3A58

Crystal structure of Sec3p - Rho1p complex from Saccharomyces cerevisiae

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3a58b_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	automated matches	Baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
D	d3a58d_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	automated matches	Baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
F	d3a58f_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	automated matches	Baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Ras-like monodomain GTPases	8057501	4004043	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Ras-like P-loop GTPases	8057502	3002022	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8057502	3002022	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8057502	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	Sec3-PIP2_bind	e3a58A1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Sec3-PIP2_bind	ECOD (1.6)
C	Sec3-PIP2_bind	e3a58C1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Sec3-PIP2_bind	ECOD (1.6)
E	Sec3-PIP2_bind	e3a58E1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Sec3-PIP2_bind	ECOD (1.6)
B	Ras	e3a58B1	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)
D	Ras	e3a58D1	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)
F	Ras	e3a58F1	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	2.30.29.90	Mainly Beta	Roll	PH-domain like		CATH (4.3.0)
C	2.30.29.90	Mainly Beta	Roll	PH-domain like		CATH (4.3.0)
E	2.30.29.90	Mainly Beta	Roll	PH-domain like		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)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
F	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, C, E	PF15277	Exocyst complex component SEC3 N-terminal PIP2 binding PH (Sec3-PIP2_bind)	Exocyst complex component SEC3 N-terminal PIP2 binding PH	This is the N-terminal domain of fungal and eukaryotic Sec3 proteins. Sec3 is a component of the exocyst complex that is involved in the docking of exocytic vesicles with fusion sites on the plasma membrane.This N-terminal domain contains a cryptic p ...	This is the N-terminal domain of fungal and eukaryotic Sec3 proteins. Sec3 is a component of the exocyst complex that is involved in the docking of exocytic vesicles with fusion sites on the plasma membrane.This N-terminal domain contains a cryptic pleckstrin homology (PH) fold, and all six positively charged lysine and arginine residues in the PH domain predicted to bind the PIP2 head group are conserved. The exocyst complex is essential for many exocytic events, by tethering vesicles at the plasma membrane for fusion. In fission yeast, polarised exocytosis for growth relies on the combined action of the exocyst at cell poles and myosin-driven transport along actin cables [1].	Domain
B, D, F	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, C, E	Exocyst complex component SEC3	binding ion binding phosphatidylinositol-4,5-bisphosphate binding anion binding phosphatidylinositol bisphosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding small molecule binding small GTPase binding protein binding enzyme binding GTPase binding	cellular component organization organelle organization organelle inheritance cellular process cellular component organization or biogenesis endoplasmic reticulum inheritance endoplasmic reticulum organization endomembrane system organization Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization cellular component organization organelle organization organelle inheritance cellular process cellular component organization or biogenesis endoplasmic reticulum inheritance endoplasmic reticulum organization endomembrane system organization Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization Golgi vesicle transport protein-containing complex organization secretion exocyst assembly export from cell membrane docking cellular component biogenesis organelle localization by membrane tethering cellular component assembly secretion by cell exocytosis organelle localization protein-containing complex assembly vesicle docking exocytic process vesicle docking involved in exocytosis protein localization establishment of protein localization nitrogen compound transport protein transport cellular macromolecule localization macromolecule localization exocyst localization protein-containing complex localization	incipient cellular bud site cellular anatomical entity site of polarized growth cellular bud cellular bud tip cell projection mating projection cell tip mating projection tip cell pole plasma membrane bounded cell projection cell periphery plasma membrane membrane incipient cellular bud site cellular anatomical entity site of polarized growth cellular bud cellular bud tip cell projection mating projection cell tip mating projection tip cell pole plasma membrane bounded cell projection cell periphery plasma membrane membrane ascospore-type prospore prospore membrane intracellular immature spore cellular bud neck intracellular anatomical structure cytoplasm protein-containing complex cell cortex exocyst vesicle tethering complex
B, D, F	GTP-binding protein RHO1	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 binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate 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 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 enzyme activator activity molecular function activator activity molecular function regulator activity protein binding G-protein beta-subunit binding kinase binding enzyme binding protein kinase binding	reproductive process in single-celled organism reproductive process budding cell bud growth growth cellular process cell division cell budding asexual reproduction cellular component organization regulation of cellular component size biological regulation cellular component organization or biogenesis regulation of biological quality regulation of cell size reproductive process in single-celled organism reproductive process budding cell bud growth growth cellular process cell division cell budding asexual reproduction cellular component organization regulation of cellular component size biological regulation cellular component organization or biogenesis regulation of biological quality regulation of cell size regulation of anatomical structure size organelle organization actin cytoskeleton organization actin filament-based process cytoskeleton organization regulation of fungal-type cell wall organization fungal-type cell wall organization regulation of biological process regulation of cellular process regulation of cellular component organization regulation of cell wall organization or biogenesis cell wall organization or biogenesis cell wall organization fungal-type cell wall organization or biogenesis external encapsulating structure organization cell wall beta-glucan metabolic process (1->3)-beta-D-glucan metabolic process regulation of primary metabolic process beta-glucan biosynthetic process regulation of (1->3)-beta-D-glucan metabolic process regulation of (1->3)-beta-D-glucan biosynthetic process beta-glucan metabolic process carbohydrate biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process (1->3)-beta-D-glucan biosynthetic process biosynthetic process cell wall (1->3)-beta-D-glucan biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process regulation of beta-glucan metabolic process cell wall macromolecule metabolic process regulation of beta-glucan biosynthetic process glucan biosynthetic process cellular biosynthetic process regulation of glucan biosynthetic process regulation of cell wall (1->3)-beta-D-glucan biosynthetic process regulation of polysaccharide metabolic process glucan metabolic process polysaccharide metabolic process cell wall (1->3)-beta-D-glucan metabolic process regulation of carbohydrate metabolic process cell wall polysaccharide metabolic process regulation of biosynthetic process carbohydrate metabolic process regulation of cell wall macromolecule metabolic process polysaccharide biosynthetic process regulation of macromolecule metabolic process macromolecule biosynthetic process cell wall beta-glucan biosynthetic process regulation of cellular biosynthetic process regulation of polysaccharide biosynthetic process cell wall polysaccharide biosynthetic process regulation of carbohydrate biosynthetic process cellular component biogenesis cell wall biogenesis fungal-type cell wall biogenesis cytokinesis, division site positioning septin ring organization cytoskeleton-dependent cytokinesis cellular bud neck septin ring organization mitotic cytokinesis cytokinesis mitotic cell cycle mitotic cell cycle process septin cytoskeleton organization cytokinetic process cell cycle cell cycle process assembly of actomyosin apparatus involved in cytokinesis positive regulation of organelle organization mitotic actomyosin contractile ring assembly regulation of cytokinesis, actomyosin contractile ring assembly regulation of mitotic cytokinetic process mitotic cytokinetic process regulation of mitotic actomyosin contractile ring assembly cellular component assembly regulation of mitotic cytokinesis positive regulation of cytokinesis cortical actin cytoskeleton organization positive regulation of cytokinesis, actomyosin contractile ring assembly regulation of cytokinesis assembly of actomyosin apparatus involved in mitotic cytokinesis actomyosin structure organization regulation of cell cycle process cortical cytoskeleton organization positive regulation of cytoskeleton organization regulation of cytokinetic process regulation of organelle organization regulation of cytoskeleton organization regulation of actin filament-based process positive regulation of cellular component organization positive regulation of cell division positive regulation of mitotic cytokinesis positive regulation of biological process actomyosin contractile ring assembly regulation of cell division positive regulation of mitotic actomyosin contractile ring assembly positive regulation of mitotic cytokinetic process positive regulation of cell cycle process regulation of cell cycle positive regulation of cellular process regulation of cellular component biogenesis positive regulation of cell cycle regulation of actomyosin structure organization regulation of actin cytoskeleton organization actomyosin contractile ring organization actin filament organization supramolecular fiber organization sexual reproduction cellular developmental process cellular component assembly involved in morphogenesis cell development spore wall biogenesis developmental process involved in reproduction meiotic cell cycle process ascospore wall assembly cellular anatomical entity morphogenesis spore wall assembly sexual sporulation cell differentiation anatomical structure development developmental process cell wall assembly sexual sporulation resulting in formation of a cellular spore meiotic cell cycle ascospore wall biogenesis fungal-type cell wall assembly sporulation resulting in formation of a cellular spore anatomical structure morphogenesis ascospore formation anatomical structure formation involved in morphogenesis sporulation cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction response to stimulus signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus protein kinase C signaling regulation of intracellular signal transduction signal transduction regulation of signaling positive regulation of intracellular signal transduction regulation of protein kinase C signaling positive regulation of protein kinase C signaling regulation of response to stimulus regulation of cell communication positive regulation of signaling secondary cell septum biogenesis regulation of secondary cell septum biogenesis mitotic division septum assembly cell septum assembly division septum assembly vacuole organization regulation of vacuole organization organelle fusion vacuole fusion vacuole fusion, non-autophagic regulation of vacuole fusion, non-autophagic regulation of localization localization exocyst localization regulation of exocyst localization protein-containing complex localization protein localization cellular localization regulation of protein localization regulation of cellular localization cellular macromolecule localization macromolecule localization import into cell regulation of transport transport regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport positive regulation of endocytosis positive regulation of transport endocytosis regulation of endocytosis small GTPase-mediated signal transduction intracellular signaling cassette	incipient cellular bud site cellular anatomical entity site of polarized growth membrane cellular bud cellular bud tip cell projection mating projection cell tip mating projection tip cell pole plasma membrane bounded cell projection intracellular anatomical structure cytoplasm incipient cellular bud site cellular anatomical entity site of polarized growth membrane cellular bud cellular bud tip cell projection mating projection cell tip mating projection tip cell pole plasma membrane bounded cell projection intracellular anatomical structure cytoplasm cytosol fungal-type cell wall cell periphery external encapsulating structure cell wall membrane-bounded organelle intracellular organelle Golgi apparatus organelle intracellular membrane-bounded organelle endomembrane system spore wall peroxisome microbody endosome membrane endosome intracellular vesicle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle vesicle organelle membrane mitochondrial membrane mitochondrion organelle outer membrane organelle envelope mitochondrial envelope mitochondrial outer membrane outer membrane microbody membrane peroxisomal membrane cellular bud neck plasma membrane vacuolar membrane storage vacuole lytic vacuole vacuole fungal-type vacuole lytic vacuole membrane fungal-type vacuole membrane protein-containing complex catalytic complex transferase complex 1,3-beta-D-glucan synthase complex endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E	IPR048628	Exocyst complex component Sec3, C-terminal	Domain
A, C, E	IPR028258	Exocyst complex component Sec3, PIP2-binding N-terminal domain	Domain
A, C, E	IPR019160	Exocyst complex component Sec3, coiled-coil	Domain
B, D, F	IPR003578	Small GTPase Rho	Family
B, D, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, D, F	IPR005225	Small GTP-binding domain	Domain
B, D, F	IPR001806	Small GTPase	Family

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.