8IJ9 | pdb_00008ij9

Crystal structure of the ELKS1/Rab6B complex

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Cullin_AB	e8ij9B1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.1)
A	MRS2-like	e8ij9A1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: MRS2-like	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, 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, motili ...	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
C, D	ELKS/Rab6-interacting/CAST family member 1	small GTPase binding protein binding binding enzyme binding GTPase binding PDZ domain binding protein domain specific binding structural constituent of presynaptic active zone structural molecule activity structural constituent of synapse	localization establishment of protein localization protein transport transport macromolecule localization intracellular protein localization establishment of localization regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription localization establishment of protein localization protein transport transport macromolecule localization intracellular protein localization establishment of localization regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular localization intracellular transport vesicle-mediated transport endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell positive regulation of organelle organization regulation of localization regulated exocytosis membrane fusion synaptic vesicle cycle synaptic vesicle exocytosis cell communication vesicle-mediated transport in synapse vesicle organization regulation of calcium-dependent activation of synaptic vesicle fusion positive regulation of synaptic vesicle fusion to presynaptic active zone membrane regulation of synaptic vesicle membrane organization endomembrane system organization vesicle fusion to plasma membrane trans-synaptic signaling neurotransmitter secretion neurotransmitter transport positive regulation of synaptic vesicle membrane organization regulation of organelle organization organelle fusion signal release from synapse exocytosis positive regulation of vesicle fusion vesicle fusion regulation of cellular component organization positive regulation of cellular component organization signaling organelle membrane fusion positive regulation of biological process calcium-dependent activation of synaptic vesicle fusion regulation of vesicle fusion cellular component organization synaptic signaling secretion by cell signal release cellular component organization or biogenesis positive regulation of cellular process membrane organization regulation of synaptic vesicle fusion to presynaptic active zone membrane secretion regulation of transport cell-cell signaling export from cell synaptic vesicle fusion to presynaptic active zone membrane regulation of vesicle-mediated transport chemical synaptic transmission organelle organization positive regulation of transport anterograde trans-synaptic signaling synaptic vesicle membrane organization exocytic process maintenance of synapse structure cell junction maintenance maintenance of presynaptic active zone structure cell junction organization cellular component maintenance presynaptic active zone organization synapse organization inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis regulation of cytosolic calcium ion concentration regulation of presynaptic cytosolic calcium ion concentration cellular homeostasis neuron cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis synaptic vesicle priming cellular component biogenesis cellular component assembly protein-containing complex assembly protein-containing complex organization	cellular anatomical structure membrane intracellular organelle intracellular anatomical structure podosome cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton centrosome microtubule organizing center microtubule cytoskeleton presynapse cellular anatomical structure membrane intracellular organelle intracellular anatomical structure podosome cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton centrosome microtubule organizing center microtubule cytoskeleton presynapse presynaptic cytosol synapse cell junction cytoplasm cytosol cell cortex cytoplasmic region presynaptic active zone cytoplasmic component cell periphery cell cortex region presynaptic active zone GABA-ergic synapse glutamatergic synapse membrane-bounded organelle Golgi membrane Golgi apparatus intracellular membrane-bounded organelle endomembrane system bounding membrane of organelle organelle membrane postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization asymmetric synapse protein-containing complex catalytic complex IkappaB kinase complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups serine/threonine protein kinase complex transport vesicle intracellular vesicle cytoplasmic vesicle synaptic vesicle secretory vesicle vesicle exocytic vesicle cilium plasma membrane bounded cell projection ciliary basal body cell projection
A, B	Ras-related protein Rab-6B	cytoskeletal protein binding protein binding binding myosin V binding myosin binding pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity cytoskeletal protein binding protein binding binding myosin V binding myosin binding pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity 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 cation binding metal ion binding	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular localization establishment of protein localization intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport cellular localization establishment of protein localization intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum endosomal transport intercellular transport cytosolic transport retrograde transport, endosome to Golgi protein localization to Golgi membrane protein localization to Golgi apparatus protein localization to organelle localization within membrane protein localization to membrane cellular component organization organelle organization cellular component organization or biogenesis Golgi organization endomembrane system organization	cellular anatomical structure endomembrane system membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle Golgi apparatus Golgi membrane membrane cellular anatomical structure endomembrane system membrane-bounded organelle intracellular organelle intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle Golgi apparatus Golgi membrane membrane bounding membrane of organelle organelle membrane cytosol presynapse synapse cell junction endoplasmic reticulum-Golgi intermediate compartment nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen intracellular membraneless organelle cilium plasma membrane bounded cell projection ciliary basal body cell projection microtubule organizing center cytoskeleton membraneless organelle microtubule cytoskeleton

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR019323	ELKS/Rab6-interacting/CAST family member 1	Family
A, B	IPR005225	Small GTP-binding domain	Domain
A, B	IPR001806	Small GTPase	Family
A, B	IPR050227	Ras-related protein Rab	Family
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	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.