3A5M

Crystal Structure of a Dictyostelium P109I Mg2+-Actin in Complex with Human Gelsolin Segment 1

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)
B [auth C]	d3a5mc2	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	Actin/HSP70	automated matches	SLIME MOLD (Dictyostelium discoideum ) [TaxId: 44689 ],	SCOPe (2.08)
B [auth C]	d3a5mc1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	SLIME MOLD (Dictyostelium discoideum ) [TaxId: 44689 ],	SCOPe (2.08)
A [auth S]	d3a5ms_	Alpha and beta proteins (a+b)	Gelsolin-like	Actin depolymerizing proteins	Gelsolin-like	Gelsolin	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth C]	SCOP2B Superfamily	Actin-like ATPases	8044479	3000092	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Actin-like ATPases	8044480	3000092	SCOP2B (2022-06-29)
A [auth S]	SCOP2B Superfamily	Actin depolymerizing proteins	8040110	3000430	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)
B [auth C]	Actin_1st	e3a5mC3	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)
B [auth C]	Actin_2nd	e3a5mC4	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)
A [auth S]	Gelsolin_1	e3a5mS1	A: a+b three layers	X: Gelsolin-like (From Topology)	H: Gelsolin-like (From Topology)	T: Gelsolin-like	F: Gelsolin_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (4.3.0)
B [auth C]	3.90.640.10	Alpha Beta	Alpha-Beta Complex	Actin	Chain A, domain 4	CATH (4.3.0)
A [auth S]	3.40.20.10	Alpha Beta	3-Layer(aba) Sandwich	Severin	Severin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth S]	PF00626	Gelsolin repeat (Gelsolin)	Gelsolin repeat	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C]	Major actin	hydrolase activity catalytic activity binding 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 hydrolase activity catalytic activity binding 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 cytoskeletal protein binding protein binding myosin binding structural constituent of cytoskeleton structural molecule activity	mitotic cell cycle process cytoskeleton-dependent cytokinesis mitotic cytokinesis cellular process cytokinesis cell division cell cycle mitotic cell cycle cell cycle process response to light stimulus response to stimulus taxis phototaxis energy taxis mitotic cell cycle process cytoskeleton-dependent cytokinesis mitotic cytokinesis cellular process cytokinesis cell division cell cycle mitotic cell cycle cell cycle process response to light stimulus response to stimulus taxis phototaxis energy taxis response to external stimulus response to radiation response to abiotic stimulus locomotion localization import into cell transport phagocytosis endocytosis establishment of localization vesicle-mediated transport response to osmotic stress hyperosmotic response response to stress chemotaxis response to chemical developmental process anatomical structure morphogenesis anatomical structure development cell morphogenesis response to organophosphorus response to oxygen-containing compound response to nitrogen compound response to purine-containing compound response to cAMP response to organic cyclic compound membrane organization wound healing plasma membrane repair cellular component organization plasma membrane organization cellular component organization or biogenesis response to wounding endomembrane system organization	cell projection macropinocytic cup cellular anatomical entity plasma membrane bounded cell projection pseudopodium cell leading edge lamellipodium cell periphery cell cortex intracellular anatomical structure cytoplasm cell-cell junction anchoring junction cell junction cell projection macropinocytic cup cellular anatomical entity plasma membrane bounded cell projection pseudopodium cell leading edge lamellipodium cell periphery cell cortex intracellular anatomical structure cytoplasm cell-cell junction anchoring junction cell junction intracellular organelle cytoskeleton organelle intracellular non-membrane-bounded organelle actin cytoskeleton non-membrane-bounded organelle supramolecular fiber supramolecular polymer supramolecular complex intranuclear rod membrane-bounded organelle phagolysosome lytic vacuole intracellular vesicle vacuole phagocytic vesicle intracellular membrane-bounded organelle cytoplasmic vesicle secondary lysosome vesicle endocytic vesicle lysosome leading edge of lamellipodium early phagosome cortical cytoskeleton cortical actin cytoskeleton cell pole lipid droplet polymeric cytoskeletal fiber actin filament phagocytic cup plasma membrane membrane
A [auth S]	Gelsolin	cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding myosin II binding myosin binding cation binding ion binding calcium ion binding metal ion binding small molecule binding phosphatidylinositol 3-kinase catalytic subunit binding cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding myosin II binding myosin binding cation binding ion binding calcium ion binding metal ion binding small molecule binding phosphatidylinositol 3-kinase catalytic subunit binding phosphatidylinositol 3-kinase binding kinase binding enzyme binding phosphatidylinositol-4,5-bisphosphate binding anion binding phosphatidylinositol bisphosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding	membrane organization import into cell transport establishment of localization vesicle-mediated transport cellular component organization localization phagocytosis, engulfment membrane invagination cellular process phagocytosis cellular component organization or biogenesis endocytosis plasma membrane invagination membrane organization import into cell transport establishment of localization vesicle-mediated transport cellular component organization localization phagocytosis, engulfment membrane invagination cellular process phagocytosis cellular component organization or biogenesis endocytosis plasma membrane invagination positive regulation of epithelial cell apoptotic process regulation of biological process regulation of cellular process positive regulation of programmed cell death regulation of epithelial cell apoptotic process positive regulation of keratinocyte apoptotic process regulation of apoptotic process biological regulation positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process epithelial cell apoptotic process keratinocyte apoptotic process regulation of keratinocyte apoptotic process apoptotic process programmed cell death positive regulation of cellular process developmental process multicellular organism development multicellular organismal process central nervous system development anatomical structure development nervous system development system development protein destabilization regulation of protein stability regulation of biological quality cellular biosynthetic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process actin filament severing actin filament-based process regulation of localization cellular localization plasma membrane raft distribution regulation of cellular component organization plasma membrane raft polarization plasma membrane organization membrane raft organization endomembrane system organization membrane raft distribution plasma membrane raft localization membrane raft polarization regulation of plasma membrane raft polarization localization within membrane membrane raft localization regulation of plasma membrane organization regulation of cellular localization cellular component disassembly actin polymerization or depolymerization actin cytoskeleton organization protein-containing complex organization actin filament organization protein-containing complex disassembly actin filament depolymerization organelle organization supramolecular fiber organization protein depolymerization cytoskeleton organization regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity positive regulation of cysteine-type endopeptidase activity involved in apoptotic process regulation of primary metabolic process positive regulation of molecular function regulation of cysteine-type endopeptidase activity involved in apoptotic process positive regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway regulation of proteolysis proteolysis regulation of endopeptidase activity protein metabolic process regulation of cysteine-type endopeptidase activity regulation of protein metabolic process regulation of peptidase activity positive regulation of catalytic activity primary metabolic process regulation of molecular function positive regulation of hydrolase activity positive regulation of cysteine-type endopeptidase activity regulation of hydrolase activity positive regulation of endopeptidase activity positive regulation of proteolysis regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway protein localization regulation of protein localization protein localization to membrane cellular macromolecule localization macromolecule localization receptor clustering regulation of receptor clustering regulation of protein localization to membrane regulation of protein maturation positive regulation of protein maturation regulation of protein processing in phagocytic vesicle positive regulation of protein processing protein maturation positive regulation of protein processing in phagocytic vesicle protein processing in phagocytic vesicle regulation of protein processing protein processing regulation of cellular component size negative regulation of biological process regulation of protein-containing complex disassembly regulation of actin filament depolymerization cellular component biogenesis actin filament capping cellular component assembly negative regulation of supramolecular fiber organization negative regulation of actin filament polymerization barbed-end actin filament capping negative regulation of cellular component organization regulation of organelle organization negative regulation of protein depolymerization negative regulation of protein-containing complex assembly regulation of protein polymerization regulation of supramolecular fiber organization regulation of cytoskeleton organization regulation of actin filament-based process regulation of protein-containing complex assembly negative regulation of protein-containing complex disassembly negative regulation of cellular process protein-containing complex assembly negative regulation of protein polymerization regulation of actin filament polymerization protein polymerization regulation of actin filament organization actin filament polymerization regulation of protein depolymerization negative regulation of cytoskeleton organization regulation of actin polymerization or depolymerization regulation of cellular component biogenesis negative regulation of organelle organization regulation of actin filament length regulation of actin cytoskeleton organization negative regulation of actin filament depolymerization regulation of anatomical structure size renal system process system process renal absorption renal protein absorption regulation of establishment of T cell polarity regulation of establishment or maintenance of cell polarity establishment of lymphocyte polarity establishment of T cell polarity cell activation establishment or maintenance of cell polarity lymphocyte activation leukocyte activation establishment of cell polarity regulation of establishment of cell polarity immune system process T cell activation relaxation of cardiac muscle muscle system process relaxation of muscle positive regulation of organelle organization positive regulation of cellular component organization regulation of actin nucleation positive regulation of cytoskeleton organization positive regulation of supramolecular fiber organization positive regulation of actin nucleation actin nucleation amyloid fibril formation muscle atrophy striated muscle adaptation muscle adaptation response to stimulus striated muscle atrophy biological process involved in interspecies interaction between organisms negative regulation of viral life cycle viral life cycle modulation by symbiont of entry into host biological process involved in interaction with host biological process involved in symbiotic interaction regulation of viral entry into host cell regulation of viral life cycle regulation of viral process negative regulation of viral process symbiont entry into host cell viral process symbiont entry into host negative regulation of viral entry into host cell regulation of biological process involved in symbiotic interaction organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cilium assembly cilium organization cell projection assembly immune response response to other organism defense response response to type II interferon response to cytokine defense response to symbiont response to external stimulus cellular response to type II interferon response to biotic stimulus response to peptide response to chemical defense response to other organism response to stress innate immune response cellular response to cytokine stimulus response to external biotic stimulus hepatocyte apoptotic process podosome assembly non-membrane-bounded organelle assembly regulation of podosome assembly regulation of organelle assembly maintenance of location maintenance of protein location maintenance of location in cell maintenance of protein location in cell sequestering of actin monomers heart process cardiac muscle cell contraction actin filament-based movement cardiac muscle contraction muscle contraction striated muscle contraction circulatory system process actin-mediated cell contraction heart contraction blood circulation response to mechanical stimulus response to abiotic stimulus response to muscle stretch	cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium intracellular organelle intracellular anatomical structure podosome cytoskeleton organelle intracellular non-membrane-bounded organelle actin cytoskeleton non-membrane-bounded organelle extracellular exosome cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium intracellular organelle intracellular anatomical structure podosome cytoskeleton organelle intracellular non-membrane-bounded organelle actin cytoskeleton non-membrane-bounded organelle extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol sarcoplasm anchoring junction cell junction focal adhesion cell-substrate junction intracellular vesicle phagocytic vesicle intracellular membrane-bounded organelle cytoplasmic vesicle endocytic vesicle cell periphery plasma membrane membrane cell cortex cortical cytoskeleton actin cap cortical actin cytoskeleton membrane-enclosed lumen ficolin-1-rich granule endomembrane system intracellular organelle lumen organelle lumen ficolin-1-rich granule lumen secretory granule secretory vesicle blood microparticle vesicle lumen cytoplasmic vesicle lumen secretory granule lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C]	IPR020902	Actin/actin-like conserved site	Conserved Site
B [auth C]	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
B [auth C]	IPR004001	Actin, conserved site	Conserved Site
B [auth C]	IPR004000	Actin family	Family
A [auth S]	IPR007123	Gelsolin-like domain	Domain
A [auth S]	IPR029006	ADF-H/Gelsolin-like domain superfamily	Homologous Superfamily
A [auth S]	IPR007122	Villin/Gelsolin	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth S]	Pharos: P06396	Finnish type amyloidosis amyloidosis paratuberculosis Liver Cirrhosis, Experimental acute coronary syndrome osteoporosis ductal breast carcinoma in situ esophageal adenocarcinoma tuberculosis Gaucher disease interstitial cystitis adrenoleukodystrophy malignant colon neoplasm atrial fibrillation breast carcinoma Finnish type amyloidosis amyloidosis paratuberculosis Liver Cirrhosis, Experimental acute coronary syndrome osteoporosis ductal breast carcinoma in situ esophageal adenocarcinoma tuberculosis Gaucher disease interstitial cystitis adrenoleukodystrophy malignant colon neoplasm atrial fibrillation breast carcinoma ovarian cancer chronic obstructive pulmonary disease pancreatic intraductal papillary-mucinous neoplasm drug-induced liver injury periodic fever syndrome Emery-Dreifuss muscular dystrophy psoriasis ulcerative colitis invasive ductal breast carcinoma acquired metabolic disease malignant ependymoma benign mesothelioma malignant pancreatic neoplasm breast fibroadenoma mesothelioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Duchenne muscular dystrophy pilocytic astrocytoma endometriosis schizophrenia lattice corneal dystrophy lung cancer astrocytic tumor malignant mesothelioma breast cancer medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth C]	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.