ID PKHM1_MOUSE Reviewed; 1074 AA. AC Q7TSI1; Q3U3L2; Q8CHU5; DT 13-NOV-2007, integrated into UniProtKB/Swiss-Prot. DT 01-OCT-2003, sequence version 1. DT 22-FEB-2023, entry version 137. DE RecName: Full=Pleckstrin homology domain-containing family M member 1 {ECO:0000305}; DE Short=PH domain-containing family M member 1; GN Name=Plekhm1 {ECO:0000312|MGI:MGI:2443207}; OS Mus musculus (Mouse). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; OC Murinae; Mus; Mus. OX NCBI_TaxID=10090; RN [1] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. RC STRAIN=NOD; RX PubMed=16141072; DOI=10.1126/science.1112014; RA Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., RA Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., RA Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J., RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., RA Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., RA Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., RA Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.; RT "The transcriptional landscape of the mammalian genome."; RL Science 309:1559-1563(2005). RN [2] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RC STRAIN=C57BL/6J; RX PubMed=19468303; DOI=10.1371/journal.pbio.1000112; RA Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., RA Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., RA Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S., RA Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., RA Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., RA Eichler E.E., Ponting C.P.; RT "Lineage-specific biology revealed by a finished genome assembly of the RT mouse."; RL PLoS Biol. 7:E1000112-E1000112(2009). RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. RC STRAIN=C57BL/6J, and FVB/N; TISSUE=Brain, and Kidney; RX PubMed=15489334; DOI=10.1101/gr.2596504; RG The MGC Project Team; RT "The status, quality, and expansion of the NIH full-length cDNA project: RT the Mammalian Gene Collection (MGC)."; RL Genome Res. 14:2121-2127(2004). RN [4] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-218; SER-436 AND SER-491, AND RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RC TISSUE=Brown adipose tissue, and Spleen; RX PubMed=21183079; DOI=10.1016/j.cell.2010.12.001; RA Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R., RA Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.; RT "A tissue-specific atlas of mouse protein phosphorylation and expression."; RL Cell 143:1174-1189(2010). RN [5] RP INTERACTION WITH PAFAH1B1. RX PubMed=22073305; DOI=10.1371/journal.pone.0027285; RA Ye S., Fowler T.W., Pavlos N.J., Ng P.Y., Liang K., Feng Y., Zheng M., RA Kurten R., Manolagas S.C., Zhao H.; RT "LIS1 regulates osteoclast formation and function through its interactions RT with dynein/dynactin and Plekhm1."; RL PLoS ONE 6:E27285-E27285(2011). RN [6] RP FUNCTION, AND SUBCELLULAR LOCATION. RX PubMed=25498145; DOI=10.1016/j.molcel.2014.11.006; RA McEwan D.G., Popovic D., Gubas A., Terawaki S., Suzuki H., Stadel D., RA Coxon F.P., Miranda de Stegmann D., Bhogaraju S., Maddi K., Kirchof A., RA Gatti E., Helfrich M.H., Wakatsuki S., Behrends C., Pierre P., Dikic I.; RT "PLEKHM1 regulates autophagosome-lysosome fusion through HOPS complex and RT LC3/GABARAP proteins."; RL Mol. Cell 57:39-54(2015). RN [7] RP FUNCTION, INTERACTION WITH DEF8; FAM98A; NDEL1 AND RAB7A, DISRUPTION RP PHENOTYPE, AND MUTAGENESIS OF ARG-714 AND 949-TYR-LEU-950. RX PubMed=27777970; DOI=10.1172/jci.insight.86330; RA Fujiwara T., Ye S., Castro-Gomes T., Winchell C.G., Andrews N.W., RA Voth D.E., Varughese K.I., Mackintosh S.G., Feng Y., Pavlos N., RA Nakamura T., Manolagas S.C., Zhao H.; RT "PLEKHM1/DEF8/RAB7 complex regulates lysosome positioning and bone RT homeostasis."; RL JCI Insight 1:E86330-E86330(2016). CC -!- FUNCTION: Acts as a multivalent adapter protein that regulates Rab7- CC dependent and HOPS complex-dependent fusion events in the endolysosomal CC system and couples autophagic and the endocytic trafficking pathways. CC Acts as a dual effector of RAB7A and ARL8B that simultaneously binds CC these GTPases, bringing about clustering and fusion of late endosomes CC and lysosomes. Required for late stages of endolysosomal maturation, CC facilitating both endocytosis-mediated degradation of growth factor CC receptors and autophagosome clearance. Interaction with Arl8b is a CC crucial factor in the terminal maturation of autophagosomes and to CC mediate autophagosome-lysosome fusion (PubMed:25498145). Positively CC regulates lysosome peripheral distribution and ruffled border formation CC in osteoclasts (PubMed:27777970). May be involved in negative CC regulation of endocytic transport from early endosome to late CC endosome/lysosome implicating its association with Rab7. May have a CC role in sialyl-lex-mediated transduction of apoptotic signals (By CC similarity). Involved in bone resorption (PubMed:27777970). CC {ECO:0000250|UniProtKB:Q9Y4G2, ECO:0000269|PubMed:25498145, CC ECO:0000269|PubMed:27777970}. CC -!- SUBUNIT: Interacts (via N- and C-terminus) with RAB7A (GTP-bound form). CC Simultaneously interacts with RAB7A and ARL8B; bringing about CC clustering and fusion of late endosomes and lysosomes. Interacts (via CC RUN domain) with ARL8B (GTP-bound form); the interaction is required CC for PLEKHM1 localization to lysosomes and for ARL8B function in CC delivery and degradation of endocytic and autophagic cargo in CC lysosomes. PLEKHM1 and PLEKHM2 compete for interaction with ARL8B. CC Interacts with ARL8A; the interaction is weaker than with ARL8B. CC Interacts with VPS41, VPS11, VPS18, VPS33A and VPS39; indicative for an CC association with the HOPS complex; the interactions with, at least, CC VPS41, VPS11, VPS18 and VPS33A require ARL8B (By similarity). Interacts CC with GABARAP, GABARAPL, GABARAPL2, MAP1LC3A, MAP1LC3B and MAP1LC3C (By CC similarity). Interacts with PAFAH1B (PubMed:22073305). Interacts (via CC N- and C-terminus) with NDEL1 (PubMed:27777970). Interacts (via C- CC terminus) with MAP3K7 (PubMed:27777970). Interacts (via N- and C- CC terminus) with FAM98A (PubMed:27777970). Interacts (via C-terminus) CC with DEF8; this interaction is weak but increased in a RAB7A-dependent CC manner (PubMed:27777970). May interact with sialyl-lex-positive protein CC (By similarity). {ECO:0000250|UniProtKB:Q9Y4G2, CC ECO:0000269|PubMed:22073305, ECO:0000269|PubMed:27777970}. CC -!- SUBCELLULAR LOCATION: Autolysosome membrane CC {ECO:0000250|UniProtKB:Q9Y4G2}. Endosome membrane CC {ECO:0000250|UniProtKB:Q9Y4G2}. Late endosome membrane CC {ECO:0000250|UniProtKB:Q9Y4G2}. Lysosome membrane CC {ECO:0000250|UniProtKB:Q9Y4G2}. Note=In case of infection colocalizes CC with Salmonella typhimurium sifA in proximity of Salmonella-containing CC vacuole (SCV). {ECO:0000250|UniProtKB:Q9Y4G2}. CC -!- DOMAIN: The LIR (LC3-interacting region) motif mediates the interaction CC with ATG8 family proteins GABARAP, GABARAPL, GABARAPL2, and LC3A/B/C. CC {ECO:0000250|UniProtKB:Q9Y4G2}. CC -!- DISRUPTION PHENOTYPE: Osteoclast-specific conditional knockout mice CC show normal tooth eruption, developed normally and are fertile, but CC trabecular bone mass in long bones and vertebrae is increased CC (PubMed:27777970). Osteoclast differentiation and number are normal, CC but bone resorption is decreased (PubMed:27777970). Show CC mislocalization of osteoclast lysosomes at the perinuclear area, CC instead at the cell periphery, and decreased ruffled border formation CC (PubMed:27777970). {ECO:0000269|PubMed:27777970}. CC -!- MISCELLANEOUS: Sialyl-lex is a carcinoma associated antigen. CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; AK154703; BAE32773.1; -; mRNA. DR EMBL; AL772325; -; NOT_ANNOTATED_CDS; Genomic_DNA. DR EMBL; AL929552; -; NOT_ANNOTATED_CDS; Genomic_DNA. DR EMBL; BC038943; AAH38943.1; -; mRNA. DR EMBL; BC053079; AAH53079.1; -; mRNA. DR CCDS; CCDS25518.1; -. DR RefSeq; NP_898855.1; NM_183034.1. DR AlphaFoldDB; Q7TSI1; -. DR SMR; Q7TSI1; -. DR BioGRID; 237251; 1. DR IntAct; Q7TSI1; 1. DR STRING; 10090.ENSMUSP00000047327; -. DR iPTMnet; Q7TSI1; -. DR PhosphoSitePlus; Q7TSI1; -. DR EPD; Q7TSI1; -. DR jPOST; Q7TSI1; -. DR MaxQB; Q7TSI1; -. DR PaxDb; Q7TSI1; -. DR PeptideAtlas; Q7TSI1; -. DR ProteomicsDB; 289911; -. DR Antibodypedia; 30012; 146 antibodies from 27 providers. DR Ensembl; ENSMUST00000041272.10; ENSMUSP00000047327.9; ENSMUSG00000034247.10. DR GeneID; 353047; -. DR KEGG; mmu:353047; -. DR UCSC; uc007lug.1; mouse. DR AGR; MGI:2443207; -. DR CTD; 9842; -. DR MGI; MGI:2443207; Plekhm1. DR VEuPathDB; HostDB:ENSMUSG00000034247; -. DR eggNOG; KOG1829; Eukaryota. DR GeneTree; ENSGT00940000155111; -. DR HOGENOM; CLU_011318_0_0_1; -. DR InParanoid; Q7TSI1; -. DR OMA; HVLNCDL; -. DR OrthoDB; 126314at2759; -. DR PhylomeDB; Q7TSI1; -. DR TreeFam; TF317067; -. DR BioGRID-ORCS; 353047; 3 hits in 76 CRISPR screens. DR ChiTaRS; Plekhm1; mouse. DR PRO; PR:Q7TSI1; -. DR Proteomes; UP000000589; Chromosome 11. DR RNAct; Q7TSI1; protein. DR Bgee; ENSMUSG00000034247; Expressed in granulocyte and 189 other tissues. DR ExpressionAtlas; Q7TSI1; baseline and differential. DR Genevisible; Q7TSI1; MM. DR GO; GO:0044754; C:autolysosome; ISS:UniProtKB. DR GO; GO:0043231; C:intracellular membrane-bounded organelle; ISO:MGI. DR GO; GO:0031902; C:late endosome membrane; IEA:UniProtKB-SubCell. DR GO; GO:0005765; C:lysosomal membrane; IEA:UniProtKB-SubCell. DR GO; GO:0005764; C:lysosome; ISS:UniProtKB. DR GO; GO:0005730; C:nucleolus; ISO:MGI. DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW. DR GO; GO:0061909; P:autophagosome-lysosome fusion; ISS:UniProtKB. DR GO; GO:1902774; P:late endosome to lysosome transport; ISS:UniProtKB. DR GO; GO:0032418; P:lysosome localization; IMP:UniProtKB. DR GO; GO:0045780; P:positive regulation of bone resorption; IMP:UniProtKB. DR GO; GO:1900029; P:positive regulation of ruffle assembly; IMP:UniProtKB. DR GO; GO:0015031; P:protein transport; IEA:UniProtKB-KW. DR CDD; cd13321; PH_PLEKHM1; 1. DR Gene3D; 1.20.58.900; -; 1. DR Gene3D; 2.30.29.30; Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB); 1. DR InterPro; IPR002219; PE/DAG-bd. DR InterPro; IPR011993; PH-like_dom_sf. DR InterPro; IPR001849; PH_domain. DR InterPro; IPR042827; PLEKHM1_PH. DR InterPro; IPR025258; RH_dom. DR InterPro; IPR004012; Run_dom. DR InterPro; IPR037213; Run_dom_sf. DR PANTHER; PTHR12326; PLECKSTRIN HOMOLOGY DOMAIN CONTAINING PROTEIN; 1. DR PANTHER; PTHR12326:SF5; PLECKSTRIN HOMOLOGY DOMAIN-CONTAINING FAMILY M MEMBER 1; 1. DR Pfam; PF02759; RUN; 1. DR Pfam; PF13901; zf-RING_9; 1. DR SMART; SM00109; C1; 1. DR SMART; SM01175; DUF4206; 1. DR SMART; SM00233; PH; 2. DR SMART; SM00593; RUN; 1. DR SUPFAM; SSF50729; PH domain-like; 2. DR SUPFAM; SSF140741; RUN domain-like; 1. DR PROSITE; PS50003; PH_DOMAIN; 2. DR PROSITE; PS50826; RUN; 1. DR PROSITE; PS50081; ZF_DAG_PE_2; 1. PE 1: Evidence at protein level; KW Autophagy; Cytoplasmic vesicle; Endosome; Lysosome; Membrane; KW Metal-binding; Phosphoprotein; Protein transport; Reference proteome; KW Repeat; Transport; Zinc; Zinc-finger. FT CHAIN 1..1074 FT /note="Pleckstrin homology domain-containing family M FT member 1" FT /id="PRO_0000309336" FT DOMAIN 40..182 FT /note="RUN" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00178" FT DOMAIN 551..642 FT /note="PH 1" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00145" FT DOMAIN 701..795 FT /note="PH 2" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00145" FT ZN_FING 1004..1058 FT /note="Phorbol-ester/DAG-type" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00226" FT REGION 214..244 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 272..336 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 382..454 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 506..526 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 661..680 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 672..1074 FT /note="Interaction with RAB7A" FT /evidence="ECO:0000250|UniProtKB:Q9Y4G2" FT MOTIF 649..655 FT /note="LIR" FT /evidence="ECO:0000250|UniProtKB:Q9Y4G2" FT COMPBIAS 309..336 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 382..408 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 511..525 FT /note="Pro residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT MOD_RES 218 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:21183079" FT MOD_RES 433 FT /note="Phosphoserine" FT /evidence="ECO:0000250|UniProtKB:Q9Y4G2" FT MOD_RES 436 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:21183079" FT MOD_RES 491 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:21183079" FT MUTAGEN 714 FT /note="R->C: No change in osteoclast formation and bone FT resorption." FT /evidence="ECO:0000269|PubMed:27777970" FT MUTAGEN 949..950 FT /note="YL->AA: Decreases interaction with RAB7A." FT /evidence="ECO:0000269|PubMed:27777970" FT CONFLICT 742..744 FT /note="DSH -> TRP (in Ref. 3; AAH38943)" FT /evidence="ECO:0000305" FT CONFLICT 768 FT /note="T -> S (in Ref. 1; BAE32773)" FT /evidence="ECO:0000305" SQ SEQUENCE 1074 AA; 118535 MW; 56EDA05514E4B9F9 CRC64; MLSVENGLDP RAAIQVIKKK LVGSVKALQK QHVSLDTVVT SEDGDANTMC SALEAVFIHG LHAKHIRAEA GGKRKKHTHQ KALPQPVFWP LLKAITHRHI VSDLEHLVFI NTDVGRCRAW LRLALNDGLM ECYLKLLLQE PARLCEYYQP TALLRDAEEA EFLLSFLQGL TSLSFELSYK SAILNEWTLT PLSLSGLCPL SELDPLTTSG AELQRKESLD SISHSSGSED IEVQHSGHKI RRNRKLTASS LSLDTASSSQ LSCSLNSDSC LLQENGPKSP DHSEEPMSYD SDLGMANTDD PDRSLQEVLS EFSKAQVNSA PSSGPNQEPD TPMFQTPLSL HSLATSTHLH FEGSEELFPA HKSSGTSSGG HKHQLLPQET PDEKQLGTAQ AGPAQSTSDQ QPSSPVGGAA GQGSGPWKAL EYGRVGPKLV VSSPTSPKGK SWISEDDFCR PPQEPALKSA AGLCTSPVQD TPESRAALHG PFSQGPRKSC SLGALDKACV PSQACGNAQP APAPAPAPAP APAPAPGVTQ DHKNFCVVHR RQMGLSNPFR GLMKLGTVAR RGAMGIWKEF FCELSPLEFR LYLSDEERTC VESCSLLRCE AVGPAHSDGR FELVFSGKKL ALRASSQDEA EDWLDRVREA LQKVRPQQED EWVNIQYPDQ AEDAPEAPPD SLPPYSTLLP EPAGAQGMQL DWTSAQVPEP DAIKESLLYL YADRTWVPYI FSLSLESLKC FRVRNNEKML SDSHGVETIR DILPDTSLGG PAFFKIITAK AVLKLQAKNT EEATHWRDLV RKVLASYLES AEEAVTLGGS LDEKCQEVLK FATRENGFLL QYLVAIPTEK GLDSQGCFCA GCSRQIGFSF VRPKLCAFSG LYYCDFCHQD DASVIPARII HNWDLTKRPV CRQALKFLAQ IRAQPLINLQ LVNASLYEHV ERMHLIGRSR EQLKLLGDYL GLCRSGALKE LCKRLSHRNY LLESPHRFSV ADLQQIAEGV YEGFLKALIE FASQHVYHCD LCTQRGFICQ ICHHQDIIFP FEFDTTVRCA ECRTVFHQSC QAVVRKGCPR CARRRKYQEQ NVVS //