6BNV | pdb_00006bnv

CryoEM structure of MyosinVI-actin complex in the rigor (nucleotide-free) state, backbone-averaged with side chains truncated to alanine

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
T	SCOP2B Superfamily	EF-hand	8037345	3001983	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	EF-hand	8037345	3001983	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	EF-hand	8037345	3001983	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	EF-hand	8037345	3001983	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	EF-hand	8037345	3001983	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	EF-hand	8037345	3001983	SCOP2B (2022-06-29)
N [auth H]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
N [auth H]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
M [auth G]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
M [auth G]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
L [auth F]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
L [auth F]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
K [auth E]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
K [auth E]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
J [auth D]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
J [auth D]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
I [auth C]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
I [auth C]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
H [auth B]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
H [auth B]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
G [auth A]	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
G [auth A]	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	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)
T	Actin	e6bnvT1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
S	Actin	e6bnvS1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
R	Actin	e6bnvR1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
Q	Actin	e6bnvQ1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
P	Actin	e6bnvP1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
O	7tm_1	e6bnvO1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: 7tm_1	ECOD (v294.1)
N [auth H]	Actin	e6bnvH1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
M [auth G]	Actin	e6bnvG1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
L [auth F]	Actin	e6bnvF1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
K [auth E]	Actin	e6bnvE1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
J [auth D]	Actin	e6bnvD1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
I [auth C]	Actin	e6bnvC1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
H [auth B]	Actin	e6bnvB1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
G [auth A]	Actin	e6bnvA1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
F [auth N]	Actin	e6bnvN1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
E [auth M]	Actin	e6bnvM1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
D [auth L]	Actin	e6bnvL1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
C [auth K]	Actin	e6bnvK1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
B [auth J]	Actin	e6bnvJ1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Actin	ECOD (v294.1)
A [auth I]	7tm_1	e6bnvI1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: 7tm_1	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
O, P, Q, R, S O, P, Q, R, S, T	PF13499	EF-hand domain pair (EF-hand_7)	EF-hand domain pair		Domain
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	PF00063	Myosin head (motor domain) (Myosin_head)	Myosin head (motor domain)		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
O, P, Q, R, S O, P, Q, R, S, T	Calmodulin	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein binding CH domain binding protein domain specific binding cytoskeletal protein binding myosin binding disordered domain specific binding	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication calcium-mediated signaling intracellular signaling cassette cellular process signal transduction calcineurin-mediated signaling regulation of calcium ion transport cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication calcium-mediated signaling intracellular signaling cassette cellular process signal transduction calcineurin-mediated signaling regulation of calcium ion transport regulation of localization transport monoatomic ion transmembrane transport sarcoplasmic reticulum calcium ion transport regulation of monoatomic ion transmembrane transport release of sequestered calcium ion into cytosol by sarcoplasmic reticulum calcium ion transport metal ion transport regulation of calcium ion transmembrane transport monoatomic cation transmembrane transport localization intercellular transport monoatomic ion transport monoatomic cation transport regulation of metal ion transport release of sequestered calcium ion into cytosol by endoplasmic reticulum calcium ion transmembrane import into cytosol regulation of transport regulation of release of sequestered calcium ion into cytosol regulation of monoatomic ion transport establishment of localization transmembrane transport release of sequestered calcium ion into cytosol regulation of transmembrane transport regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum detection of stimulus response to metal ion response to chemical detection of chemical stimulus detection of calcium ion response to calcium ion	cellular anatomical structure myelin sheath intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton membrane-bounded organelle synapse intracellular vesicle cellular anatomical structure myelin sheath intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton membrane-bounded organelle synapse intracellular vesicle transport vesicle membrane endomembrane system presynapse bounding membrane of organelle cytoplasmic vesicle vesicle membrane synaptic vesicle synaptic vesicle membrane cell junction vesicle transport vesicle membrane exocytic vesicle membrane intracellular membrane-bounded organelle cytoplasmic vesicle membrane secretory vesicle cytoplasm organelle membrane exocytic vesicle protein-containing complex
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F], M [auth G], N [auth H]	Actin, alpha skeletal muscle	cytoskeletal protein binding titin binding protein binding binding cation binding ion binding calcium ion binding metal ion binding small molecule binding protein domain specific binding hydrolase activity catalytic activity troponin I binding cytoskeletal motor activator activity cytoskeletal protein binding titin binding protein binding binding cation binding ion binding calcium ion binding metal ion binding small molecule binding protein domain specific binding hydrolase activity catalytic activity troponin I binding cytoskeletal motor activator activity cytoskeletal motor regulator activity molecular function activator activity molecular function regulator activity magnesium ion binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding myosin heavy chain binding myosin binding tropomyosin binding calcium-dependent protein binding identical protein binding actin monomer binding actin binding	developmental process mesenchyme migration multicellular organismal process mesenchyme morphogenesis animal organ development mesenchyme development tissue development tissue morphogenesis anatomical structure morphogenesis tissue migration anatomical structure development animal organ morphogenesis myotube cell development skeletal muscle fiber development developmental process mesenchyme migration multicellular organismal process mesenchyme morphogenesis animal organ development mesenchyme development tissue development tissue morphogenesis anatomical structure morphogenesis tissue migration anatomical structure development animal organ morphogenesis myotube cell development skeletal muscle fiber development cellular developmental process skeletal muscle tissue development cell development muscle cell differentiation myotube differentiation striated muscle tissue development muscle structure development skeletal muscle organ development striated muscle cell development muscle cell development cell differentiation cellular process muscle tissue development muscle organ development striated muscle cell differentiation 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 positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process cellular component assembly involved in morphogenesis skeletal myofibril assembly membraneless organelle assembly cellular component organization cellular component biogenesis cellular anatomical entity morphogenesis cellular component assembly actin filament-based process cellular component organization or biogenesis skeletal muscle thin filament assembly actin cytoskeleton organization actomyosin structure organization organelle assembly actin filament organization organelle organization myofibril assembly anatomical structure formation involved in morphogenesis supramolecular fiber organization cytoskeleton organization protein polymerization actin polymerization or depolymerization actin filament polymerization protein-containing complex organization protein-containing complex assembly actin filament bundle organization actin filament bundle assembly	intracellular anatomical structure skeletal muscle myofibril intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex cell projection intracellular anatomical structure skeletal muscle myofibril intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex cell projection cell leading edge plasma membrane bounded cell projection lamellipodium cytoskeleton actin filament bundle actin cytoskeleton actomyosin stress fiber contractile actin filament bundle polymeric cytoskeletal fiber actin filament protein-containing complex filamentous actin cell body striated muscle thin filament myofilament sarcomere actin-based cell projection filopodium
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	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 anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ADP binding calmodulin binding polypeptide conformation or assembly isomerase activity isomerase activity microfilament motor activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity	developmental process ear morphogenesis embryonic organ morphogenesis multicellular organismal process ear development sensory organ development animal organ development embryonic morphogenesis embryo development multicellular organism development anatomical structure morphogenesis sensory organ morphogenesis inner ear development inner ear morphogenesis anatomical structure development developmental process ear morphogenesis embryonic organ morphogenesis multicellular organismal process ear development sensory organ development animal organ development embryonic morphogenesis embryo development multicellular organism development anatomical structure morphogenesis sensory organ morphogenesis inner ear development inner ear morphogenesis anatomical structure development animal organ morphogenesis embryonic organ development localization import into cell transport cellular process endocytosis establishment of localization vesicle-mediated transport cellular localization establishment of protein localization intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport regulation of localization regulation of biological process regulation of transport secretion biological regulation regulation of secretion system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus cellular developmental process epidermis development epithelial cell differentiation hair cell differentiation neurogenesis neuron differentiation cell differentiation system development mechanoreceptor differentiation epithelium development epidermal cell differentiation inner ear auditory receptor cell differentiation nervous system development tissue development inner ear receptor cell differentiation generation of neurons cellular response to stimulus regulation of cellular process response to stimulus 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 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	cell periphery cell cortex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle cell periphery cell cortex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane ruffle cell leading edge plasma membrane leading edge membrane plasma membrane bounded cell projection cell projection ruffle membrane plasma membrane region cell projection membrane intracellular vesicle cytoplasmic vesicle clathrin-coated vesicle coated vesicle vesicle cytoskeleton membraneless organelle intracellular membraneless organelle actin cytoskeleton cytosol membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex myosin complex Golgi apparatus actin-based cell projection microvillus perinuclear region of cytoplasm polymeric cytoskeletal fiber actin filament supramolecular fiber supramolecular polymer supramolecular complex filamentous actin filopodium

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
O, P, Q, R, S O, P, Q, R, S, T	IPR050230	Calmodulin/Myosin light chain/Troponin C-like	Family
O, P, Q, R, S O, P, Q, R, S, T	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
O, P, Q, R, S O, P, Q, R, S, T	IPR002048	EF-hand domain	Domain
O, P, Q, R, S O, P, Q, R, S, T	IPR011992	EF-hand domain pair	Homologous Superfamily
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F], M [auth G], N [auth H]	IPR020902	Actin/actin-like conserved site	Conserved Site
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F], M [auth G], N [auth H]	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F], M [auth G], N [auth H]	IPR004001	Actin, conserved site	Conserved Site
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F], M [auth G], N [auth H]	IPR004000	Actin family	Family
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR001609	Myosin head, motor domain-like	Domain
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR049016	Myosin VI, lever arm	Domain
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR004009	Myosin, SH3 domain	Domain
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR036114	Class VI myosin, motor domain	Domain
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR032412	Myosin VI, cargo binding domain	Domain
A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], A [auth I], B [auth J], C [auth K], D [auth L], E [auth M], F [auth N]	IPR008989	Myosin S1 fragment, N-terminal	Homologous Superfamily