5C2J

Complex structure of the GAP domain of MgcRacGAP and Cdc42

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5c2ja_	All alpha proteins	GTPase activation domain, GAP	GTPase activation domain, GAP	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d5c2jb_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	CDC42	Mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	GTPase activation domain, GAP	8079475	3001163	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8060840	3002022	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	RhoGAP	e5c2jA1	A: alpha bundles	X: GTPase activation domain, GAP (From Topology)	H: GTPase activation domain, GAP (From Topology)	T: GTPase activation domain, GAP	F: RhoGAP	ECOD (1.6)
B	Ras	e5c2jB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.555.10	Mainly Alpha	Orthogonal Bundle	Phosphatidylinositol 3-kinase	Chain A	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00620	RhoGAP domain (RhoGAP)	RhoGAP domain	GTPase activator proteins towards Rho/Rac/Cdc42-like small GTPases.	Domain
B	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motil ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Rac GTPase-activating protein 1	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity protein-macromolecule adaptor activity molecular adaptor activity cytoskeletal protein binding protein binding binding tubulin binding alpha-tubulin binding GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity protein-macromolecule adaptor activity molecular adaptor activity cytoskeletal protein binding protein binding binding tubulin binding alpha-tubulin binding gamma-tubulin binding microtubule binding kinase binding enzyme binding protein kinase binding ion binding phosphatidylinositol-3,4,5-trisphosphate binding anion binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding small molecule binding beta-tubulin binding cation binding metal ion binding	mitotic spindle elongation spindle midzone assembly spindle elongation non-membrane-bounded organelle assembly microtubule cytoskeleton organization mitotic cell cycle cellular component organization cellular component biogenesis cellular component assembly mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation microtubule cytoskeleton organization involved in mitosis mitotic spindle elongation spindle midzone assembly spindle elongation non-membrane-bounded organelle assembly microtubule cytoskeleton organization mitotic cell cycle cellular component organization cellular component biogenesis cellular component assembly mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation microtubule cytoskeleton organization involved in mitosis spindle organization cell cycle process mitotic nuclear division organelle assembly organelle fission chromosome organization sister chromatid segregation spindle assembly mitotic spindle organization mitotic spindle assembly organelle organization nuclear division mitotic cell cycle process nuclear chromosome segregation cellular process microtubule-based process mitotic spindle midzone assembly cytoskeleton organization developmental process neuroblast proliferation multicellular organismal process cell population proliferation cellular developmental process nervous system development generation of neurons neurogenesis multicellular organism development cell differentiation anatomical structure development neural precursor cell proliferation system development regulation of cytokinesis regulation of biological process regulation of cellular process positive regulation of cell division regulation of cell cycle process biological regulation positive regulation of biological process cytokinesis positive regulation of cell cycle regulation of cell division positive regulation of cytokinesis positive regulation of cell cycle process cell division regulation of cell cycle positive regulation of cellular process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cytoskeleton-dependent cytokinesis mitotic cytokinesis localization transport monoatomic ion transport establishment of localization cellular response to stimulus regulation of signaling small GTPase-mediated signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction regulation of signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette regulation of cell communication signal transduction homeostatic process hemopoiesis cell development erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation immune system process homeostasis of number of cells myeloid cell homeostasis erythrocyte homeostasis regulation of embryonic development regulation of multicellular organismal development regulation of developmental process embryo development regulation of multicellular organismal process assembly of actomyosin apparatus involved in cytokinesis actin cytoskeleton organization actomyosin structure organization cortical cytoskeleton organization actomyosin contractile ring assembly cortical actin cytoskeleton organization actin filament-based process cytokinetic process actomyosin contractile ring organization Rho protein signal transduction establishment of organelle localization cellular localization attachment of spindle microtubules to kinetochore metaphase chromosome alignment chromosome localization organelle localization establishment of localization in cell regulation of attachment of spindle microtubules to kinetochore establishment of chromosome localization	midbody cellular anatomical entity intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle midzone microtubule cytoskeleton non-membrane-bounded organelle extracellular exosome membrane-bounded organelle extracellular vesicle midbody cellular anatomical entity intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle midzone microtubule 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 mitotic spindle cell division site cell periphery cleavage furrow membrane plasma membrane plasma membrane region nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex centralspindlin complex intracellular protein-containing complex Flemming body cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex acrosomal vesicle intracellular vesicle endomembrane system cytoplasmic vesicle secretory granule secretory vesicle
B	Cell division control protein 42 homolog	protein binding binding protein domain specific binding GBD domain binding thioesterase binding enzyme binding pyrophosphatase activity GTPase 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 GTP-dependent protein binding protein binding binding protein domain specific binding GBD domain binding thioesterase binding enzyme binding pyrophosphatase activity GTPase 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 GTP-dependent protein binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding organic cyclic compound binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding kinase binding protein kinase binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity ubiquitin-protein transferase activity signaling receptor binding apolipoprotein A-I receptor binding apolipoprotein receptor binding mitogen-activated protein kinase kinase kinase binding identical protein binding G protein activity molecular function regulator activity	regulation of cytokinesis regulation of biological process regulation of cellular process positive regulation of cell division regulation of cell cycle process biological regulation positive regulation of biological process cytokinesis positive regulation of cell cycle regulation of cell division positive regulation of cytokinesis positive regulation of cell cycle process cellular process cell division regulation of cytokinesis regulation of biological process regulation of cellular process positive regulation of cell division regulation of cell cycle process biological regulation positive regulation of biological process cytokinesis positive regulation of cell cycle regulation of cell division positive regulation of cytokinesis positive regulation of cell cycle process cellular process cell division cell cycle regulation of cell cycle positive regulation of cellular process cell cycle process protein localization localization cellular localization cellular macromolecule localization macromolecule localization regulation of cellular component organization positive regulation of cellular component organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component organization pseudopodium assembly cellular component assembly positive regulation of cell projection organization cellular component organization or biogenesis plasma membrane bounded cell projection organization positive regulation of cellular component biogenesis regulation of cell projection organization regulation of cell projection assembly regulation of cellular component biogenesis regulation of plasma membrane bounded cell projection assembly positive regulation of pseudopodium assembly regulation of pseudopodium assembly cell projection assembly regulation of plasma membrane bounded cell projection organization positive regulation of plasma membrane bounded cell projection assembly pseudopodium organization establishment of organelle localization transport nucleus localization intracellular transport establishment of localization organelle localization establishment of localization in cell nuclear migration positive regulation of substrate adhesion-dependent cell spreading regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion substrate adhesion-dependent cell spreading cellular response to stimulus cell surface receptor signaling pathway response to stimulus neuropilin signaling pathway signaling cell communication signal transduction vesicle-mediated transport endosomal transport multicellular organismal process cellular developmental process 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 dendrite development cell differentiation anatomical structure development dendritic spine morphogenesis synapse organization system development developmental process dendritic spine development dendritic spine organization postsynapse organization dendrite morphogenesis nervous system development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis cell junction organization neuron development neuron projection organization small GTPase-mediated signal transduction Rho protein signal transduction intracellular signal transduction intracellular signaling cassette gland development animal organ development salivary gland development gland morphogenesis salivary gland morphogenesis anatomical structure formation involved in morphogenesis animal organ morphogenesis exocrine system development submandibular salivary gland formation organelle organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization cytoskeleton organization regulation of postsynapse organization regulation of synapse organization regulation of synapse structure or activity regulation of biological quality attachment of spindle microtubules to kinetochore metaphase chromosome alignment chromosome localization nuclear chromosome segregation regulation of attachment of spindle microtubules to kinetochore establishment of chromosome localization chromosome segregation organelle transport along microtubule microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process Golgi localization establishment of Golgi localization regulation of growth growth positive regulation of cell growth regulation of cell growth cell growth positive regulation of growth positive regulation of cell population proliferation respiratory tube development epithelial cell proliferation involved in lung morphogenesis lung development respiratory system development lung morphogenesis epithelial cell proliferation regulation of epithelial cell proliferation involved in lung morphogenesis epithelium development cell population proliferation positive regulation of epithelial cell proliferation involved in lung morphogenesis tube development positive regulation of epithelial cell proliferation lung epithelium development tissue development regulation of cell population proliferation regulation of epithelial cell proliferation regulation of synapse structural plasticity positive regulation of synapse structural plasticity establishment or maintenance of bipolar cell polarity establishment or maintenance of apical/basal cell polarity establishment or maintenance of cell polarity polarized epithelial cell differentiation establishment of monopolar cell polarity establishment or maintenance of monopolar cell polarity epithelial cell differentiation morphogenesis of a polarized epithelium establishment of epithelial cell apical/basal polarity morphogenesis of an epithelium establishment of cell polarity tissue morphogenesis establishment or maintenance of epithelial cell apical/basal polarity establishment of apical/basal cell polarity establishment of epithelial cell polarity heart process system process circulatory system process heart contraction blood circulation biological process involved in interspecies interaction between organisms 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 immune system process defense response to other organism response to stress innate immune response cellular response to cytokine stimulus response to external biotic stimulus positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion filopodium assembly regulation of filopodium assembly positive regulation of filopodium assembly modification of synaptic structure regulation of lamellipodium assembly regulation of lamellipodium organization lamellipodium assembly positive regulation of lamellipodium assembly positive regulation of lamellipodium organization lamellipodium organization positive regulation of organelle organization regulation of cytoskeleton organization regulation of actin filament-based process regulation of actin filament bundle assembly positive regulation of actin filament bundle assembly actin filament bundle organization positive regulation of stress fiber assembly stress fiber assembly regulation of actin filament organization actomyosin structure organization positive regulation of cytoskeleton organization positive regulation of supramolecular fiber organization regulation of organelle organization regulation of stress fiber assembly contractile actin filament bundle assembly regulation of actomyosin structure organization actin filament bundle assembly regulation of actin cytoskeleton organization regulation of supramolecular fiber organization endothelin receptor signaling pathway involved in heart process endothelin receptor signaling pathway G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway involved in heart process Golgi organization endomembrane system organization adherens junction organization cell-cell junction organization membrane organization import into cell phagocytosis, engulfment membrane invagination phagocytosis endocytosis plasma membrane invagination actin filament branching dendritic cell migration leukocyte migration mononuclear cell migration positive regulation of nucleobase-containing compound metabolic process positive regulation of DNA replication primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA replication positive regulation of DNA metabolic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA metabolic process regulation of DNA replication neuron apoptotic process positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process positive regulation of neuron apoptotic process programmed cell death regulation of neuron apoptotic process negative regulation of cellular component organization protein-containing complex organization negative regulation of biological process negative regulation of protein-containing complex assembly regulation of protein-containing complex assembly protein-containing complex assembly negative regulation of cellular process blood vessel morphogenesis angiogenesis sprouting angiogenesis vasculature development circulatory system development tube morphogenesis blood vessel development neuron fate commitment cell fate determination neuron fate determination cell fate commitment positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction positive regulation of response to stimulus positive regulation of JNK cascade regulation of intracellular signal transduction JNK cascade regulation of signaling positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication positive regulation of signaling cell junction assembly mitotic nuclear division organelle fission regulation of mitotic nuclear division mitotic cell cycle regulation of mitotic cell cycle nuclear division mitotic cell cycle process regulation of nuclear division Cdc42 protein signal transduction regulation of localization establishment of protein localization nitrogen compound transport regulation of protein localization positive regulation of establishment of protein localization positive regulation of protein transport positive regulation of intracellular transport regulation of intracellular transport regulation of transport regulation of establishment of protein localization regulation of protein transport positive regulation of transport protein transport regulation of cellular localization positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport regulation of modification of synaptic structure regulation of modification of postsynaptic structure modification of postsynaptic structure integrin-mediated signaling pathway modulation by host of viral process modulation by host of symbiont process biological process involved in interaction with symbiont biological process involved in symbiotic interaction heart development embryo development embryonic heart tube development embryonic organ development regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of endocytosis regulation of endocytosis positive regulation of pinocytosis regulation of vesicle-mediated transport regulation of pinocytosis pinocytosis cardiac conduction system development cardiac muscle tissue development striated muscle tissue development muscle tissue development heart morphogenesis cardiac neural crest cell development involved in heart development neural crest cell development mesenchyme development mesenchymal cell migration ameboidal-type cell migration neural crest cell migration stem cell development cardiac neural crest cell development involved in outflow tract morphogenesis neural crest cell differentiation cell migration involved in heart development cardiocyte differentiation stem cell differentiation cardiac neural crest cell differentiation involved in heart development outflow tract morphogenesis mesenchymal cell differentiation cardiac neural crest cell migration involved in outflow tract morphogenesis cell-cell adhesion	cell-cell junction anchoring junction cell junction cellular anatomical entity intracellular anatomical structure cytoplasm cytosol cell leading edge membrane-bounded organelle Golgi membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system cell-cell junction anchoring junction cell junction cellular anatomical entity intracellular anatomical structure cytoplasm cytosol cell leading edge membrane-bounded organelle Golgi membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle bounding membrane of organelle organelle organelle membrane neuron spine synapse neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection postsynapse dendrite dendritic tree midbody intracellular vesicle phagocytic vesicle cytoplasmic vesicle vesicle endocytic vesicle cell periphery plasma membrane leading edge membrane plasma membrane region lamellipodium membrane cell projection membrane lamellipodium intracellular non-membrane-bounded organelle cytoplasmic ribonucleoprotein granule supramolecular complex non-membrane-bounded organelle ribonucleoprotein granule Schaffer collateral - CA1 synapse apical part of cell cytoskeleton spindle spindle midzone microtubule cytoskeleton secretory granule secretory vesicle glutamatergic synapse Golgi transport complex protein-containing complex vesicle tethering complex storage vacuole vacuole cell body neuronal cell body actin-based cell projection filopodium myelin sheath centrosome microtubule organizing center mitotic spindle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR008936	Rho GTPase activation protein	Homologous Superfamily
A	IPR000198	Rho GTPase-activating protein domain	Domain
A	IPR002219	Protein kinase C-like, phorbol ester/diacylglycerol-binding domain	Domain
A	IPR046349	C1-like domain superfamily	Homologous Superfamily
B	IPR001806	Small GTPase	Family
B	IPR003578	Small GTPase Rho	Family
B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B	IPR037874	Cdc42	Family
B	IPR005225	Small GTP-binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9H0H5	polycystic ovary syndrome hepatocellular carcinoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma pituitary cancer Sclerocystic Ovaries adrenal cortex carcinoma tuberculosis breast cancer ductal breast carcinoma in situ large cell medulloblastoma malignant colon neoplasm medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm polycystic ovary syndrome hepatocellular carcinoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma pituitary cancer Sclerocystic Ovaries adrenal cortex carcinoma tuberculosis breast cancer ductal breast carcinoma in situ large cell medulloblastoma malignant colon neoplasm medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm sinusitis allergic rhinitis breast carcinoma endometriosis IgA glomerulonephritis lung adenocarcinoma malignant glioma nasopharyngeal carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor Sjogren syndrome atopic eczema cystic fibrosis glioblastoma invasive ductal breast carcinoma lung cancer malignant pancreatic neoplasm

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.