8WLJ | pdb_00008wlj

Cryo-EM structure of human apo VMAT2 with nanobody in an outward-facing conformation

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e8wljA01	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: Galactose-binding domain-like	T:	F:	ECOD (20:10:01)
B [auth D]		e8wljD01	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: Galactose-binding domain-like	T:	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07690	Major Facilitator Superfamily (MFS_1)	Major Facilitator Superfamily	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Synaptic vesicular amine transporter	monoatomic cation transmembrane transporter activity monoamine:proton antiporter activity antiporter activity proton transmembrane transporter activity active transmembrane transporter activity monoamine transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity secondary active transmembrane transporter activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity solute:sodium symporter activity solute:monoatomic cation symporter activity monoatomic cation transmembrane transporter activity monoamine:proton antiporter activity antiporter activity proton transmembrane transporter activity active transmembrane transporter activity monoamine transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity secondary active transmembrane transporter activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity solute:sodium symporter activity solute:monoatomic cation symporter activity monoatomic anion:sodium symporter activity sodium ion transmembrane transporter activity serotonin:sodium:chloride symporter activity sodium:chloride symporter activity monoatomic anion:monoatomic cation symporter activity chloride:monoatomic cation symporter activity metal ion transmembrane transporter activity symporter activity	localization transport neurotransmitter transport establishment of localization behavior multicellular organismal process locomotory behavior monoamine transport cellular localization nitrogen compound transport signaling organic hydroxy compound transport dopamine transport cell communication localization transport neurotransmitter transport establishment of localization behavior multicellular organismal process locomotory behavior monoamine transport cellular localization nitrogen compound transport signaling organic hydroxy compound transport dopamine transport cell communication secretion by cell catecholamine transport signal release establishment of localization in cell somato-dendritic dopamine secretion regulation of biological process secretion biological regulation export from cell cell-cell signaling dopamine secretion catecholamine secretion cellular process import into cell serotonin uptake serotonin transport neurotransmitter uptake neurotransmitter reuptake reactive oxygen species biosynthetic process regulation of biosynthetic process regulation of cellular process negative regulation of metabolic process reactive oxygen species metabolic process negative regulation of biological process regulation of reactive oxygen species biosynthetic process negative regulation of reactive oxygen species metabolic process biosynthetic process negative regulation of reactive oxygen species biosynthetic process negative regulation of biosynthetic process negative regulation of cellular process metabolic process regulation of metabolic process regulation of reactive oxygen species metabolic process establishment of organelle localization regulated exocytosis response to stimulus cell activation involved in immune response leukocyte degranulation vesicle-mediated transport myeloid leukocyte activation myeloid leukocyte mediated immunity leukocyte mediated immunity regulation of biological quality immune response regulation of hormone levels histamine secretion by mast cell vacuolar localization mast cell degranulation immune effector process histamine secretion involved in inflammatory response exocytosis lysosome localization inflammatory response histamine production involved in inflammatory response hormone secretion histamine secretion leukocyte activation organelle localization response to stress leukocyte activation involved in immune response histamine transport mast cell activation mast cell mediated immunity production of molecular mediator involved in inflammatory response defense response cell activation myeloid cell activation involved in immune response mast cell activation involved in immune response immune system process exocytic process hormone transport response to chemical response to toxic substance histamine uptake trans-synaptic signaling synaptic signaling anterograde trans-synaptic signaling chemical synaptic transmission serotonin secretion serotonin production involved in inflammatory response serotonin secretion involved in inflammatory response serotonin secretion by mast cell synaptic vesicle cycle vesicle-mediated transport in synapse amine transport aminergic neurotransmitter loading into synaptic vesicle neurotransmitter loading into synaptic vesicle response to amine response to nitrogen compound response to amphetamine developmental process multicellular organism development anatomical structure development post-embryonic development	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure clathrin-sculpted vesicle intracellular vesicle transport vesicle membrane endomembrane system intracellular organelle bounding membrane of organelle vesicle membrane cytoplasmic vesicle clathrin-coated vesicle coated vesicle cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure clathrin-sculpted vesicle intracellular vesicle transport vesicle membrane endomembrane system intracellular organelle bounding membrane of organelle vesicle membrane cytoplasmic vesicle clathrin-coated vesicle coated vesicle vesicle clathrin-coated vesicle membrane clathrin-sculpted monoamine transport vesicle transport vesicle intracellular membrane-bounded organelle clathrin-sculpted monoamine transport vesicle membrane cytoplasmic vesicle membrane coated vesicle membrane organelle cytoplasm organelle membrane axon synapse neuron projection axon terminus plasma membrane bounded cell projection presynapse cell projection distal axon terminal bouton cell junction neuron projection terminus centrosome microtubule organizing center cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cell periphery plasma membrane somatodendritic compartment dendrite dendritic tree dopaminergic synapse secretory granule secretory vesicle secretory granule membrane synaptic vesicle synaptic vesicle membrane exocytic vesicle membrane exocytic vesicle
B [auth D]	nanobody	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR011701	Major facilitator superfamily	Family
A	IPR050930	Major Facilitator Superfamily Vesicular Transporter	Family
A	IPR020846	Major facilitator superfamily domain	Domain
A	IPR036259	MFS transporter superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q05940	Parkinson disease Nerve Degeneration nervous system disorder large cell medulloblastoma obesity disorder parkinsonian disorder parkinsonism-dystonia, infantile, 2 psoriasis schizophrenia brain dopamine-serotonin vesicular transport disease cutaneous lupus erythematosus hypertensive disorder osteosarcoma atopic eczema psychotic disorder Parkinson disease Nerve Degeneration nervous system disorder large cell medulloblastoma obesity disorder parkinsonian disorder parkinsonism-dystonia, infantile, 2 psoriasis schizophrenia brain dopamine-serotonin vesicular transport disease cutaneous lupus erythematosus hypertensive disorder osteosarcoma atopic eczema psychotic disorder binge eating disorder cocaine dependence depressive disorder head and neck cancer invasive ductal breast carcinoma narcolepsy non-small cell lung carcinoma attention deficit hyperactivity disorder, inattentive type autosomal recessive juvenile Parkinson disease 2 bipolar disorder dystonic disorder Huntington disease

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Solute Carrier (SLC) Transporter Superfamily	Vesicular monoamine transporter 2 (VMAT2, SLC18A2 family), apo form, outward-facing conformation

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.