plasma cell myeloma

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.