1DS6

CRYSTAL STRUCTURE OF A RAC-RHOGDI COMPLEX

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	d1ds6a_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	Rac	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1ds6b_	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	RhoGDI-like	Rho GDP-dissociation inhibitor 1, RhoGDI	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)
A	SCOP2 Family	Ras-like monodomain GTPases	8057477	4004043	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ras-like P-loop GTPases	8057478	3002022	SCOP2 (2022-06-29)
B	SCOP2 Family	RhoGDI-like	8055014	4007518	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	E set domains	8055015	3000070	SCOP2 (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	Ras	e1ds6A1	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)
B	Rho_GDI	e1ds6B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Rho_GDI	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	2.70.50.30	Mainly Beta	Distorted Sandwich	Coagulation Factor XIII	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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
B	PF02115	RHO protein GDP dissociation inhibitor (Rho_GDI)	RHO protein GDP dissociation inhibitor	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	RAS-RELATED C3 BOTULINUM TOXIN SUBSTRATE 2	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 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 enzyme regulator activity molecular function regulator activity protein kinase regulator activity kinase regulator activity 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	regulation of biological process regulation of cell motility regulation of cellular process regulation of leukocyte migration biological regulation neutrophil migration granulocyte migration leukocyte migration immune system process regulation of locomotion myeloid leukocyte migration regulation of cell migration cell migration cellular process regulation of biological process regulation of cell motility regulation of cellular process regulation of leukocyte migration biological regulation neutrophil migration granulocyte migration leukocyte migration immune system process regulation of locomotion myeloid leukocyte migration regulation of cell migration cell migration cellular process regulation of immune system process cell motility regulation of neutrophil migration locomotion multicellular organismal process enucleate erythrocyte maturation erythrocyte development cellular developmental process homeostatic process cell development erythrocyte maturation enucleate erythrocyte development cellular component organization cell differentiation anatomical structure development cellular component organization or biogenesis myeloid cell homeostasis cell maturation erythrocyte homeostasis cellular component disassembly developmental process enucleation hemopoiesis erythrocyte enucleation developmental maturation erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation anatomical structure maturation myeloid cell development homeostasis of number of cells enucleate erythrocyte differentiation regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation T cell activation lymphocyte proliferation regulation of multicellular organismal process T cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation cell activation regulation of T cell activation regulation of T cell proliferation regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation respiratory burst metabolic process regulation of respiratory burst regulation of metabolic process cellular response to stimulus positive regulation of locomotion response to stimulus positive regulation of chemotaxis positive regulation of cell migration positive regulation of neutrophil chemotaxis taxis positive regulation of immune system process chemotaxis regulation of leukocyte chemotaxis response to external stimulus positive regulation of leukocyte chemotaxis positive regulation of granulocyte chemotaxis regulation of response to stimulus response to chemical regulation of neutrophil chemotaxis regulation of response to external stimulus positive regulation of biological process neutrophil chemotaxis positive regulation of response to stimulus regulation of granulocyte chemotaxis positive regulation of response to external stimulus positive regulation of cell motility positive regulation of cellular process cell chemotaxis positive regulation of leukocyte migration positive regulation of neutrophil migration regulation of chemotaxis cellular response to chemical stimulus granulocyte chemotaxis leukocyte chemotaxis positive regulation of mast cell proliferation positive regulation of cell population proliferation regulation of mast cell proliferation positive regulation of leukocyte proliferation mast cell proliferation signaling signal transduction cell communication cellular metabolic process reactive oxygen species metabolic process hydrogen peroxide metabolic process regulation of cellular metabolic process regulation of hydrogen peroxide metabolic process regulation of reactive oxygen species metabolic process protein localization regulation of localization establishment of protein localization cellular localization regulation of protein localization protein targeting regulation of protein targeting to mitochondrion positive regulation of establishment of protein localization localization cellular macromolecule localization positive regulation of protein targeting to mitochondrion regulation of establishment of protein localization establishment of localization regulation of establishment of protein localization to mitochondrion establishment of protein localization to organelle regulation of protein targeting regulation of cellular localization macromolecule localization protein localization to organelle protein localization to mitochondrion positive regulation of protein localization protein targeting to mitochondrion establishment of protein localization to mitochondrion positive regulation of establishment of protein localization to mitochondrion cellular component biogenesis cellular component assembly cell projection organization cell projection assembly cell adhesion cell-cell adhesion lymphocyte aggregation leukocyte cell-cell adhesion leukocyte aggregation regulation of mast cell chemotaxis mast cell migration mast cell chemotaxis small GTPase-mediated signal transduction intracellular signal transduction intracellular signaling cassette G protein-coupled receptor signaling pathway organelle organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization cytoskeleton organization regulation of cellular component organization positive regulation of cellular component organization plasma membrane bounded cell projection assembly regulation of lamellipodium assembly regulation of lamellipodium organization positive regulation of cell projection organization lamellipodium assembly plasma membrane bounded cell projection organization positive regulation of cellular component biogenesis regulation of cell projection organization regulation of cell projection assembly positive regulation of lamellipodium assembly regulation of cellular component biogenesis positive regulation of lamellipodium organization regulation of plasma membrane bounded cell projection assembly lamellipodium organization regulation of plasma membrane bounded cell projection organization positive regulation of plasma membrane bounded cell projection assembly tissue remodeling bone remodeling anatomical structure homeostasis tissue homeostasis bone resorption establishment of organelle localization regulation of immune effector process regulation of myeloid leukocyte mediated immunity regulated exocytosis cell activation involved in immune response leukocyte degranulation myeloid leukocyte mediated immunity vesicle-mediated transport myeloid leukocyte activation establishment of localization in cell leukocyte mediated immunity immune response vacuolar localization mast cell degranulation immune effector process regulation of secretion regulation of leukocyte mediated immunity exocytosis lysosome localization transport regulation of mast cell degranulation regulation of regulated secretory pathway secretion by cell regulation of secretion by cell organelle localization leukocyte activation involved in immune response mast cell activation regulation of leukocyte degranulation mast cell mediated immunity secretion regulation of transport export from cell regulation of vesicle-mediated transport myeloid cell activation involved in immune response mast cell activation involved in immune response regulation of exocytosis regulation of cell-substrate adhesion regulation of cell adhesion cell-substrate adhesion	anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol cell periphery plasma membrane membrane protein-containing complex catalytic complex plasma membrane protein complex NADPH oxidase complex membrane protein complex oxidoreductase complex organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane intracellular vesicle phagocytic vesicle phagocytic vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane endocytic vesicle membrane endocytic vesicle mitochondrial membrane mitochondrion organelle outer membrane mitochondrial envelope mitochondrial outer membrane outer membrane
B	RHO GDP-DISSOCIATION INHIBITOR 2	small GTPase binding protein binding binding enzyme binding GTPase binding GTPase regulator activity enzyme regulator activity GDP-dissociation inhibitor activity nucleoside-triphosphatase regulator activity Rho GDP-dissociation inhibitor activity molecular function regulator activity enzyme activator activity GTPase activator activity molecular function activator activity small GTPase binding protein binding binding enzyme binding GTPase binding GTPase regulator activity enzyme regulator activity GDP-dissociation inhibitor activity nucleoside-triphosphatase regulator activity Rho GDP-dissociation inhibitor activity molecular function regulator activity enzyme activator activity GTPase activator activity molecular function activator activity 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	response to stimulus response to redox state cellular response to redox state multicellular organismal process multi-multicellular organism process negative regulation of locomotion regulation of cell motility regulation of cellular process regulation of trophoblast cell migration regulation of reproductive process reproductive process negative regulation of biological process multicellular organism development ameboidal-type cell migration response to stimulus response to redox state cellular response to redox state multicellular organismal process multi-multicellular organism process negative regulation of locomotion regulation of cell motility regulation of cellular process regulation of trophoblast cell migration regulation of reproductive process reproductive process negative regulation of biological process multicellular organism development ameboidal-type cell migration anatomical structure development regulation of cell migration negative regulation of cellular process cell migration regulation of multicellular organismal process cell motility female pregnancy embryo implantation negative regulation of trophoblast cell migration locomotion negative regulation of cell migration trophoblast cell migration developmental process regulation of biological process biological regulation negative regulation of reproductive process regulation of locomotion negative regulation of cell motility cellular process negative regulation of multicellular organismal process multi-organism reproductive process cellular response to stimulus small GTPase-mediated signal transduction signaling Rho protein signal transduction intracellular signal transduction cell communication intracellular signaling cassette signal transduction regulation of signaling regulation of small GTPase mediated signal transduction regulation of signal transduction regulation of Rho protein signal transduction regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication	membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle vesicle membrane cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle vesicle membrane cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR003578	Small GTPase Rho	Family
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR001806	Small GTPase	Family
A	IPR005225	Small GTP-binding protein domain	Domain
B	IPR024792	Rho GDP-dissociation inhibitor domain superfamily	Homologous Superfamily
B	IPR014756	Immunoglobulin E-set	Homologous Superfamily
B	IPR000406	Rho protein GDP-dissociation inhibitor	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P15153	neutrophil immunodeficiency syndrome melanoma juvenile myelomonocytic leukemia lymphoma heart disease Liver Cirrhosis, Experimental malignant glioma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous neoplasm celiac disease psoriasis cutaneous lupus erythematosus uterine corpus leiomyoma Graves disease neutrophil immunodeficiency syndrome melanoma juvenile myelomonocytic leukemia lymphoma heart disease Liver Cirrhosis, Experimental malignant glioma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous neoplasm celiac disease psoriasis cutaneous lupus erythematosus uterine corpus leiomyoma Graves disease hypothyroidism juvenile idiopathic arthritis lung cancer lymphoplasmacytic lymphoma malignant mesothelioma ovarian cancer periodontitis chronic kidney disease Sjogren syndrome cutaneous melanoma vitiligo ductal breast carcinoma in situ Hashimoto thyroiditis interstitial cystitis lung carcinoma malignant ependymoma pancreatic ductal adenocarcinoma pilocytic astrocytoma congenital anemia ulcerative colitis cystic fibrosis glioblastoma invasive ductal breast carcinoma
B	Pharos: P52566	acute coronary syndrome HIV infectious disease Liver Cirrhosis, Experimental malignant pancreatic neoplasm osteosarcoma pilocytic astrocytoma Sjogren syndrome Crohn disease diabetes mellitus juvenile dermatomyositis lung carcinoma malignant glioma non-small cell lung carcinoma ovarian cancer psoriasis acute coronary syndrome HIV infectious disease Liver Cirrhosis, Experimental malignant pancreatic neoplasm osteosarcoma pilocytic astrocytoma Sjogren syndrome Crohn disease diabetes mellitus juvenile dermatomyositis lung carcinoma malignant glioma non-small cell lung carcinoma ovarian cancer psoriasis subependymal giant cell astrocytoma astrocytic tumor cystic fibrosis Duchenne muscular dystrophy lymphoplasmacytic lymphoma malignant mesothelioma osteoarthritis pancreatic intraductal papillary-mucinous carcinoma rheumatoid arthritis ulcerative colitis breast cancer dermatomyositis glioblastoma invasive ductal breast carcinoma lung cancer malignant ependymoma

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.