9QS6 | pdb_00009qs6

Cryo-EM structure of the helix-stabilized MMM ubiquitin ligase complex with nanobody 270 (Composite map)

External Resource: Annotation

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D]	Isoform 4 of E3 ubiquitin-protein ligase MGRN1	molecular sequestering activity protein sequestering activity aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity cation binding transition metal ion binding zinc ion binding molecular sequestering activity protein sequestering activity aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation smoothened signaling pathway cell communication signal transduction cellular localization transport endosome to lysosome transport intracellular transport lysosomal transport establishment of localization vesicle-mediated transport localization intercellular transport establishment of localization in cell vacuolar transport primary metabolic process protein ubiquitination macromolecule modification metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal pigment metabolic process regulation of melanin biosynthetic process negative regulation of biological process pigment biosynthetic process negative regulation of secondary metabolite biosynthetic process melanin metabolic process secondary metabolic process secondary metabolite biosynthetic process negative regulation of cellular process regulation of biosynthetic process negative regulation of metabolic process regulation of secondary metabolite biosynthetic process regulation of secondary metabolic process biosynthetic process negative regulation of biosynthetic process negative regulation of melanin biosynthetic process phenol-containing compound metabolic process phenol-containing compound biosynthetic process melanin biosynthetic process regulation of metabolic process negative regulation of signaling regulation of signal transduction negative regulation of cell communication negative regulation of smoothened signaling pathway regulation of smoothened signaling pathway regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus regulation of cell communication protein polyubiquitination negative regulation of G protein-coupled receptor signaling pathway regulation of G protein-coupled receptor signaling pathway adenylate cyclase-activating G protein-coupled receptor signaling pathway negative regulation of adenylate cyclase-activating G protein-coupled receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway regulation of adenylate cyclase-activating G protein-coupled receptor signaling pathway regulation of eating behavior positive regulation of feeding behavior eating behavior positive regulation of eating behavior feeding behavior positive regulation of biological process regulation of behavior behavior positive regulation of behavior positive regulation of multicellular organismal process regulation of feeding behavior regulation of multicellular organismal process protein monoubiquitination	cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell periphery cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle protein-containing complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex nucleus endoplasmic reticulum
B [auth A]	Modulator of smoothened protein	-	developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development regulation of protein stability biological regulation regulation of biological quality cellular response to stimulus regulation of biological process regulation of cellular process developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development regulation of protein stability biological regulation regulation of biological quality cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling smoothened signaling pathway cell communication cellular process signal transduction cellular developmental process cell differentiation biosynthetic process metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of developmental process regulation of cell differentiation nervous system development generation of neurons neurogenesis neuron differentiation regulation of neuron differentiation embryo development ending in birth or egg hatching skeletal system development chordate embryonic development embryonic skeletal system development embryo development tube development respiratory tube development lung development respiratory system development pattern specification process left/right pattern formation regionalization negative regulation of signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication negative regulation of smoothened signaling pathway negative regulation of cellular process regulation of smoothened signaling pathway regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus regulation of cell communication limb development appendage development embryonic limb morphogenesis embryonic morphogenesis embryonic appendage morphogenesis anatomical structure morphogenesis appendage morphogenesis limb morphogenesis localization macromolecule localization intracellular protein localization in utero embryonic development	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system cell periphery plasma membrane membrane cilium ciliary membrane membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system cell periphery plasma membrane membrane cilium ciliary membrane plasma membrane bounded cell projection cell projection bounding membrane of organelle plasma membrane region organelle membrane cell projection membrane
C	Nanobody 270	-	-	-
D [auth B]	Isoform 2 of Multiple epidermal growth factor-like domains protein 8	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding	developmental process multicellular organismal process embryonic morphogenesis embryo development gastrulation multicellular organism development anatomical structure morphogenesis ameboidal-type cell migration anatomical structure development cell migration cellular process cell motility cell migration involved in gastrulation cellular component organization developmental process multicellular organismal process embryonic morphogenesis embryo development gastrulation multicellular organism development anatomical structure morphogenesis ameboidal-type cell migration anatomical structure development cell migration cellular process cell motility cell migration involved in gastrulation cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation smoothened signaling pathway cell communication signal transduction cellular response to BMP stimulus cell surface receptor protein serine/threonine kinase signaling pathway cellular response to growth factor stimulus response to endogenous stimulus cellular response to endogenous stimulus response to BMP transforming growth factor beta receptor superfamily signaling pathway response to growth factor BMP signaling pathway enzyme-linked receptor protein signaling pathway heart development epithelium development embryonic heart tube left/right pattern formation tube development animal organ development pattern specification process tissue development embryonic heart tube development regionalization circulatory system development embryonic organ development left/right pattern formation system development determination of heart left/right asymmetry determination of bilateral symmetry determination of left/right symmetry specification of symmetry axon extension positive regulation of nervous system development positive regulation of locomotion regulation of growth axonogenesis regulation of cellular component size developmental growth cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development positive regulation of chemotaxis regulation of cell development positive regulation of axon extension involved in axon guidance positive regulation of developmental process cell projection morphogenesis neuron differentiation neuron projection morphogenesis taxis cell differentiation positive regulation of cell projection organization regulation of biological quality positive regulation of developmental growth chemotaxis regulation of cell projection organization positive regulation of cell development response to external stimulus nervous system development developmental growth involved in morphogenesis generation of neurons regulation of response to stimulus response to chemical regulation of locomotion positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cellular developmental process regulation of developmental process regulation of response to external stimulus plasma membrane bounded cell projection morphogenesis positive regulation of biological process cell development cell growth cell morphogenesis regulation of axon extension regulation of nervous system development positive regulation of response to stimulus neurogenesis regulation of axon extension involved in axon guidance regulation of extent of cell growth positive regulation of response to external stimulus positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process axon extension involved in axon guidance positive regulation of axon extension positive regulation of cellular process positive regulation of axonogenesis regulation of anatomical structure morphogenesis locomotion regulation of cell size neuron projection extension regulation of multicellular organismal development regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth growth axon guidance positive regulation of cell growth axon development regulation of chemotaxis regulation of cell growth cell morphogenesis involved in neuron differentiation positive regulation of growth neuron projection guidance neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process primary metabolic process protein ubiquitination macromolecule modification protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal artery development aorta development vasculature development blood vessel development embryonic organ morphogenesis chordate embryonic development embryo development ending in birth or egg hatching skeletal system development animal organ morphogenesis embryonic skeletal system development skeletal system morphogenesis embryonic skeletal system morphogenesis epiboly involved in gastrulation with mouth forming second morphogenesis of an epithelium morphogenesis of an epithelial sheet tissue morphogenesis gastrulation with mouth forming second epiboly negative regulation of signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication negative regulation of smoothened signaling pathway negative regulation of cellular process regulation of smoothened signaling pathway regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of cell communication limb development appendage development embryonic limb morphogenesis embryonic appendage morphogenesis appendage morphogenesis limb morphogenesis digestive system development digestive tract development determination of digestive tract left/right asymmetry embryonic brain development heart morphogenesis tube morphogenesis embryonic heart tube morphogenesis epithelial tube morphogenesis craniofacial suture morphogenesis cranial skeletal system development bone morphogenesis bone development neuron recognition neuron projection fasciculation axonal fasciculation cell recognition fasciculation of sensory neuron axon coronary vasculature development blood vessel morphogenesis pharyngeal arch artery morphogenesis pharyngeal system development artery morphogenesis embryonic digit morphogenesis	cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle protein-containing complex ubiquitin ligase complex catalytic complex transferase complex cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle protein-containing complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex intracellular organelle intracellular anatomical structure nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth D]	IPR058981	MGRN1/RNF157-like, N-terminal domain	Domain
A [auth D]	IPR045194	E3 ubiquitin-protein ligase MGRN1/RNF157-like	Family
A [auth D]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A [auth D]	IPR001841	Zinc finger, RING-type	Domain
B [auth A]	IPR037663	Modulator of smoothened protein	Family
D [auth B]	IPR024731	NELL2-like, EGF domain	Domain
D [auth B]	IPR049883	NOTCH1, EGF-like calcium-binding domain	Domain
D [auth B]	IPR018097	EGF-like calcium-binding, conserved site	Conserved Site
D [auth B]	IPR035914	Spermadhesin, CUB domain superfamily	Homologous Superfamily
D [auth B]	IPR016201	PSI domain	Domain
D [auth B]	IPR002049	Laminin-type EGF domain	Domain
D [auth B]	IPR000859	CUB domain	Domain
D [auth B]	IPR000742	EGF-like domain	Domain
D [auth B]	IPR015915	Kelch-type beta-propeller	Homologous Superfamily
D [auth B]	IPR002165	Plexin repeat	Repeat
D [auth B]	IPR056863	Laminin/attractin/netrin-like, EGF domain	Domain
D [auth B]	IPR056737	Attractin/MKLN-like, beta-propeller domain	Domain
D [auth B]	IPR001881	EGF-like calcium-binding domain	Domain
D [auth B]	IPR000152	EGF-type aspartate/asparagine hydroxylation site	PTM

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth D]	: O60291	astrocytic tumor ovarian cancer breast carcinoma psoriasis osteosarcoma
B [auth A]	: Q8NHV5	atypical teratoid rhabdoid tumor glioblastoma malignant ependymoma ovarian cancer subependymal giant cell astrocytoma gastric cancer hepatocellular carcinoma malignant glioma pilocytic astrocytoma tuberculosis gastric carcinoma large cell medulloblastoma medulloblastoma primitive neuroectodermal tumor
D [auth B]	: Q7Z7M0	Carpenter syndrome craniosynostosis MEGF8-related Carpenter syndrome acrocephalosyndactyly large cell medulloblastoma medulloblastoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor glioblastoma lung cancer intellectual disability malignant glioma polydactyly

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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.