9PDD | pdb_00009pdd

22bin20S complex (NSF-alphaSNAP-2:2 syntaxin-1a:SNAP-25), hydrolyzing, class 29

External Resource: Annotation

Domain Annotation: SCOP2 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)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8044318	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cdc48 domain 2-like	8034899	3000725	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ADC-like	8042527	3001132	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8044318	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ADC-like	8042527	3001132	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cdc48 domain 2-like	8034899	3000725	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8044318	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecA-like P-loop NTPases	8044318	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cdc48 domain 2-like	8034899	3000725	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ADC-like	8042527	3001132	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ADC-like	8042527	3001132	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Cdc48 domain 2-like	8034899	3000725	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	RecA-like P-loop NTPases	8044318	3002019	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	RecA-like P-loop NTPases	8044318	3002019	SCOP2B (2022-06-29)
H [auth I]	SCOP2B Superfamily	TPR-like	8080089	3001345	SCOP2B (2022-06-29)
I [auth J]	SCOP2B Superfamily	TPR-like	8080089	3001345	SCOP2B (2022-06-29)
J [auth K]	SCOP2B Superfamily	TPR-like	8080089	3001345	SCOP2B (2022-06-29)
K [auth L]	SCOP2B Superfamily	TPR-like	8080089	3001345	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF02933	Cell division protein 48 (CDC48), domain 2 (CDC48_2)	Cell division protein 48 (CDC48), domain 2	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at t ...	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases Pfam:PF00004 is a substrate 185-residue recognition domain [1].	Domain
A, B, C, D, E A, B, C, D, E, F	PF17862	AAA+ lid domain (AAA_lid_3)	AAA+ lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
A, B, C, D, E A, B, C, D, E, F	PF02359	Cell division protein 48 (CDC48), N-terminal domain (CDC48_N)	Cell division protein 48 (CDC48), N-terminal domain	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at t ...	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases Pfam:PF00004 is a substrate 185-residue recognition domain [1].	Domain
A, B, C, D, E A, B, C, D, E, F	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain
A, B, C, D, E A, B, C, D, E, F	PF21964	NSF, AAA+ ATPase lid domain (NSF_ATPase_lid)	NSF, AAA+ ATPase lid domain	This entry represents the ATPase lid domain of the second AAA+ ATP-binding domain (also known as D2) of NSF proteins [1], found at the C-terminal. NFS proteins are essential membrane fusion events. They play the role of a chaperone by activating SNAP ...	This entry represents the ATPase lid domain of the second AAA+ ATP-binding domain (also known as D2) of NSF proteins [1], found at the C-terminal. NFS proteins are essential membrane fusion events. They play the role of a chaperone by activating SNAP receptor proteins (SNAREs) so that they can participate in membrane fusion [1-5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Vesicle-fusing ATPase	syntaxin-1 binding protein binding binding SNARE binding syntaxin binding PDZ domain binding protein domain specific binding protein-containing complex destabilizing activity ATP-dependent protein disaggregase activity ATP-dependent activity ionotropic glutamate receptor binding signaling receptor binding glutamate receptor binding adenyl ribonucleotide binding syntaxin-1 binding protein binding binding SNARE binding syntaxin binding PDZ domain binding protein domain specific binding protein-containing complex destabilizing activity ATP-dependent protein disaggregase activity ATP-dependent activity ionotropic glutamate receptor binding signaling receptor binding glutamate receptor binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding kinase binding enzyme binding protein kinase binding protein-containing complex binding pyrophosphatase activity ATP hydrolysis 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 cation binding metal ion binding identical protein binding	Golgi to plasma membrane transport establishment of protein localization cellular localization protein localization to cell periphery nitrogen compound transport 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 Golgi to plasma membrane transport establishment of protein localization cellular localization protein localization to cell periphery nitrogen compound transport 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 regulation of cellular process catabolic process positive regulation of protein metabolic process positive regulation of biological process macromolecule catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of biological process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein catabolic process intra-Golgi vesicle-mediated transport regulation of signaling signaling regulation of receptor recycling receptor recycling receptor metabolic process positive regulation of receptor recycling positive regulation of signaling monoatomic ion transport potassium ion transport monoatomic cation transport metal ion transport intracellular transport establishment of localization in cell intracellular protein transport cellular component disassembly protein-containing complex organization SNARE complex disassembly protein-containing complex disassembly cellular component organization cellular component organization or biogenesis	midbody cellular anatomical structure membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle Golgi stack cytoplasm cytosol midbody cellular anatomical structure membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle Golgi stack cytoplasm cytosol cell periphery plasma membrane membrane
G	Unknown SNARE protein	-	-	-
H [auth I], I [auth J], J [auth K], K [auth L]	Alpha-soluble NSF attachment protein	protein binding binding SNARE binding syntaxin binding protein-containing complex binding soluble NSF attachment protein activity protein-macromolecule adaptor activity molecular adaptor activity	membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport apical protein localization cellular component disassembly protein-containing complex organization protein-containing complex disassembly regulated exocytosis regulation of cellular process regulation of cellular component organization synaptic vesicle priming signaling regulation of synaptic vesicle priming synaptic vesicle cycle synaptic vesicle exocytosis vesicle-mediated transport cell communication vesicle-mediated transport in synapse cellular component biogenesis synaptic signaling regulation of protein-containing complex assembly cellular component assembly secretion by cell signal release protein-containing complex assembly trans-synaptic signaling regulation of biological process neurotransmitter secretion secretion biological regulation export from cell cell-cell signaling neurotransmitter transport regulation of cellular component biogenesis chemical synaptic transmission signal release from synapse exocytosis anterograde trans-synaptic signaling exocytic process SNARE complex disassembly cellular developmental process generation of neurons neurogenesis neuron differentiation cell differentiation synaptic transmission, glutamatergic positive regulation of molecular function regulation of molecular function regulation of ATP-dependent activity positive regulation of ATP-dependent activity	cellular anatomical structure neuromuscular junction synapse cell junction axon neuron projection axon terminus plasma membrane bounded cell projection presynapse cell projection distal axon terminal bouton neuron projection terminus SNARE complex cellular anatomical structure neuromuscular junction synapse cell junction axon neuron projection axon terminus plasma membrane bounded cell projection presynapse cell projection distal axon terminal bouton neuron projection terminus SNARE complex protein-containing complex intracellular anatomical structure membrane synaptobrevin 2-SNAP-25-syntaxin-1a complex membrane protein complex cytoplasm postsynapse glutamatergic synapse plasma membrane presynaptic active zone membrane presynaptic membrane synaptic membrane cell periphery plasma membrane region presynaptic active zone

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR004201	CDC48, domain 2	Domain
A, B, C, D, E A, B, C, D, E, F	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR003959	ATPase, AAA-type, core	Domain
A, B, C, D, E A, B, C, D, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR029067	CDC48 domain 2-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR041569	AAA ATPase, AAA+ lid domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR039812	Vesicle-fusing ATPase	Family
A, B, C, D, E A, B, C, D, E, F	IPR054419	NSF, AAA+ ATPase lid domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR003960	ATPase, AAA-type, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR003338	CDC48, N-terminal subdomain	Domain
H [auth I], I [auth J], J [auth K], K [auth L]	IPR000744	NSF attachment protein	Family
H [auth I], I [auth J], J [auth K], K [auth L]	IPR011990	Tetratricopeptide-like helical 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.