7MT1 | pdb_00007mt1

Crystal structure of Human Platelet-activating factor acetylhydrolase IB subunit beta (PAFAH1B1)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d7mt1a_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	WD40-repeat	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	WD40-repeat	8103389	4002744	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	WD40 repeat-like	8103390	3001694	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	ANAPC4_WD40_2	e7mt1A1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_2	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Platelet-activating factor acetylhydrolase IB subunit beta	phosphoprotein binding protein binding binding cytoskeletal protein binding microtubule binding tubulin binding dynactin binding microtubule plus-end binding dynein intermediate chain binding identical protein binding phospholipase binding enzyme binding protein heterodimerization activity protein dimerization activity phosphoprotein binding protein binding binding cytoskeletal protein binding microtubule binding tubulin binding dynactin binding microtubule plus-end binding dynein intermediate chain binding identical protein binding phospholipase binding enzyme binding protein heterodimerization activity protein dimerization activity heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding protein-containing complex binding dynein complex binding	developmental process ear development sensory organ development inner ear development cochlea development animal organ development anatomical structure development neuroblast proliferation multicellular organismal process cell population proliferation cellular developmental process nervous system development generation of neurons neurogenesis developmental process ear development sensory organ development inner ear development cochlea development animal organ development anatomical structure development neuroblast proliferation multicellular organismal process cell population proliferation cellular developmental process nervous system development generation of neurons neurogenesis multicellular organism development cell differentiation cellular process neural precursor cell proliferation system development forebrain development glial cell migration telencephalon glial cell migration cerebral cortex development telencephalon cell migration forebrain cell migration gliogenesis cell migration cell motility layer formation in cerebral cortex cerebral cortex cell migration head development brain development cerebral cortex radially oriented cell migration pallium development anatomical structure morphogenesis central nervous system development anatomical structure formation involved in morphogenesis cerebral cortex radial glia-guided migration telencephalon development forebrain generation of neurons central nervous system neuron differentiation neuron differentiation cerebral cortex neuron differentiation forebrain neuron differentiation establishment of organelle localization cellular localization transport nucleus localization intracellular transport establishment of localization localization organelle localization establishment of localization in cell nuclear migration axon extension positive regulation of nervous system development regulation of growth regulation of cellular process axonogenesis regulation of cellular component size developmental growth cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process cell projection morphogenesis neuron projection morphogenesis positive regulation of cell projection organization regulation of biological quality positive regulation of developmental growth regulation of biological process regulation of cell projection organization positive regulation of cell development developmental growth involved in morphogenesis positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization regulation of developmental process plasma membrane bounded cell projection morphogenesis positive regulation of biological process cell development cell growth cell morphogenesis cellular component organization regulation of axon extension regulation of nervous system development regulation of extent of cell growth positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of axon extension cellular component organization or biogenesis positive regulation of cellular process positive regulation of axonogenesis regulation of anatomical structure morphogenesis 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 biological regulation growth positive regulation of cell growth axon development regulation of cell growth cell morphogenesis involved in neuron differentiation positive regulation of growth neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction response to stimulus signaling response to cytokine regulation of signal transduction positive regulation of response to cytokine stimulus cytokine-mediated signaling pathway cell communication positive regulation of response to stimulus cellular response to cytokine stimulus signal transduction regulation of signaling cell surface receptor signaling pathway regulation of cytokine-mediated signaling pathway response to peptide regulation of response to cytokine stimulus regulation of response to stimulus response to chemical regulation of cell communication positive regulation of cytokine-mediated signaling pathway positive regulation of signaling inner ear receptor cell development epidermis development epithelial cell differentiation hair cell differentiation mechanoreceptor differentiation epithelium development epidermal cell differentiation inner ear auditory receptor cell differentiation tissue development inner ear receptor cell differentiation auditory receptor cell development organelle organization actin cytoskeleton organization actin filament-based process cytoskeleton organization negative regulation of biological process negative regulation of cellular process negative regulation of cell projection organization negative regulation of cellular component organization negative regulation of neuron projection development membrane organization cellular component disassembly nuclear membrane disassembly membrane disassembly nuclear membrane organization nucleus organization nuclear envelope organization endomembrane system organization trans-synaptic signaling modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling microtubule organizing center organization microtubule cytoskeleton organization microtubule-based process spindle localization establishment or maintenance of cell polarity mitotic cell cycle establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation cell cycle microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of cell polarity mitotic cell cycle process establishment of mitotic spindle orientation system process nervous system process transmission of nerve impulse intracellular signal transduction JNK cascade intracellular signaling cassette MAPK cascade maintenance of centrosome location centrosome localization microtubule organizing center localization maintenance of organelle location maintenance of location in cell maintenance of location reelin-mediated signaling pathway establishment of protein localization nitrogen compound transport secretion establishment of protein localization to extracellular region export from cell protein secretion protein localization to extracellular region secretion by cell protein transport macromolecule localization intracellular protein localization myeloid leukocyte differentiation hemopoiesis osteoclast development skeletal system development myeloid cell differentiation bone cell development osteoclast differentiation myeloid cell development bone development leukocyte differentiation stem cell division cell division spermatid development spermatid differentiation sexual reproduction spermatogenesis cellular component assembly involved in morphogenesis reproductive process cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation cellular component biogenesis vesicle organization cellular anatomical entity morphogenesis cellular component assembly organelle assembly secretory granule organization multicellular organismal reproductive process male gamete generation germ cell development acrosome assembly establishment of planar polarity morphogenesis of an epithelium microtubule cytoskeleton organization involved in establishment of planar polarity tissue morphogenesis establishment of tissue polarity morphogenesis of a polarized epithelium positive regulation of dendritic spine morphogenesis positive regulation of dendritic spine development regulation of cell morphogenesis regulation of dendrite morphogenesis regulation of synapse structure or activity synapse organization dendritic spine morphogenesis dendritic spine development postsynapse organization dendritic spine organization regulation of postsynapse organization positive regulation of cell morphogenesis regulation of dendrite development regulation of dendritic spine development dendrite development positive regulation of neuron projection development dendrite morphogenesis positive regulation of dendrite morphogenesis regulation of synapse organization cell junction organization regulation of dendritic spine morphogenesis neuron projection organization hippocampus development limbic system development adult locomotory behavior behavior adult behavior locomotory behavior platelet activating factor metabolic process glycerophospholipid metabolic process primary metabolic process phospholipid metabolic process organophosphate metabolic process ether lipid metabolic process phosphate-containing compound metabolic process metabolic process glycerolipid metabolic process phosphorus metabolic process lipid metabolic process corpus callosum development corpus callosum morphogenesis central nervous system neuron development central nervous system projection neuron axonogenesis central nervous system neuron axonogenesis cortical cytoskeleton organization cytoplasmic microtubule organization cortical microtubule organization supramolecular fiber organization vesicle cytoskeletal trafficking vesicle localization organelle transport along microtubule establishment of vesicle localization vesicle transport along microtubule microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement brain morphogenesis animal organ morphogenesis ameboidal-type cell migration neuromuscular process neuromuscular process controlling balance negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of cell communication negative regulation of JNK cascade regulation of intracellular signal transduction negative regulation of response to stimulus regulation of JNK cascade regulation of MAPK cascade negative regulation of signal transduction negative regulation of MAPK cascade regulation of cytoskeleton organization regulation of microtubule-based process regulation of organelle organization regulation of microtubule cytoskeleton organization establishment of planar polarity of embryonic epithelium lipid catabolic process catabolic process learning or memory cognition neuron migration interneuron migration leukocyte migration immune system process myeloid leukocyte migration radial glia-guided pyramidal neuron migration microtubule sliding regulation of embryonic development embryo development positive regulation of embryonic development retrograde axonal transport axonal transport axo-dendritic transport positive regulation of cell cycle regulation of mitotic cell cycle positive regulation of mitotic cell cycle regulation of cell cycle establishment of centrosome localization	membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane membrane organelle membrane extracellular exosome membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane membrane organelle membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol cell leading edge protein-containing complex intracellular membraneless organelle cytoskeleton membraneless organelle microtubule associated complex kinesin complex microtubule cytoskeleton synapse cell junction glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection perinuclear region of cytoplasm somatodendritic compartment cell body neuronal cell body stereocilium actin-based cell projection stereocilium bundle cluster of actin-based cell projections neuron projection cytoplasm axon axon cytoplasm cytoplasmic region plasma membrane bounded cell projection cytoplasm growth cone distal axon central region of growth cone site of polarized growth cell periphery cell cortex centrosome microtubule organizing center cilium motile cilium polymeric cytoskeletal fiber spindle aster astral microtubule spindle microtubule cytoplasmic microtubule supramolecular fiber microtubule supramolecular polymer supramolecular complex catalytic complex 1-alkyl-2-acetylglycerophosphocholine esterase complex chromosome chromosomal region kinetochore chromosome, centromeric region condensed chromosome, centromeric region condensed chromosome Schaffer collateral - CA1 synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR019775	WD40 repeat, conserved site	Conserved Site
A	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
A	IPR006594	LIS1 homology motif	Conserved Site
A	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A	IPR037190	LIS1, N-terminal	Homologous Superfamily
A	IPR050349	WD repeat LIS1/nudF dynein regulation	Family
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR056795	PAC1-like, LisH-like dimerisation domain	Domain
A	IPR001680	WD40 repeat	Repeat
A	IPR017252	Dynein regulator LIS1	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P43034	Miller-Dieker lissencephaly syndrome lissencephaly spectrum disorders subcortical band heterotopia chromosome 17p13.3 duplication syndrome Carcinogenesis lissencephaly due to LIS1 mutation malignant glioma ovarian cancer plasma cell myeloma breast cancer X-linked mixed deafness with perilymphatic gusher Down syndrome Gaucher disease intellectual disability lung adenocarcinoma Miller-Dieker lissencephaly syndrome lissencephaly spectrum disorders subcortical band heterotopia chromosome 17p13.3 duplication syndrome Carcinogenesis lissencephaly due to LIS1 mutation malignant glioma ovarian cancer plasma cell myeloma breast cancer X-linked mixed deafness with perilymphatic gusher Down syndrome Gaucher disease intellectual disability lung adenocarcinoma medulloblastoma oligodendroglioma Alzheimer disease psoriasis subependymal giant cell astrocytoma endogenous depression glioblastoma large cell medulloblastoma microcephaly osteosarcoma Pick disease atypical teratoid rhabdoid tumor schizophrenia cerebrovascular disorder tuberculosis dermatomyositis hereditary spastic paraplegia limb-girdle muscular dystrophy

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.