8P0V

Structure of the human Commander complex coiled coils, DENND10 and partial Retriever subcomplex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth N]	SCOP2B Superfamily	Metallo-dependent phosphatases	8036532	3001067	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth L]	PF21674	CCDC22 protein N-terminal domain (CCDC22_N)	CCDC22 protein N-terminal domain	This entry represents the N-terminal helical domain from the CCDC22 protein. This protein is part of the complex termed the CCC complex that is composed of CCDC22, CCDC93 and various COMMD proteins [1].	Domain
C [auth M]	PF08616	Stabilization of polarity axis (SPA)	Stabilization of polarity axis	-	Family
D [auth N]	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 [auth K]	Coiled-coil domain-containing protein 93	-	Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization cellular process Golgi vesicle transport intracellular transport endocytic recycling endosomal transport Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization cellular process Golgi vesicle transport intracellular transport endocytic recycling endosomal transport establishment of localization in cell protein localization establishment of protein localization nitrogen compound transport protein transport cellular macromolecule localization macromolecule localization	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle
B [auth L]	Coiled-coil domain-containing protein 22	protein binding binding cullin family protein binding	maintenance of protein location protein localization cellular localization regulation of cellular process cellular biosynthetic process negative regulation of DNA-binding transcription factor activity RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process cytoplasmic sequestering of NF-kappaB negative regulation of NF-kappaB transcription factor activity nucleic acid biosynthetic process DNA-templated transcription localization maintenance of protein location protein localization cellular localization regulation of cellular process cellular biosynthetic process negative regulation of DNA-binding transcription factor activity RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process cytoplasmic sequestering of NF-kappaB negative regulation of NF-kappaB transcription factor activity nucleic acid biosynthetic process DNA-templated transcription localization regulation of RNA metabolic process cellular macromolecule localization cytoplasmic sequestering of protein regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process cellular metabolic process negative regulation of molecular function biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process maintenance of location regulation of cellular biosynthetic process regulation of molecular function regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity macromolecule localization metabolic process regulation of macromolecule biosynthetic process cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cytoplasmic sequestering of transcription factor cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of signaling positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling Golgi to plasma membrane transport post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane Golgi vesicle transport inorganic ion homeostasis homeostatic process intracellular copper ion homeostasis copper ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis positive regulation of macromolecule metabolic process protein metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process regulation of protein metabolic process protein catabolic process regulation of catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process modification-dependent protein catabolic process positive regulation of proteolysis ubiquitin-dependent protein catabolic process negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process negative regulation of canonical NF-kappaB signal transduction negative regulation of cell communication negative regulation of cellular process negative regulation of response to stimulus negative regulation of signal transduction establishment of protein localization nitrogen compound transport protein transport intracellular transport endocytic recycling endosomal transport establishment of localization in cell	membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle centrosome microtubule organizing center membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle centrosome microtubule organizing center cytoskeleton intracellular non-membrane-bounded organelle microtubule cytoskeleton non-membrane-bounded organelle cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
C [auth M]	DENN domain-containing protein 10	small GTPase binding protein binding binding enzyme binding GTPase binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization multivesicular body sorting pathway establishment of localization in cell cellular process endosome transport via multivesicular body sorting pathway regulation of localization regulation of biological process regulation of cellular process cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization multivesicular body sorting pathway establishment of localization in cell cellular process endosome transport via multivesicular body sorting pathway regulation of localization regulation of biological process regulation of cellular process regulation of transport biological regulation regulation of vesicle-mediated transport vesicle-mediated transport between endosomal compartments regulation of early endosome to late endosome transport early endosome to late endosome transport regulation of cellular localization regulation of intracellular transport protein localization establishment of protein localization nitrogen compound transport protein transport cellular macromolecule localization macromolecule localization	membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle late endosome cytoplasm vesicle
D [auth N]	Vacuolar protein sorting-associated protein 29	cation binding ion binding binding metal ion binding small molecule binding	protein localization cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process intracellular protein transport protein localization cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process intracellular protein transport vesicle-mediated transport endosomal transport cytosolic transport retrograde transport, endosome to Golgi localization within membrane endocytic recycling vesicle-mediated transport to the plasma membrane	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle protein-containing complex membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle protein-containing complex membrane membrane protein complex retromer complex retromer, cargo-selective complex cytosol endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane late endosome
E [auth O]	VPS35 endosomal protein-sorting factor-like	-	Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization cellular process Golgi vesicle transport intracellular transport endocytic recycling endosomal transport Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization cellular process Golgi vesicle transport intracellular transport endocytic recycling endosomal transport establishment of localization in cell protein localization establishment of protein localization nitrogen compound transport protein transport cellular macromolecule localization macromolecule localization	membrane-bounded organelle intracellular anatomical structure ficolin-1-rich granule membrane membrane intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle ficolin-1-rich granule endomembrane system tertiary granule intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane membrane-bounded organelle intracellular anatomical structure ficolin-1-rich granule membrane membrane intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle ficolin-1-rich granule endomembrane system tertiary granule intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane cell periphery plasma membrane endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth K]	IPR019159	CCDC93, coiled-coil domain	Domain
A [auth K]	IPR048747	CCDC93, N-terminal domain	Domain
A [auth K]	IPR039116	Coiled-coil domain-containing protein 93	Family
B [auth L]	IPR048348	CCDC22, coiled-coil domain	Domain
B [auth L]	IPR008530	Coiled-coil domain-containing protein 22	Family
B [auth L]	IPR048349	CCDC22, N-terminal domain	Domain
C [auth M]	IPR037516	Tripartite DENN domain	Domain
C [auth M]	IPR042431	DENN domain-containing protein 10	Family
D [auth N]	IPR000979	Phosphodiesterase MJ0936/Vps29	Family
D [auth N]	IPR024654	Calcineurin-like phosphoesterase domain, lpxH-type	Domain
D [auth N]	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily
D [auth N]	IPR028661	Vacuolar protein sorting-associated protein 29	Family
E [auth O]	IPR029705	VPS35 endosomal protein sorting factor-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth K]	Pharos: Q567U6	astrocytic tumor malignant ependymoma osteosarcoma primitive neuroectodermal tumor tuberculosis colorectal cancer medulloblastoma ovarian cancer psoriasis invasive ductal breast carcinoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma rheumatoid arthritis
B [auth L]	Pharos: O60826	Ritscher-Schinzel syndrome Ritscher-Schinzel syndrome 2 intellectual disability gastric carcinoma osteosarcoma
D [auth N]	Pharos: Q9UBQ0	breast carcinoma ovarian cancer hereditary spastic paraplegia pancreatic ductal adenocarcinoma malignant pancreatic neoplasm
E [auth O]	Pharos: Q7Z3J2	Alzheimer disease malignant mesothelioma tuberculosis large cell medulloblastoma osteosarcoma malignant colon neoplasm ovarian cancer

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 R01GM133198.