4PD3 | pdb_00004pd3

Crystal Structure of Rigor-Like Human Nonmuscle Myosin-2B

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B		e4pd3B2	A: Ribonuclease H-like	X: Ribonuclease H-like	H: Ribonuclease H-like	T: mRNA_triPase	F:	ECOD (20:10:01)
B		e4pd3B4	A: Rubredoxin-like	X: Rubredoxin-related	H: Rubredoxin-related	T: Peptidase_M99_C	F:	ECOD (20:10:01)
A		e4pd3A2	A: Ribonuclease H-like	X: Ribonuclease H-like	H: Ribonuclease H-like	T: mRNA_triPase	F:	ECOD (20:10:01)
A		e4pd3A4	A: Rubredoxin-like	X: Rubredoxin-related	H: Rubredoxin-related	T: Peptidase_M99_C	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00435	Spectrin repeat (Spectrin)	Spectrin repeat	Spectrin repeat-domains are found in several proteins involved in cytoskeletal structure. These include spectrin, alpha-actinin and dystrophin. The sequence repeat used in this family is taken from the structural repeat in reference [2]. The spectr ...	Spectrin repeat-domains are found in several proteins involved in cytoskeletal structure. These include spectrin, alpha-actinin and dystrophin. The sequence repeat used in this family is taken from the structural repeat in reference [2]. The spectrin domain- repeat forms a three helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C. Although the domain occurs in multiple repeats along sequences, the domains are actually stable on their own - ie they act, biophysically, like domains rather than repeats that along function when aggregated.	Domain
A, B	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
A, B	Nonmuscle myosin heavy chain B, Alpha-actinin A Chimera Protein	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding cytoskeletal protein binding actin binding protein-containing complex binding protein binding actin filament binding protein-macromolecule adaptor activity molecular adaptor activity structural constituent of cytoskeleton cation binding ion binding binding calcium ion binding metal ion binding small molecule binding cytoskeletal protein binding actin binding protein-containing complex binding protein binding actin filament binding protein-macromolecule adaptor activity molecular adaptor activity structural constituent of cytoskeleton structural molecule activity 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 ADP binding calmodulin binding RNA binding RNA stem-loop binding nucleic acid binding virus receptor activity exogenous protein binding mRNA 5'-UTR binding mRNA binding polypeptide conformation or assembly isomerase activity isomerase activity cytoskeletal motor activity microfilament motor activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity	localization import into cell transport phagocytosis cellular process endocytosis establishment of localization vesicle-mediated transport cellular component organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization localization import into cell transport phagocytosis cellular process endocytosis establishment of localization vesicle-mediated transport cellular component organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization response to osmotic stress hyperosmotic response response to stimulus response to stress response to abiotic stimulus cellular response to stimulus cellular response to nutrient levels response to nutrient levels cellular response to stress response to starvation cellular response to starvation actin filament organization actin crosslink formation supramolecular fiber organization developmental process sorocarp development biological process involved in intraspecies interaction between organisms anatomical structure development socially cooperative development cell motility cellular component biogenesis cellular component assembly actin filament bundle organization actin filament bundle assembly multicellular organismal process heart development heart growth cell population proliferation developmental growth cardiac muscle tissue development cardiac muscle cell proliferation growth animal organ development organ growth tissue development striated muscle tissue development circulatory system development multicellular organism development muscle cell proliferation cardiac muscle tissue growth muscle tissue development striated muscle cell proliferation system development sensory organ development eye development retina development in camera-type eye visual system development camera-type eye development sensory system development biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction establishment of organelle localization cellular localization nucleus localization intracellular transport organelle localization establishment of localization in cell nuclear migration head development lateral ventricle development forebrain development brain development nervous system development central nervous system development ventricular system development telencephalon development artery development aorta development vasculature development blood vessel development embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development cerebellar cortex development cerebellar Purkinje cell layer development cerebellum development metencephalon development hindbrain development cell adhesion adult heart development actin filament-based movement cardiac septum development cardiac chamber development mitotic cell cycle process cytoskeleton-dependent cytokinesis mitotic cytokinesis cytokinesis cell division cell cycle mitotic cell cycle cell cycle process postsynapse organization postsynaptic cytoskeleton organization cell junction organization postsynaptic actin cytoskeleton organization synapse organization fourth ventricle development actomyosin structure organization system process nervous system process neuromuscular process neuromuscular process controlling balance substrate-dependent cell migration, cell extension plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly substrate-dependent cell migration cell migration cell projection assembly regulation of biological process regulation of developmental process biological regulation regulation of cell shape cell morphogenesis regulation of cell morphogenesis anatomical structure morphogenesis regulation of biological quality regulation of anatomical structure morphogenesis ventricular cardiac muscle cell differentiation cellular developmental process cardiac muscle cell development cell development muscle cell differentiation muscle structure development striated muscle cell development muscle cell development cell differentiation cardiac cell development cardiac muscle cell differentiation ventricular cardiac muscle cell development cardiocyte differentiation striated muscle cell differentiation regulation of localization establishment of protein localization regulation of cellular process regulation of protein localization positive regulation of biological process positive regulation of establishment of protein localization positive regulation of secretion by cell protein localization to extracellular region positive regulation of protein transport regulation of secretion by cell secretion by cell positive regulation of secretion intracellular protein localization positive regulation of cellular process regulation of transport secretion regulation of establishment of protein localization establishment of protein localization to extracellular region export from cell regulation of protein transport protein secretion positive regulation of protein secretion regulation of protein secretion regulation of secretion positive regulation of transport protein transport macromolecule localization positive regulation of protein localization third ventricle development axonogenesis plasma membrane bounded cell projection morphogenesis neuron projection development neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis axon guidance axon development cell morphogenesis involved in neuron differentiation generation of neurons neuron projection guidance neuron development cellular component assembly involved in morphogenesis membraneless organelle assembly cellular anatomical entity morphogenesis organelle assembly myofibril assembly cardiac myofibril assembly anatomical structure formation involved in morphogenesis neuron migration exocytosis coronary vasculature development membrane organization wound healing plasma membrane repair plasma membrane organization response to wounding endomembrane system organization	cell projection cellular anatomical structure macropinocytic cup plasma membrane bounded cell projection pseudopodium cell periphery cell cortex intracellular anatomical structure cytoplasm cytosol cell leading edge membrane-bounded organelle intracellular vesicle phagocytic vesicle cell projection cellular anatomical structure macropinocytic cup plasma membrane bounded cell projection pseudopodium cell periphery cell cortex intracellular anatomical structure cytoplasm cytosol cell leading edge membrane-bounded organelle intracellular vesicle phagocytic vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle vesicle endocytic vesicle extracellular matrix external encapsulating structure intracellular membraneless organelle vacuole contractile vacuole complex contractile vacuole membraneless organelle cortical cytoskeleton actin cytoskeleton cytoskeleton cortical actin cytoskeleton polymeric cytoskeletal fiber actin filament supramolecular fiber supramolecular polymer supramolecular complex lamellipodium actomyosin extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle apical part of cell cluster of actin-based cell projections brush border protein-containing complex myosin complex synapse cell junction glutamatergic synapse neuromuscular junction myosin II complex neuron spine neuron projection dendritic spine somatodendritic compartment postsynapse dendrite dendritic tree actin filament bundle stress fiber contractile actin filament bundle cell body neuronal cell body spindle microtubule cytoskeleton sarcoplasm midbody postsynaptic cytoskeleton postsynaptic actin cytoskeleton cell surface myosin filament growth cone axon distal axon site of polarized growth cell division site cleavage furrow membrane plasma membrane plasma membrane region myosin II filament cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001715	Calponin homology domain	Domain
A, B	IPR014837	EF-hand, Ca insensitive	Domain
A, B	IPR002048	EF-hand domain	Domain
A, B	IPR011992	EF-hand domain pair	Homologous Superfamily
A, B	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A, B	IPR001589	Actinin-type actin-binding domain, conserved site	Conserved Site
A, B	IPR036872	CH domain superfamily	Homologous Superfamily
A, B	IPR018159	Spectrin/alpha-actinin	Repeat
A, B	IPR002017	Spectrin repeat	Repeat
A, B	IPR000048	IQ motif, EF-hand binding site	Binding Site
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR004009	Myosin, SH3 domain	Domain
A, B	IPR036961	Kinesin motor domain superfamily	Homologous Superfamily
A, B	IPR001609	Myosin head, motor domain-like	Domain
A, B	IPR002928	Myosin tail	Domain
A, B	IPR008989	Myosin S1 fragment, N-terminal	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P35580	focal segmental glomerulosclerosis non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia thrombocytopenia due to immune destruction acute myeloid leukemia Duchenne muscular dystrophy Hyalinosis, Segmental Glomerular juvenile dermatomyositis lung cancer malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous carcinoma Parkinson disease ulcerative colitis focal segmental glomerulosclerosis non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia thrombocytopenia due to immune destruction acute myeloid leukemia Duchenne muscular dystrophy Hyalinosis, Segmental Glomerular juvenile dermatomyositis lung cancer malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous carcinoma Parkinson disease ulcerative colitis Emery-Dreifuss muscular dystrophy glioblastoma hydrolethalus syndrome large cell medulloblastoma lung carcinoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis cystic fibrosis head and neck cancer intellectual disability lung adenocarcinoma malignant glioma

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.