8EZJ | pdb_00008ezj

Cryo-EM structure of the S. cerevisiae Arf-like protein Arl1 bound to the Arf guanine nucleotide exchange factor Gea2

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8060235	3002022	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ras-like P-loop GTPases	8060235	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sec7 domain-like	8040687	3001279	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sec7 domain-like	8040687	3001279	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)
D	Glyco_hydro_43	e8ezjD1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)
C	Glyco_hydro_43	e8ezjC1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF00025	ADP-ribosylation factor family (Arf)	ADP-ribosylation factor family	Pfam combines a number of different Prosite families together	Domain
A, B	PF12783	Mon2/Sec7/BIG1-like, HUS domain (Sec7-like_HUS)	Mon2/Sec7/BIG1-like, HUS domain	-	Repeat
A, B	PF01369	Sec7 domain (Sec7)	Sec7 domain	The Sec7 domain is a guanine-nucleotide-exchange-factor (GEF) for the Pfam:PF00025 family [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	ADP-ribosylation factor-like protein 1	binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule 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	Golgi to plasma membrane transport establishment of protein localization cellular localization protein localization to cell periphery post-Golgi vesicle-mediated transport transport establishment of protein localization to membrane protein localization to plasma membrane establishment of protein localization to plasma membrane Golgi to plasma membrane protein transport localization within membrane protein localization to membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane Golgi to plasma membrane transport establishment of protein localization cellular localization protein localization to cell periphery post-Golgi vesicle-mediated transport transport establishment of protein localization to membrane protein localization to plasma membrane establishment of protein localization to plasma membrane Golgi to plasma membrane protein transport localization within membrane protein localization to membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization protein transport macromolecule localization cellular process intracellular protein localization Golgi vesicle transport cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress response to starvation import into cell endocytosis cellular response to heat response to heat response to abiotic stimulus response to temperature stimulus protein-containing complex localization intracellular transport establishment of localization in cell intracellular protein transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism protein targeting establishment of protein localization to vacuole protein localization to vacuole establishment of protein localization to organelle protein localization to organelle vacuolar transport protein targeting to vacuole protein localization to Golgi apparatus cytoplasm to vacuole targeting by the Cvt pathway membrane organization cellular component organization trans-Golgi network membrane organization cellular component organization or biogenesis autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis organelle organization cellular component assembly protein localization to phagophore assembly site response to endoplasmic reticulum stress	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle trans-Golgi network endosome membrane cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle trans-Golgi network endosome membrane membrane endosome intracellular vesicle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle vesicle organelle membrane phagophore assembly site
A, B	ARF guanine-nucleotide exchange factor 2	GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum cellular response to stimulus localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process small GTPase-mediated signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction biological regulation regulation of signal transduction ARF protein signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus regulation of ARF protein signal transduction intracellular signaling cassette regulation of cell communication signal transduction cellular component organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization cellular localization intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport intercellular transport establishment of localization in cell vesicle organization secretory granule organization endomembrane system organization	membrane-bounded organelle Golgi membrane intracellular anatomical structure Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane cytosol membrane-bounded organelle Golgi membrane intracellular anatomical structure Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane cytosol Golgi apparatus subcompartment organelle subcompartment Golgi cisterna Golgi cis cisterna Golgi stack

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C, D	IPR005225	Small GTP-binding domain	Domain
C, D	IPR024156	Small GTPase superfamily, ARF type	Family
C, D	IPR006689	Small GTPase superfamily, ARF/SAR type	Family
A, B	IPR000904	Sec7 domain	Domain
A, B	IPR032691	Mon2/Sec7/BIG1-like, HUS domain	Domain
A, B	IPR023394	Sec7, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR035999	Sec7 domain superfamily	Homologous Superfamily

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.