2A40

Ternary complex of the WH2 domain of WAVE with Actin-DNAse I

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2a40a1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	Actin/HSP70	Actin	(Oryctolagus cuniculus ) [TaxId: 9986 ],	SCOPe (2.08)
D	d2a40d1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	Actin/HSP70	Actin	(Oryctolagus cuniculus ) [TaxId: 9986 ],	SCOPe (2.08)
E	d2a40e_	Alpha and beta proteins (a+b)	DNase I-like	DNase I-like	DNase I-like	Deoxyribonuclease I	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B	d2a40b_	Alpha and beta proteins (a+b)	DNase I-like	DNase I-like	DNase I-like	Deoxyribonuclease I	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Actin-like ATPases	8040506	3000092	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Actin-like ATPases	8040509	3000092	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DNase I-like	8036570	3000957	SCOP2B (2022-06-29)
B	SCOP2 Family	DNase I-like	8024191	4002213	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	DNase I-like	8036570	3000957	SCOP2 (2022-06-29)
C	SCOP2 Family	WH2 motif	8049999	4006720	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	WH2 motif-like	8052979	3002153	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	WH2 motif-like	8052979	3002153	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	Actin_1st	e2a40A1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: Actin_1st	ECOD (1.6)
A	Actin_2nd	e2a40A2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: Actin_2nd	ECOD (1.6)
D	Actin_1st	e2a40D1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: Actin_1st	ECOD (1.6)
D	Actin_2nd	e2a40D2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: Actin_2nd	ECOD (1.6)
E	Exo_endo_phos	e2a40E1	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: DNase I-like (From Topology)	T: DNase I-like	F: Exo_endo_phos	ECOD (1.6)
B	Exo_endo_phos	e2a40B1	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: DNase I-like (From Topology)	T: DNase I-like	F: Exo_endo_phos	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (4.3.0)
A	2.30.36.70	Mainly Beta	Roll	Actin	Chain A, domain 2	CATH (4.3.0)
A	3.90.640.10	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
D	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (4.3.0)
D	2.30.36.70	Mainly Beta	Roll	Actin	Chain A, domain 2	CATH (4.3.0)
D	3.90.640.10	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
E	3.60.10.10	Alpha Beta	4-Layer Sandwich	Deoxyribonuclease I	Chain A	CATH (4.3.0)
B	3.60.10.10	Alpha Beta	4-Layer Sandwich	Deoxyribonuclease I	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, E	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
A, D	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 organic cyclic compound 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
B, E	Deoxyribonuclease-1	DNA binding binding organic cyclic compound binding nucleic acid binding cytoskeletal protein binding actin binding protein binding endonuclease activity catalytic activity, acting on a nucleic acid endodeoxyribonuclease activity, producing 5'-phosphomonoesters hydrolase activity DNA nuclease activity DNA endonuclease activity deoxyribonuclease I activity DNA binding binding organic cyclic compound binding nucleic acid binding cytoskeletal protein binding actin binding protein binding endonuclease activity catalytic activity, acting on a nucleic acid endodeoxyribonuclease activity, producing 5'-phosphomonoesters hydrolase activity DNA nuclease activity DNA endonuclease activity deoxyribonuclease I activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA endonuclease activity, active with either ribo- or deoxyribonucleic acids and 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
C, F	Wiskott-Aldrich syndrome protein family member 2	SH3 domain binding protein binding binding protein domain specific binding cytoskeletal protein binding actin binding cell adhesion molecule binding cadherin binding protein kinase A binding protein kinase A regulatory subunit binding protein-containing complex binding Arp2/3 complex binding	positive regulation of organelle organization regulation of Arp2/3 complex-mediated actin nucleation regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process regulation of actin filament-based process positive regulation of cellular component organization positive regulation of Arp2/3 complex-mediated actin nucleation positive regulation of biological process cellular component organization regulation of actin nucleation actin filament-based process cellular component organization or biogenesis positive regulation of cellular process positive regulation of organelle organization regulation of Arp2/3 complex-mediated actin nucleation regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process regulation of actin filament-based process positive regulation of cellular component organization positive regulation of Arp2/3 complex-mediated actin nucleation positive regulation of biological process cellular component organization regulation of actin nucleation actin filament-based process cellular component organization or biogenesis positive regulation of cellular process regulation of biological process regulation of actin filament organization actin cytoskeleton organization positive regulation of cytoskeleton organization actin filament organization biological regulation Arp2/3 complex-mediated actin nucleation positive regulation of supramolecular fiber organization regulation of organelle organization organelle organization positive regulation of actin nucleation regulation of actin cytoskeleton organization regulation of supramolecular fiber organization cellular process actin nucleation supramolecular fiber organization cytoskeleton organization developmental process cellular developmental process hemopoiesis megakaryocyte differentiation cell development myeloid cell differentiation cell differentiation megakaryocyte development anatomical structure development myeloid cell development lamellipodium assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component assembly lamellipodium organization cell projection assembly multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development system development postsynapse organization postsynaptic cytoskeleton organization cell junction organization postsynaptic actin cytoskeleton organization synapse organization negative regulation of biological process regulation of actin filament bundle assembly actin filament bundle organization negative regulation of cellular process stress fiber assembly negative regulation of supramolecular fiber organization negative regulation of stress fiber assembly actomyosin structure organization negative regulation of cellular component organization negative regulation of cytoskeleton organization regulation of cellular component biogenesis negative regulation of actin filament bundle assembly regulation of stress fiber assembly negative regulation of organelle organization contractile actin filament bundle assembly regulation of actomyosin structure organization actin filament bundle assembly localization import into cell transport endocytosis establishment of localization vesicle-mediated transport ameboidal-type cell migration cell migration cell motility cellular response to stimulus response to stimulus signaling cell communication adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction small GTPase-mediated signal transduction Rac protein signal transduction intracellular signal transduction intracellular signaling cassette plasma membrane bounded cell projection morphogenesis cell morphogenesis cell projection morphogenesis lamellipodium morphogenesis actin filament-based movement regulation of lamellipodium assembly regulation of lamellipodium organization positive regulation of cell projection organization positive regulation of cellular component biogenesis regulation of cell projection organization regulation of cell projection assembly positive regulation of lamellipodium assembly positive regulation of lamellipodium organization regulation of plasma membrane bounded cell projection assembly regulation of plasma membrane bounded cell projection organization positive regulation of plasma membrane bounded cell projection assembly	cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium cell-cell junction anchoring junction cell junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium cell-cell junction anchoring junction cell junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol cell periphery basal part of cell membrane plasma membrane basal plasma membrane plasma membrane region basolateral plasma membrane protein-containing complex early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system cytoplasmic vesicle SCAR complex synapse ruffle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR020902	Actin/actin-like conserved site	Conserved Site
A, D	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
A, D	IPR004001	Actin, conserved site	Conserved Site
A, D	IPR004000	Actin family	Family
B, E	IPR005135	Endonuclease/exonuclease/phosphatase	Domain
B, E	IPR018057	Deoxyribonuclease I, active site	Active Site
B, E	IPR033125	Deoxyribonuclease I, conservied site	Conserved Site
B, E	IPR016202	Deoxyribonuclease I	Family
B, E	IPR036691	Endonuclease/exonuclease/phosphatase superfamily	Homologous Superfamily
C, F	IPR003124	WH2 domain	Domain
C, F	IPR028288	SCAR/WAVE family	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, F	Pharos: Q9Y6W5	astrocytic tumor glioblastoma pilocytic astrocytoma atypical teratoid rhabdoid tumor hypertensive disorder esophageal adenocarcinoma invasive ductal breast carcinoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, D	HIC	Parent Component: HIS RESID: AA0317 PSI-MOD : 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.