9FJU | pdb_00009fju

Structure of the DNase I- and phalloidin-bound pointed end of F-actin (conformer 1)

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	DNase I-like	8036570	3000957	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DNase I-like	8036570	3000957	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Actin-like ATPases	8003798	3000092	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Actin-like ATPases	8092404	3000092	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Actin-like ATPases	8003798	3000092	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Actin-like ATPases	8092404	3000092	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Actin-like ATPases	8092404	3000092	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Actin-like ATPases	8003798	3000092	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Actin-like ATPases	8092404	3000092	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Actin-like ATPases	8003798	3000092	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E, F	PF03372	Endonuclease/Exonuclease/phosphatase family (Exo_endo_phos)	Endonuclease/Exonuclease/phosphatase family	This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3. ...	This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3.1.21.1 e.g. Swiss:P24855, Synaptojanin an inositol-1,4,5-trisphosphate phosphatase EC:3.1.3.56 Swiss:O43426, Sphingomyelinase EC:3.1.4.12 Swiss:P11889 and Nocturnin Swiss:O35710.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G, H, I, J	Phalloidin	-	-	-
E, F	Deoxyribonuclease-1	DNA binding binding nucleic acid binding cytoskeletal protein binding actin binding protein binding endonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA nuclease activity DNA endonuclease activity deoxyribonuclease I activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA DNA binding binding nucleic acid binding cytoskeletal protein binding actin binding protein binding endonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA nuclease activity DNA endonuclease activity deoxyribonuclease I activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA nuclease activity DNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity	catabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process DNA catabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process regulation of immune effector process regulation of myeloid leukocyte mediated immunity catabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process DNA catabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process regulation of immune effector process regulation of myeloid leukocyte mediated immunity regulation of biological process regulation of cellular process neutrophil mediated cytotoxicity regulation of neutrophil mediated cytotoxicity biological regulation regulation of leukocyte mediated cytotoxicity leukocyte mediated cytotoxicity myeloid leukocyte mediated immunity immune effector process regulation of leukocyte mediated immunity neutrophil mediated immunity immune system process leukocyte mediated immunity regulation of immune system process regulation of cell killing cell killing apoptotic process cell death programmed cell death neutrophil activation multicellular organismal process response to stimulus immune response cell activation cell activation involved in immune response myeloid leukocyte activation myeloid cell activation involved in immune response leukocyte activation neutrophil activation involved in immune response leukocyte activation involved in immune response granulocyte activation regulation of defense response regulation of response to external stimulus defense response regulation of inflammatory response response to external stimulus regulation of response to stimulus response to stress regulation of response to stress regulation of acute inflammatory response inflammatory response acute inflammatory response	membrane-bounded organelle zymogen granule intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle membrane-bounded organelle zymogen granule intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle envelope nuclear envelope nucleus extracellular region
A, B, C, D	Actin, cytoplasmic 1, N-terminally processed	structural constituent of postsynapse structural constituent of cytoskeleton structural molecule activity structural constituent of synapse structural constituent of postsynaptic actin cytoskeleton binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding structural constituent of postsynapse structural constituent of cytoskeleton structural molecule activity structural constituent of synapse structural constituent of postsynaptic actin cytoskeleton binding 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 enzyme regulator activity molecular function regulator activity nitric-oxide synthase regulator activity nitric-oxide synthase binding protein binding enzyme binding identical protein binding cytoskeletal protein binding kinesin binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding Tat protein binding kinase binding protein kinase binding transporter regulator activity 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	cellular response to nitrogen compound cellular response to stimulus response to cytochalasin B response to stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to cytochalasin B cellular response to chemical stimulus response to chemical cellular process regulation of localization import into cell cellular localization cellular response to nitrogen compound cellular response to stimulus response to cytochalasin B response to stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to cytochalasin B cellular response to chemical stimulus response to chemical cellular process regulation of localization import into cell cellular localization regulation of cellular process regulation of cellular component organization transport synaptic vesicle cycle regulation of synaptic vesicle recycling vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse cellular component organization localization synaptic vesicle recycling regulation of synaptic vesicle endocytosis establishment of localization in cell cellular component organization or biogenesis regulation of endocytosis synaptic vesicle endocytosis regulation of biological process regulation of transport biological regulation regulation of vesicle-mediated transport establishment of localization endocytosis multicellular organismal process axonogenesis cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development developmental process plasma membrane bounded cell projection organization nervous system development axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development tissue morphogenesis epithelium development morphogenesis of a polarized epithelium morphogenesis of an epithelium tissue development regulation of DNA recombination regulation of double-strand break repair regulation of cellular response to stress positive regulation of biological process positive regulation of double-strand break repair via homologous recombination regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair cellular response to stress response to stress regulation of response to stress recombinational repair positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process double-strand break repair via homologous recombination positive regulation of cellular process DNA repair positive regulation of DNA recombination double-strand break repair DNA recombination primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process positive regulation of double-strand break repair regulation of DNA repair regulation of double-strand break repair via homologous recombination positive regulation of DNA metabolic process DNA damage response regulation of response to stimulus metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process monoamine transport norepinephrine transport nitrogen compound transport organic hydroxy compound transport organic cation transport catecholamine uptake catecholamine transport regulation of norepinephrine uptake norepinephrine uptake establishment or maintenance of cell polarity protein localization to cell periphery regulation of protein localization protein localization to plasma membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of cellular localization macromolecule localization intracellular protein localization regulation of protein localization to plasma membrane regulation of protein localization to membrane cell motility adherens junction organization adherens junction assembly cellular component biogenesis cell junction organization cellular component assembly cell junction assembly cell-cell junction assembly cell-cell junction organization transepithelial transport regulation of transepithelial transport apical protein localization protein localization to cell junction protein localization to adherens junction protein localization to cell-cell junction cell cycle regulation of cell cycle	cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol apical part of cell cluster of actin-based cell projections brush border synapse cell junction glutamatergic synapse apical junction complex cell-cell junction anchoring junction adherens junction axon neuron projection axon terminus presynapse distal axon calyx of Held neuron projection terminus polymeric cytoskeletal fiber actin filament supramolecular fiber supramolecular polymer supramolecular complex cell cortex cortical cytoskeleton cell periphery focal adhesion cell-substrate junction postsynapse postsynaptic cytoskeleton postsynaptic actin cytoskeleton protein-containing complex catalytic complex NuA4 histone acetyltransferase complex chromatin chromosome transferase complex H4/H2A histone acetyltransferase complex histone acetyltransferase complex acetyltransferase complex H4 histone acetyltransferase complex protein acetyltransferase complex intracellular protein-containing complex dense body plasma membrane protein-DNA complex nucleosome cytoplasmic ribonucleoprotein granule ribonucleoprotein granule Schaffer collateral - CA1 synapse tight junction ribonucleoprotein complex membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F	IPR005135	Endonuclease/exonuclease/phosphatase	Domain
E, F	IPR018057	Deoxyribonuclease I, active site	Active Site
E, F	IPR033125	Deoxyribonuclease I, conservied site	Conserved Site
E, F	IPR016202	Deoxyribonuclease I	Family
E, F	IPR036691	Endonuclease/exonuclease/phosphatase superfamily	Homologous Superfamily
A, B, C, D	IPR020902	Actin/actin-like conserved site	Conserved Site
A, B, C, D	IPR004001	Actin, conserved site	Conserved Site
A, B, C, D	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
A, B, C, D	IPR004000	Actin family	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
G, H, I, J	DTH	RESID: AA0199 PSI-MOD : D-allo-threonine MOD:00863
G, H, I, J	EEP	RESID: AA0199
G, H, I, J	HYP	Parent Component: PRO RESID: AA0199 , AA0030 PSI-MOD : D-allo-threonine MOD:00863 , 4-hydroxy-L-proline MOD:00039
A, B, C, D	HIC	Parent Component: HIS RESID: AA0199 , AA0030 , AA0317 PSI-MOD : D-allo-threonine MOD:00863 , 4-hydroxy-L-proline MOD:00039 , 1'-methyl-L-histidine MOD:00322

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.