8TTA | pdb_00008tta

Structure of retromer VPS29-VPS35 (483-796) complexed with Fam21A repeat 21 (1328-1341)

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	Metallo-dependent phosphatases	8035118	3001067	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Metallo-dependent phosphatases	8035118	3001067	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF12850	Calcineurin-like phosphoesterase superfamily domain (Metallophos_2)	Calcineurin-like phosphoesterase superfamily domain	Members of this family are part of the Calcineurin-like phosphoesterase superfamily.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Vacuolar protein sorting-associated protein 29	cation binding ion binding binding metal ion binding small molecule binding	cellular localization post-Golgi vesicle-mediated transport transport intracellular transport establishment of localization vesicle-mediated transport Golgi to vacuole transport localization establishment of localization in cell vacuolar transport cellular process Golgi vesicle transport endosomal transport cytosolic transport cellular localization post-Golgi vesicle-mediated transport transport intracellular transport establishment of localization vesicle-mediated transport Golgi to vacuole transport localization establishment of localization in cell vacuolar transport cellular process Golgi vesicle transport endosomal transport cytosolic transport retrograde transport, endosome to Golgi establishment of protein localization nitrogen compound transport protein transport macromolecule localization intracellular protein localization localization within membrane endocytic recycling vesicle-mediated transport to the plasma membrane	protein-containing complex cellular anatomical structure membrane membrane protein complex retromer complex endomembrane system retromer, cargo-selective complex intracellular anatomical structure cytoplasm cytosol endosome membrane membrane-bounded organelle endosome intracellular vesicle protein-containing complex cellular anatomical structure membrane membrane protein complex retromer complex endomembrane system retromer, cargo-selective complex intracellular anatomical structure cytoplasm cytosol endosome membrane membrane-bounded organelle endosome intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle vesicle organelle membrane
B, D	Vacuolar protein sorting-associated protein 35	D1 dopamine receptor binding protein binding binding signaling receptor binding G protein-coupled receptor binding dopamine receptor binding	regulation of cellular process positive regulation of biological process dopamine metabolic process catechol-containing compound metabolic process regulation of primary metabolic process biogenic amine biosynthetic process positive regulation of metabolic process catecholamine metabolic process positive regulation of biosynthetic process dopamine biosynthetic process catecholamine biosynthetic process catechol-containing compound biosynthetic process positive regulation of amine metabolic process positive regulation of cellular process regulation of cellular process positive regulation of biological process dopamine metabolic process catechol-containing compound metabolic process regulation of primary metabolic process biogenic amine biosynthetic process positive regulation of metabolic process catecholamine metabolic process positive regulation of biosynthetic process dopamine biosynthetic process catecholamine biosynthetic process catechol-containing compound biosynthetic process positive regulation of amine metabolic process positive regulation of cellular process positive regulation of dopamine biosynthetic process regulation of dopamine metabolic process regulation of biosynthetic process regulation of biological process regulation of amine metabolic process biological regulation primary metabolic process regulation of dopamine biosynthetic process positive regulation of dopamine metabolic process amine metabolic process biosynthetic process amine biosynthetic process phenol-containing compound metabolic process phenol-containing compound biosynthetic process metabolic process cellular process regulation of catecholamine metabolic process regulation of metabolic process biogenic amine metabolic process protein destabilization regulation of protein stability regulation of biological quality gene expression macromolecule biosynthetic process protein maturation proteolysis protein processing protein metabolic process macromolecule metabolic process vacuolar protein processing cellular localization transport intracellular transport mitochondrion to lysosome vesicle-mediated transport lysosomal transport establishment of localization vesicle-mediated transport mitochondrion-derived vesicle mediated transport localization establishment of localization in cell vacuolar transport mitochondrial transport regulation of macromolecule metabolic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of gene expression regulation of macromolecule biosynthetic process positive regulation of macromolecule metabolic process protein localization to organelle macromolecule localization intracellular protein localization vesicle-mediated transport in synapse trans-synaptic signaling regulation of signaling modulation of chemical synaptic transmission signaling cell-cell signaling chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication positive regulation of cell communication regulation of localization establishment of protein localization nitrogen compound transport regulation of protein localization positive regulation of establishment of protein localization positive regulation of secretion by cell protein localization to extracellular region positive regulation of protein transport secretion by cell regulation of secretion by cell positive regulation of secretion signal release regulation of Wnt protein secretion secretion regulation of transport positive regulation of Wnt protein secretion establishment of protein localization to extracellular region regulation of establishment of protein localization export from cell regulation of protein transport Wnt protein secretion protein secretion positive regulation of protein secretion regulation of protein secretion regulation of secretion positive regulation of transport protein transport positive regulation of protein localization positive regulation of signaling developmental process multicellular organismal process regulation of cellular component organization regulation of developmental process nervous system development developmental maturation synapse maturation cellular component organization regulation of synapse organization multicellular organism development regulation of synapse maturation cell junction organization anatomical structure development regulation of synapse structure or activity synapse organization cellular component organization or biogenesis system development endosomal transport cytosolic transport retrograde transport, endosome to Golgi regulation of protein catabolic process in the vacuole catabolic process negative regulation of biological process lysosomal protein catabolic process negative regulation of protein catabolic process in the vacuole macromolecule catabolic process negative regulation of protein catabolic process negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of catabolic process regulation of protein metabolic process protein catabolic process in the vacuole negative regulation of metabolic process protein catabolic process regulation of catabolic process negative regulation of lysosomal protein catabolic process regulation of lysosomal protein catabolic process regulation of protein catabolic process positive regulation of locomotion locomotion involved in locomotory behavior behavior regulation of behavior positive regulation of locomotion involved in locomotory behavior locomotory behavior positive regulation of behavior regulation of locomotion regulation of locomotion involved in locomotory behavior positive regulation of multicellular organismal process regulation of multicellular organismal process locomotion establishment of protein localization to plasma membrane endocytic recycling neurotransmitter receptor transport to plasma membrane neurotransmitter receptor transport, endosome to plasma membrane protein localization to cell periphery neurotransmitter receptor transport establishment of protein localization to membrane protein localization to plasma membrane localization within membrane protein localization to membrane protein-containing complex localization vesicle-mediated transport to the plasma membrane endosome to plasma membrane protein transport intracellular protein transport presynapse organization regulation of terminal button organization terminal button organization regulation of presynapse organization negative regulation of protein localization voluntary musculoskeletal movement multicellular organismal movement musculoskeletal movement system process nervous system process neuromuscular process protein localization to endosome regulation of defense response response to stimulus regulation of response to external stimulus negative regulation of inflammatory response defense response negative regulation of response to stimulus response to external stimulus regulation of inflammatory response regulation of response to stimulus response to stress negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response dendritic spine maintenance cell projection organization cellular component maintenance regulation of dendritic spine maintenance plasma membrane bounded cell projection organization dendritic spine organization postsynapse organization regulation of cell projection organization regulation of postsynapse organization neuron projection organization regulation of plasma membrane bounded cell projection organization positive regulation of protein metabolic process positive regulation of protein catabolic process positive regulation of catabolic process positive regulation of protein localization to cell periphery regulation of protein localization to cell periphery lysosome organization organelle organization vacuole organization lytic vacuole organization mitochondrial fragmentation involved in apoptotic process apoptotic mitochondrial changes apoptotic process cell death programmed cell death mitochondrion organization cellular component biogenesis cellular component assembly regulation of postsynapse assembly cell junction assembly regulation of synapse assembly postsynapse assembly regulation of cellular component biogenesis regulation of cell junction assembly synapse assembly positive regulation of organelle organization positive regulation of cellular component organization positive regulation of developmental process regulation of anatomical structure morphogenesis organelle fission mitochondrial fission regulation of organelle organization anatomical structure morphogenesis regulation of mitochondrial fission regulation of mitochondrion organization positive regulation of mitochondrial fission negative regulation of protein homooligomerization regulation of protein oligomerization regulation of protein homooligomerization regulation of protein-containing complex assembly protein-containing complex assembly protein homooligomerization negative regulation of protein oligomerization negative regulation of cellular component organization protein-containing complex organization negative regulation of protein-containing complex assembly protein complex oligomerization transcytosis late endosome to lysosome transport negative regulation of transport negative regulation of late endosome to lysosome transport regulation of intracellular transport negative regulation of intracellular transport negative regulation of vacuolar transport regulation of vacuolar transport regulation of cellular localization regulation of late endosome to lysosome transport cellular response to nitrogen compound cellular response to stimulus response to dopamine positive regulation of signal transduction cellular response to dopamine response to monoamine regulation of signal transduction regulation of dopamine receptor signaling pathway positive regulation of response to stimulus response to catecholamine cellular response to catecholamine stimulus signal transduction regulation of G protein-coupled receptor signaling pathway G protein-coupled dopamine receptor signaling pathway response to oxygen-containing compound response to nitrogen compound positive regulation of G protein-coupled receptor signaling pathway cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to monoamine stimulus response to chemical G protein-coupled receptor signaling pathway positive regulation of dopamine receptor signaling pathway regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of Wnt signaling pathway Wnt signaling pathway positive regulation of canonical Wnt signaling pathway cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process protein localization to synapse neurotransmitter receptor transport to postsynaptic membrane establishment of protein localization to postsynaptic membrane neurotransmitter receptor transport, endosome to postsynaptic membrane protein localization to postsynaptic membrane regulation of postsynaptic membrane neurotransmitter receptor levels protein localization to postsynapse protein localization to cell junction receptor localization to synapse	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol synapse cell junction dopaminergic synapse glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection membrane-bounded organelle intracellular vesicle cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol synapse cell junction dopaminergic synapse glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle mitochondrion-derived vesicle intracellular organelle cytoplasmic vesicle organelle vesicle perinuclear region of cytoplasm endosome membrane endosome endomembrane system cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane somatodendritic compartment cell body neuronal cell body postsynapse mitochondrion protein-containing complex membrane protein complex retromer complex presynapse lytic vacuole vacuole lysosome tubular endosome early endosome retromer, cargo-selective complex postsynaptic density neuron to neuron synapse postsynaptic specialization asymmetric synapse late endosome
E, F	SER-ASN-ILE-PHE-ASP-ASP-PRO-LEU-ASN-ALA-PHE-GLY-GLY-GLN	binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding protein-containing complex binding retromer complex binding	localization cellular localization transport establishment of localization in cell cellular process intracellular transport establishment of localization vesicle-mediated transport endosomal transport cytosolic transport retrograde transport, endosome to Golgi protein localization to endosome protein localization to organelle macromolecule localization localization cellular localization transport establishment of localization in cell cellular process intracellular transport establishment of localization vesicle-mediated transport endosomal transport cytosolic transport retrograde transport, endosome to Golgi protein localization to endosome protein localization to organelle macromolecule localization intracellular protein localization establishment of protein localization nitrogen compound transport protein transport regulation of Arp2/3 complex-mediated actin nucleation regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process regulation of actin filament-based process cellular component organization regulation of actin nucleation actin filament-based process cellular component organization or biogenesis regulation of biological process regulation of actin filament organization actin cytoskeleton organization actin filament organization biological regulation Arp2/3 complex-mediated actin nucleation regulation of organelle organization organelle organization regulation of actin cytoskeleton organization regulation of supramolecular fiber organization actin nucleation supramolecular fiber organization cytoskeleton organization	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle nucleus membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membraneless organelle nuclear lumen protein-containing complex WASH complex endosome membrane membrane early endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane cytosol cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR000979	Phosphodiesterase MJ0936/Vps29	Family
A, C	IPR024654	Calcineurin-like phosphoesterase domain, lpxH-type	Domain
A, C	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily
A, C	IPR028661	Vacuolar protein sorting-associated protein 29	Family
B, D	IPR016024	Armadillo-type fold	Homologous Superfamily
B, D	IPR005378	Vacuolar protein sorting-associated protein 35	Family
B, D	IPR042491	Vacuolar protein sorting-associated protein 35, C-terminal	Homologous Superfamily
E, F	IPR029341	FAM21/CAPZIP domain	Domain

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.