CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-007631
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Platelet-activating factor acetylhydrolase IB subunit alpha 
Protein Synonyms/Alias
 Lissencephaly-1 protein; LIS-1; PAF acetylhydrolase 45 kDa subunit; PAF-AH 45 kDa subunit; PAF-AH alpha; PAFAH alpha 
Gene Name
 PAFAH1B1 
Gene Synonyms/Alias
 LIS1; MDCR; MDS; PAFAHA 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
33EAYSVFKKEAELDVNubiquitination[1, 2]
46VNEELDKKYAGLLEKubiquitination[2]
53KYAGLLEKKWTSVIRacetylation[3]
54YAGLLEKKWTSVIRLubiquitination[2]
76ESKLNEAKEEFTSGGubiquitination[1, 2, 4]
88SGGPLGQKRDPKEWIubiquitination[1, 2, 4]
147GDFERTLKGHTDSVQubiquitination[1, 5]
306SETKKSGKPGPFLLSubiquitination[2]
370RVWDYKNKRCMKTLNubiquitination[2]
Reference
 [1] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [2] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [3] Lysine acetylation targets protein complexes and co-regulates major cellular functions.
 Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M.
 Science. 2009 Aug 14;325(5942):834-40. [PMID: 19608861]
 [4] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302]
 [5] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724] 
Functional Description
 Required for proper activation of Rho GTPases and actin polymerization at the leading edge of locomoting cerebellar neurons and postmigratory hippocampal neurons in response to calcium influx triggered via NMDA receptors. Non-catalytic subunit of an acetylhydrolase complex which inactivates platelet- activating factor (PAF) by removing the acetyl group at the SN-2 position (By similarity). Positively regulates the activity of the minus-end directed microtubule motor protein dynein. May enhance dynein-mediated microtubule sliding by targeting dynein to the microtubule plus end. Required for several dynein- and microtubule-dependent processes such as the maintenance of Golgi integrity, the peripheral transport of microtubule fragments and the coupling of the nucleus and centrosome. Required during brain development for the proliferation of neuronal precursors and the migration of newly formed neurons from the ventricular/subventricular zone toward the cortical plate. Neuronal migration involves a process called nucleokinesis, whereby migrating cells extend an anterior process into which the nucleus subsequently translocates. During nucleokinesis dynein at the nuclear surface may translocate the nucleus towards the centrosome by exerting force on centrosomal microtubules. May also play a role in other forms of cell locomotion including the migration of fibroblasts during wound healing. 
Sequence Annotation
 DOMAIN 7 39 LisH.
 REPEAT 106 147 WD 1.
 REPEAT 148 187 WD 2.
 REPEAT 190 229 WD 3.
 REPEAT 232 271 WD 4.
 REPEAT 274 333 WD 5.
 REPEAT 336 377 WD 6.
 REPEAT 378 410 WD 7.
 REGION 1 102 Interaction with NDEL1 (By similarity).
 REGION 1 66 Interaction with NDE1 (By similarity).
 REGION 1 38 Required for self-association and
 REGION 83 410 Interaction with dynein and dynactin.
 REGION 367 409 Interaction with DCX.
 REGION 388 410 Interaction with NDEL1 (By similarity).
 MOD_RES 28 28 Phosphotyrosine (By similarity).
 MOD_RES 53 53 N6-acetyllysine.  
Keyword
 Acetylation; Alternative splicing; Cell cycle; Cell division; Coiled coil; Complete proteome; Cytoplasm; Cytoskeleton; Developmental protein; Differentiation; Disease mutation; Lipid degradation; Lipid metabolism; Lissencephaly; Membrane; Microtubule; Mitosis; Neurogenesis; Nucleus; Phosphoprotein; Reference proteome; Repeat; Transport; WD repeat. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 410 AA 
Protein Sequence
MVLSQRQRDE LNRAIADYLR SNGYEEAYSV FKKEAELDVN EELDKKYAGL LEKKWTSVIR 60
LQKKVMELES KLNEAKEEFT SGGPLGQKRD PKEWIPRPPE KYALSGHRSP VTRVIFHPVF 120
SVMVSASEDA TIKVWDYETG DFERTLKGHT DSVQDISFDH SGKLLASCSA DMTIKLWDFQ 180
GFECIRTMHG HDHNVSSVAI MPNGDHIVSA SRDKTIKMWE VQTGYCVKTF TGHREWVRMV 240
RPNQDGTLIA SCSNDQTVRV WVVATKECKA ELREHEHVVE CISWAPESSY SSISEATGSE 300
TKKSGKPGPF LLSGSRDKTI KMWDVSTGMC LMTLVGHDNW VRGVLFHSGG KFILSCADDK 360
TLRVWDYKNK RCMKTLNAHE HFVTSLDFHK TAPYVVTGSV DQTVKVWECR 410 
Gene Ontology
 GO:0000235; C:astral microtubule; IDA:UniProtKB.
 GO:0005938; C:cell cortex; IDA:UniProtKB.
 GO:0031252; C:cell leading edge; IEA:Compara.
 GO:0005813; C:centrosome; IDA:UniProtKB.
 GO:0005829; C:cytosol; ISS:BHF-UCL.
 GO:0030426; C:growth cone; IEA:Compara.
 GO:0005871; C:kinesin complex; IEA:Compara.
 GO:0000776; C:kinetochore; IDA:UniProtKB.
 GO:0005875; C:microtubule associated complex; IDA:UniProtKB.
 GO:0031512; C:motile primary cilium; ISS:BHF-UCL.
 GO:0043025; C:neuronal cell body; IEA:Compara.
 GO:0005635; C:nuclear envelope; IDA:UniProtKB.
 GO:0031965; C:nuclear membrane; IEA:UniProtKB-SubCell.
 GO:0048471; C:perinuclear region of cytoplasm; ISS:BHF-UCL.
 GO:0031982; C:vesicle; IEA:Compara.
 GO:0034452; F:dynactin binding; ISS:BHF-UCL.
 GO:0045502; F:dynein binding; IDA:UniProtKB.
 GO:0008201; F:heparin binding; ISS:BHF-UCL.
 GO:0008017; F:microtubule binding; ISS:BHF-UCL.
 GO:0043274; F:phospholipase binding; ISS:BHF-UCL.
 GO:0051219; F:phosphoprotein binding; ISS:BHF-UCL.
 GO:0042803; F:protein homodimerization activity; ISS:BHF-UCL.
 GO:0001675; P:acrosome assembly; ISS:BHF-UCL.
 GO:0030036; P:actin cytoskeleton organization; ISS:BHF-UCL.
 GO:0008344; P:adult locomotory behavior; IMP:BHF-UCL.
 GO:0001667; P:ameboidal cell migration; IEA:Compara.
 GO:0048854; P:brain morphogenesis; IMP:BHF-UCL.
 GO:0021895; P:cerebral cortex neuron differentiation; IEA:Compara.
 GO:0021540; P:corpus callosum morphogenesis; IMP:BHF-UCL.
 GO:0051660; P:establishment of centrosome localization; IEA:Compara.
 GO:0000132; P:establishment of mitotic spindle orientation; IMP:UniProtKB.
 GO:0000086; P:G2/M transition of mitotic cell cycle; TAS:Reactome.
 GO:0021766; P:hippocampus development; ISS:BHF-UCL.
 GO:0021819; P:layer formation in cerebral cortex; ISS:BHF-UCL.
 GO:0007611; P:learning or memory; ISS:BHF-UCL.
 GO:0016042; P:lipid catabolic process; IEA:UniProtKB-KW.
 GO:0031023; P:microtubule organizing center organization; IMP:UniProtKB.
 GO:0007067; P:mitosis; IEA:UniProtKB-KW.
 GO:0046329; P:negative regulation of JNK cascade; IEA:Compara.
 GO:0010977; P:negative regulation of neuron projection development; IEA:Compara.
 GO:0007405; P:neuroblast proliferation; ISS:BHF-UCL.
 GO:0050885; P:neuromuscular process controlling balance; IMP:BHF-UCL.
 GO:0001764; P:neuron migration; IMP:UniProtKB.
 GO:0051081; P:nuclear envelope disassembly; IEA:Compara.
 GO:0007097; P:nuclear migration; IEA:Compara.
 GO:0036035; P:osteoclast development; IEA:Compara.
 GO:0046469; P:platelet activating factor metabolic process; ISS:BHF-UCL.
 GO:0045773; P:positive regulation of axon extension; IEA:Compara.
 GO:0001961; P:positive regulation of cytokine-mediated signaling pathway; IEA:Compara.
 GO:0045931; P:positive regulation of mitotic cell cycle; IEA:Compara.
 GO:0009306; P:protein secretion; IEA:Compara.
 GO:0032319; P:regulation of Rho GTPase activity; ISS:BHF-UCL.
 GO:0008090; P:retrograde axon cargo transport; ISS:BHF-UCL.
 GO:0017145; P:stem cell division; IEA:Compara.
 GO:0007268; P:synaptic transmission; ISS:BHF-UCL.
 GO:0047496; P:vesicle transport along microtubule; ISS:BHF-UCL. 
Interpro
 IPR017252; Dynein_regulator_LIS1.
 IPR020472; G-protein_beta_WD-40_rep.
 IPR006594; LisH_dimerisation.
 IPR013720; LisH_dimerisation_subgr.
 IPR015943; WD40/YVTN_repeat-like_dom.
 IPR001680; WD40_repeat.
 IPR019775; WD40_repeat_CS.
 IPR017986; WD40_repeat_dom. 
Pfam
 PF08513; LisH
 PF00400; WD40 
SMART
 SM00667; LisH
 SM00320; WD40 
PROSITE
 PS50896; LISH
 PS00678; WD_REPEATS_1
 PS50082; WD_REPEATS_2
 PS50294; WD_REPEATS_REGION 
PRINTS
 PR00320; GPROTEINBRPT.