5MK1

Crystal structure of the His Domain Protein Tyrosine Phosphatase (HD-PTP/PTPN23) Bro1 domain (CHMP4A peptide complex structure)

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF03097	e5mk1A1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF03097	ECOD (1.6)
B	PF03097	e5mk1B1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF03097	ECOD (1.6)
C	PF03097	e5mk1C1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF03097	ECOD (1.6)
D	PF03097	e5mk1D1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF03097	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.280	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	alix/aip1 like domains	CATH (4.3.0)
B	1.25.40.280	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	alix/aip1 like domains	CATH (4.3.0)
C	1.25.40.280	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	alix/aip1 like domains	CATH (4.3.0)
D	1.25.40.280	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	alix/aip1 like domains	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF03097	BRO1-like domain (BRO1)	BRO1-like domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Tyrosine-protein phosphatase non-receptor type 23	phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity protein binding binding kinase binding enzyme binding protein kinase binding	adherens junction organization regulation of biological process positive regulation of cellular component organization regulation of cellular process regulation of cellular component organization biological regulation positive regulation of biological process cellular component organization regulation of adherens junction organization cell junction organization cellular process cellular component organization or biogenesis positive regulation of cellular process positive regulation of adherens junction organization adherens junction organization regulation of biological process positive regulation of cellular component organization regulation of cellular process regulation of cellular component organization biological regulation positive regulation of biological process cellular component organization regulation of adherens junction organization cell junction organization cellular process cellular component organization or biogenesis positive regulation of cellular process positive regulation of adherens junction organization cell-cell junction organization organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process positive regulation of homophilic cell adhesion regulation of homophilic cell adhesion positive regulation of cell adhesion regulation of cell adhesion homophilic cell adhesion via plasma membrane adhesion molecules positive regulation of cell-cell adhesion cell adhesion cell-cell adhesion regulation of cell-cell adhesion cell-cell adhesion via plasma-membrane adhesion molecules organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis organelle organization cellular component assembly cilium assembly cilium organization cell projection assembly protein localization positive regulation of cell communication regulation of localization establishment of protein localization nitrogen compound transport positive regulation of establishment of protein localization cell communication localization cellular macromolecule localization positive regulation of Wnt protein secretion organic substance transport establishment of protein localization to extracellular region protein secretion establishment of localization regulation of protein secretion regulation of secretion positive regulation of protein localization cellular localization regulation of protein localization signaling transport 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 regulation of signaling secretion regulation of transport regulation of establishment of protein localization cell-cell signaling export from cell regulation of protein transport Wnt protein secretion positive regulation of protein secretion positive regulation of transport protein transport regulation of cellular localization macromolecule localization regulation of cell communication positive regulation of signaling multicellular organismal process negative regulation of locomotion regulation of cell motility negative regulation of biological process tissue migration negative regulation of epithelial cell migration ameboidal-type cell migration regulation of cell migration negative regulation of cellular process regulation of multicellular organismal process cell migration epithelial cell migration cell motility regulation of epithelial cell migration locomotion negative regulation of cell migration epithelium migration regulation of locomotion negative regulation of cell motility negative regulation of multicellular organismal process establishment of protein localization to vacuole vesicle-mediated transport late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway establishment of localization in cell endosome transport via multivesicular body sorting pathway protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway protein localization to vacuole intracellular transport endosomal transport establishment of protein localization to organelle multivesicular body sorting pathway protein localization to organelle vacuolar transport intracellular protein transport positive regulation of early endosome to late endosome transport positive regulation of intracellular transport regulation of intracellular transport 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 dephosphorylation cellular metabolic process phosphate-containing compound metabolic process phosphorus metabolic process localization within membrane endocytic recycling vesicle-mediated transport to the plasma membrane	extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol intracellular organelle extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol intracellular organelle intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen early endosome endosome intracellular vesicle endomembrane system cytoplasmic vesicle nuclear body cilium plasma membrane bounded cell projection ciliary basal body cell projection microtubule organizing center cytoskeleton intracellular non-membrane-bounded organelle microtubule cytoskeleton non-membrane-bounded organelle
E, F, G [auth H], H [auth K]	Charged multivesicular body protein 4a	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity lipid binding ATPase binding enzyme binding	cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway multivesicular body sorting pathway establishment of localization in cell cellular process vacuolar transport endosome transport via multivesicular body sorting pathway cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway multivesicular body sorting pathway establishment of localization in cell cellular process vacuolar transport endosome transport via multivesicular body sorting pathway membrane fusion organelle membrane fusion endosome to lysosome transport lysosomal transport multivesicular body-lysosome fusion cellular component organization vesicle organization endosome to lysosome transport via multivesicular body sorting pathway lysosome organization cellular component organization or biogenesis membrane organization vacuole organization lytic vacuole organization lysosomal membrane organization organelle fusion organelle organization vesicle fusion cellular component biogenesis protein polymerization cellular component assembly protein-containing complex organization protein-containing complex assembly membrane invagination cellular component disassembly catabolic process macroautophagy cellular metabolic process autophagy protein-containing complex disassembly cellular catabolic process autophagosome maturation metabolic process process utilizing autophagic mechanism membrane biogenesis nuclear membrane reassembly membrane assembly nuclear membrane organization nucleus organization nuclear envelope organization endomembrane system organization organelle assembly multivesicular body assembly multivesicular body organization endosome organization protein localization establishment of protein localization nitrogen compound transport organic substance transport protein transport cellular macromolecule localization macromolecule localization organonitrogen compound catabolic process organonitrogen compound metabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway ubiquitin-dependent protein catabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process establishment of organelle localization mitotic metaphase chromosome alignment mitotic cell cycle metaphase chromosome alignment chromosome localization organelle localization mitotic sister chromatid segregation cell cycle chromosome segregation cell cycle process mitotic nuclear division organelle fission chromosome organization sister chromatid segregation nuclear division mitotic cell cycle process nuclear chromosome segregation establishment of chromosome localization regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process non-membrane-bounded organelle assembly microtubule cytoskeleton organization regulation of mitotic spindle organization regulation of mitotic spindle assembly regulation of cell cycle microtubule cytoskeleton organization involved in mitosis spindle organization regulation of biological process regulation of cell cycle process biological regulation regulation of microtubule-based process regulation of spindle organization regulation of cellular component biogenesis spindle assembly regulation of organelle organization mitotic spindle organization regulation of spindle assembly mitotic spindle assembly regulation of organelle assembly microtubule-based process cytoskeleton organization regulation of microtubule cytoskeleton organization cytoskeleton-dependent cytokinesis mitotic cytokinetic process mitotic cytokinesis cytokinesis midbody abscission cytokinetic process cell division establishment of protein localization to membrane protein targeting post-translational protein targeting to endoplasmic reticulum membrane localization within membrane protein localization to membrane protein targeting to membrane establishment of protein localization to organelle protein localization to organelle establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein targeting to ER multicellular organismal process system process nervous system process virion assembly viral process viral budding viral budding via host ESCRT complex viral life cycle plasma membrane tubulation plasma membrane organization vesicle budding from membrane membrane fission biological process involved in interspecies interaction between organisms non-lytic viral release biological process involved in interaction with host biological process involved in symbiotic interaction exit from host cell viral budding from plasma membrane viral release from host cell late endosome to lysosome transport wound healing response to stimulus plasma membrane repair response to stress response to wounding vesicle fusion with vacuole vacuole fusion	midbody cellular anatomical entity membrane-bounded organelle endosome membrane intracellular anatomical structure endosome membrane multivesicular body membrane intracellular vesicle late endosome membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane midbody cellular anatomical entity membrane-bounded organelle endosome membrane intracellular anatomical structure endosome membrane multivesicular body membrane intracellular vesicle late endosome membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane organelle late endosome cytoplasm vesicle organelle membrane multivesicular body cytosol protein-containing complex ESCRT complex membrane protein complex ESCRT III complex cell periphery plasma membrane vacuolar membrane autophagosome membrane vacuole autophagosome amphisome membrane amphisome nucleus nuclear protein-containing complex organelle envelope nuclear envelope nuclear pore polymeric cytoskeletal fiber spindle spindle microtubule kinetochore microtubule cytoskeleton intracellular non-membrane-bounded organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton non-membrane-bounded organelle lytic vacuole lytic vacuole membrane lysosomal membrane lysosome chromosome chromosomal region kinetochore chromosome, centromeric region condensed chromosome, centromeric region condensed chromosome cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane membrane coat coated membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR004328	BRO1 domain	Domain
A, B, C, D	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A, B, C, D	IPR025304	ALIX V-shaped domain	Domain
A, B, C, D	IPR038499	BRO1 domain superfamily	Homologous Superfamily
A, B, C, D	IPR016130	Protein-tyrosine phosphatase, active site	Active Site
A, B, C, D	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A, B, C, D	IPR000242	Tyrosine-specific protein phosphatase, PTPase domain	Domain
A, B, C, D	IPR045251	Vacuolar protein-sorting protein Bro1-like	Family
A, B, C, D	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
E, F, G [auth H], H [auth K]	IPR005024	Snf7 family	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q9H3S7	epilepsy microcephaly Epileptic encephalopathy osteosarcoma intellectual disability
E, F, G [auth H], H [auth K]	Pharos: Q9BY43	language disorder

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.