8Y6K | pdb_00008y6k

Cryo-EM structure of full-length MICAL1 in the autoinhibited state

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)
A	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8039125	3000068	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Calponin-homology domain, CH-domain	8084142	3000264	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF12130	Bivalent Mical/EHBP Rab binding domain (bMERB_dom)	Bivalent Mical/EHBP Rab binding domain	A variety of different effector proteins interact specifically with GTP-bound Rab proteins and mediate their versatile roles in membrane trafficking, including budding of vesicles from a donor membrane, directed transport through the cell and finally ...	A variety of different effector proteins interact specifically with GTP-bound Rab proteins and mediate their versatile roles in membrane trafficking, including budding of vesicles from a donor membrane, directed transport through the cell and finally tethering and fusion with a target membrane. The 'bivalent Mical/EHBP Rab binding' (bMERB) domain is a Rab effector domain that is present in proteins of the Mical and EHBP families, both known to act in endosomal trafficking. The bMERB domain displays a preference for Rab8 family proteins (Rab8, 10, 13 and 15) and at least some of the bMERB domains contain two separate binding sites for Rab-proteins, allowing Micals and EHBPs to bind two Rabs simultaneously. The strong similarity between the two binding sites within one bMRB domain strongly suggests an evolutionarily development via duplication of a common ancestor supersecondary structure element. The bMERB domain has a completely alpha-helical fold consisting of a central helix and N- and C-terminal helices folding back on this central helix [1].	Domain
A	PF01494	FAD binding domain (FAD_binding_3)	FAD binding domain	This domain is involved in FAD binding in a number of enzymes.	Domain
A	PF00412	LIM domain (LIM)	LIM domain	This family represents two copies of the LIM structural domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	[F-actin]-monooxygenase MICAL1	small GTPase binding protein binding binding enzyme binding GTPase binding cytoskeletal protein binding actin binding protein-containing complex binding actin filament binding FAD binding flavin adenine dinucleotide binding nucleoside phosphate binding ion binding anion binding small GTPase binding protein binding binding enzyme binding GTPase binding cytoskeletal protein binding actin binding protein-containing complex binding actin filament binding FAD binding flavin adenine dinucleotide binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding monooxygenase activity oxidoreductase activity catalytic activity F-actin monooxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen NAD(P)H oxidase H2O2-forming activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, oxygen as acceptor SH3 domain binding protein domain specific binding kinase binding protein kinase binding cation binding metal ion binding	sulfur compound metabolic process metabolic process cellular process sulfur oxidation regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process sulfur compound metabolic process metabolic process cellular process sulfur oxidation regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death cellular component disassembly actin polymerization or depolymerization actin cytoskeleton organization protein-containing complex organization actin filament organization protein-containing complex disassembly actin filament depolymerization cellular component organization organelle organization actin filament-based process cellular component organization or biogenesis supramolecular fiber organization protein depolymerization cytoskeleton organization regulation of localization regulated exocytosis transport secretion regulation of transport export from cell regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport regulation of secretion regulation of regulated secretory pathway localization secretion by cell regulation of secretion by cell exocytosis regulation of exocytosis cellular response to stimulus response to stimulus signaling signal transduction cell communication cellular component biogenesis cellular component assembly actin filament bundle organization actin filament bundle assembly	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection midbody polymeric cytoskeletal fiber intracellular anatomical structure intracellular membraneless organelle intermediate filament cytoskeleton intracellular organelle cytoskeleton membraneless organelle membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection midbody polymeric cytoskeletal fiber intracellular anatomical structure intracellular membraneless organelle intermediate filament cytoskeleton intracellular organelle cytoskeleton membraneless organelle intermediate filament supramolecular fiber supramolecular polymer supramolecular complex actin cytoskeleton cytoplasm cytosol cell periphery plasma membrane membrane axon synapse hippocampal mossy fiber expansion neuron projection axon terminus hippocampal mossy fiber presynapse distal axon terminal bouton cell junction neuron projection terminus nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen intercellular bridge endosome membrane endosome intracellular vesicle endomembrane system cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle vesicle organelle membrane actin filament ciliary basal body microtubule organizing center microtubule cytoskeleton

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
A	IPR050540	F-actin Monooxygenase Mical	Family
A	IPR001715	Calponin homology domain	Domain
A	IPR002938	FAD-binding domain	Domain
A	IPR022735	bMERB domain	Domain
A	IPR001781	Zinc finger, LIM-type	Domain
A	IPR036872	CH domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q8TDZ2	Autosomal dominant epilepsy with auditory features Malignant neoplasm of breast oligodendroglioma pancreatic ductal adenocarcinoma Pick disease gastric carcinoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma spina bifida malignant mesothelioma non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

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.