LYSM1_HUMAN
ID LYSM1_HUMAN Reviewed; 227 AA.
AC Q96S90; B4DQA1; Q69YX9;
DT 05-SEP-2006, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 152.
DE RecName: Full=LysM and putative peptidoglycan-binding domain-containing protein 1;
GN Name=LYSMD1; ORFNames=SB145;
OS Homo sapiens (Human).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC Homo.
OX NCBI_TaxID=9606;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RA Li N., Zhang W., Wan T., Zhang M., Cao X.;
RL Submitted (MAY-2001) to the EMBL/GenBank/DDBJ databases.
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RX PubMed=14702039; DOI=10.1038/ng1285;
RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R.,
RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H.,
RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.,
RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K.,
RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H.,
RA Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M.,
RA Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K.,
RA Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T.,
RA Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M.,
RA Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S.,
RA Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H.,
RA Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K.,
RA Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N.,
RA Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S.,
RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O.,
RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H.,
RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B.,
RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y.,
RA Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K.,
RA Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T.,
RA Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T.,
RA Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y.,
RA Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H.,
RA Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y.,
RA Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H.,
RA Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O.,
RA Isogai T., Sugano S.;
RT "Complete sequencing and characterization of 21,243 full-length human
RT cDNAs.";
RL Nat. Genet. 36:40-45(2004).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC TISSUE=Brain, and Cervix;
RX PubMed=17974005; DOI=10.1186/1471-2164-8-399;
RA Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U.,
RA Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D.,
RA Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A.,
RA Wiemann S., Schupp I.;
RT "The full-ORF clone resource of the German cDNA consortium.";
RL BMC Genomics 8:399-399(2007).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=16710414; DOI=10.1038/nature04727;
RA Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A.,
RA Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C.,
RA Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.,
RA Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C.,
RA Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W.,
RA Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J.,
RA Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J.,
RA Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y.,
RA Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J.,
RA Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H.,
RA Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L.,
RA Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J.,
RA Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S.,
RA Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K.,
RA Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R.,
RA Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M.,
RA Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S.,
RA Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J.,
RA Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W.,
RA McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N.,
RA Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V.,
RA Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J.,
RA Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E.,
RA Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S.,
RA Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M.,
RA White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H.,
RA Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E.,
RA Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G.,
RA Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.;
RT "The DNA sequence and biological annotation of human chromosome 1.";
RL Nature 441:315-321(2006).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC TISSUE=Brain;
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 [6]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-99, AND IDENTIFICATION BY
RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Cervix carcinoma;
RX PubMed=20068231; DOI=10.1126/scisignal.2000475;
RA Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L.,
RA Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.;
RT "Quantitative phosphoproteomics reveals widespread full phosphorylation
RT site occupancy during mitosis.";
RL Sci. Signal. 3:RA3-RA3(2010).
RN [7]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=21269460; DOI=10.1186/1752-0509-5-17;
RA Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T.,
RA Bennett K.L., Superti-Furga G., Colinge J.;
RT "Initial characterization of the human central proteome.";
RL BMC Syst. Biol. 5:17-17(2011).
RN [8]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-99, AND IDENTIFICATION BY
RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=21406692; DOI=10.1126/scisignal.2001570;
RA Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T.,
RA Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.;
RT "System-wide temporal characterization of the proteome and phosphoproteome
RT of human embryonic stem cell differentiation.";
RL Sci. Signal. 4:RS3-RS3(2011).
RN [9]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-23; SER-33; SER-99; SER-166
RP AND SER-212, AND IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE
RP ANALYSIS].
RC TISSUE=Cervix carcinoma, and Erythroleukemia;
RX PubMed=23186163; DOI=10.1021/pr300630k;
RA Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J.,
RA Mohammed S.;
RT "Toward a comprehensive characterization of a human cancer cell
RT phosphoproteome.";
RL J. Proteome Res. 12:260-271(2013).
RN [10]
RP STRUCTURE BY NMR OF 25-95.
RG RIKEN structural genomics initiative (RSGI);
RT "The solution structure of the LYSM domain of human hypothetical protein
RT SB145.";
RL Submitted (OCT-2006) to the PDB data bank.
CC -!- INTERACTION:
CC Q96S90; Q13115: DUSP4; NbExp=3; IntAct=EBI-10293291, EBI-6591081;
CC Q96S90; Q08379: GOLGA2; NbExp=3; IntAct=EBI-10293291, EBI-618309;
CC Q96S90; A6NEM1: GOLGA6L9; NbExp=3; IntAct=EBI-10293291, EBI-5916454;
CC Q96S90; O76011: KRT34; NbExp=3; IntAct=EBI-10293291, EBI-1047093;
CC Q96S90; Q5JR59: MTUS2; NbExp=3; IntAct=EBI-10293291, EBI-742948;
CC Q96S90; P26367: PAX6; NbExp=3; IntAct=EBI-10293291, EBI-747278;
CC Q96S90; Q6NUQ1: RINT1; NbExp=3; IntAct=EBI-10293291, EBI-726876;
CC Q96S90; Q99081: TCF12; NbExp=3; IntAct=EBI-10293291, EBI-722877;
CC Q96S90; Q9UBB9: TFIP11; NbExp=3; IntAct=EBI-10293291, EBI-1105213;
CC Q96S90; Q12933: TRAF2; NbExp=3; IntAct=EBI-10293291, EBI-355744;
CC Q96S90; Q86WT6-2: TRIM69; NbExp=3; IntAct=EBI-10293291, EBI-11525489;
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q96S90-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q96S90-2; Sequence=VSP_041083;
CC -!- SEQUENCE CAUTION:
CC Sequence=CAH10716.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AY037156; AAK67635.1; -; mRNA.
DR EMBL; AK298706; BAG60863.1; -; mRNA.
DR EMBL; AL122088; CAH10716.1; ALT_INIT; mRNA.
DR EMBL; BX647911; CAH10574.1; -; mRNA.
DR EMBL; AL592424; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BC031649; AAH31649.1; -; mRNA.
DR CCDS; CCDS44218.1; -. [Q96S90-2]
DR CCDS; CCDS986.1; -. [Q96S90-1]
DR RefSeq; NP_001130015.1; NM_001136543.1. [Q96S90-2]
DR RefSeq; NP_997716.1; NM_212551.4. [Q96S90-1]
DR PDB; 2DJP; NMR; -; A=32-95.
DR PDBsum; 2DJP; -.
DR AlphaFoldDB; Q96S90; -.
DR SMR; Q96S90; -.
DR BioGRID; 132813; 13.
DR IntAct; Q96S90; 14.
DR MINT; Q96S90; -.
DR STRING; 9606.ENSP00000357904; -.
DR iPTMnet; Q96S90; -.
DR PhosphoSitePlus; Q96S90; -.
DR BioMuta; LYSMD1; -.
DR DMDM; 74752122; -.
DR EPD; Q96S90; -.
DR jPOST; Q96S90; -.
DR MassIVE; Q96S90; -.
DR MaxQB; Q96S90; -.
DR PaxDb; Q96S90; -.
DR PeptideAtlas; Q96S90; -.
DR PRIDE; Q96S90; -.
DR ProteomicsDB; 78085; -. [Q96S90-1]
DR ProteomicsDB; 78086; -. [Q96S90-2]
DR Antibodypedia; 34054; 117 antibodies from 18 providers.
DR DNASU; 388695; -.
DR Ensembl; ENST00000368908.10; ENSP00000357904.5; ENSG00000163155.12. [Q96S90-1]
DR Ensembl; ENST00000440902.2; ENSP00000404059.2; ENSG00000163155.12. [Q96S90-2]
DR GeneID; 388695; -.
DR KEGG; hsa:388695; -.
DR MANE-Select; ENST00000368908.10; ENSP00000357904.5; NM_212551.5; NP_997716.1.
DR UCSC; uc001ewy.4; human. [Q96S90-1]
DR CTD; 388695; -.
DR GeneCards; LYSMD1; -.
DR HGNC; HGNC:32070; LYSMD1.
DR HPA; ENSG00000163155; Low tissue specificity.
DR neXtProt; NX_Q96S90; -.
DR OpenTargets; ENSG00000163155; -.
DR PharmGKB; PA142671493; -.
DR VEuPathDB; HostDB:ENSG00000163155; -.
DR eggNOG; ENOG502RZER; Eukaryota.
DR GeneTree; ENSGT00940000160002; -.
DR HOGENOM; CLU_079453_0_0_1; -.
DR InParanoid; Q96S90; -.
DR OMA; WPHSAER; -.
DR OrthoDB; 1553362at2759; -.
DR PhylomeDB; Q96S90; -.
DR TreeFam; TF318444; -.
DR PathwayCommons; Q96S90; -.
DR SignaLink; Q96S90; -.
DR BioGRID-ORCS; 388695; 19 hits in 1074 CRISPR screens.
DR ChiTaRS; LYSMD1; human.
DR EvolutionaryTrace; Q96S90; -.
DR GenomeRNAi; 388695; -.
DR Pharos; Q96S90; Tdark.
DR PRO; PR:Q96S90; -.
DR Proteomes; UP000005640; Chromosome 1.
DR RNAct; Q96S90; protein.
DR Bgee; ENSG00000163155; Expressed in buccal mucosa cell and 125 other tissues.
DR Genevisible; Q96S90; HS.
DR GO; GO:0005654; C:nucleoplasm; IDA:HPA.
DR CDD; cd00118; LysM; 1.
DR Gene3D; 3.10.350.10; -; 1.
DR InterPro; IPR045030; LYSM1-4.
DR InterPro; IPR018392; LysM_dom.
DR InterPro; IPR036779; LysM_dom_sf.
DR PANTHER; PTHR20932; PTHR20932; 1.
DR Pfam; PF01476; LysM; 1.
DR SMART; SM00257; LysM; 1.
DR SUPFAM; SSF54106; SSF54106; 1.
DR PROSITE; PS51782; LYSM; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Alternative splicing; Phosphoprotein; Reference proteome.
FT CHAIN 1..227
FT /note="LysM and putative peptidoglycan-binding domain-
FT containing protein 1"
FT /id="PRO_0000247996"
FT DOMAIN 40..84
FT /note="LysM"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01118"
FT REGION 1..22
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 97..150
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 97..130
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 23
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:23186163"
FT MOD_RES 33
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:23186163"
FT MOD_RES 99
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:20068231,
FT ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163"
FT MOD_RES 166
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:23186163"
FT MOD_RES 194
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q9D0E3"
FT MOD_RES 212
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:23186163"
FT VAR_SEQ 1..60
FT /note="MASPSRQPPPGGSGLLQGSRARSYGSLVQSACSPVRERRLEHQLEPGDTLAG
FT LALKYGVT -> MRSGPLRISEWK (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:14702039"
FT /id="VSP_041083"
FT CONFLICT 128
FT /note="T -> G (in Ref. 3; CAH10716)"
FT /evidence="ECO:0000305"
FT CONFLICT 164
FT /note="Q -> R (in Ref. 2; BAG60863)"
FT /evidence="ECO:0000305"
FT CONFLICT 198
FT /note="Q -> R (in Ref. 3; CAH10716)"
FT /evidence="ECO:0000305"
FT STRAND 37..42
FT /evidence="ECO:0007829|PDB:2DJP"
FT HELIX 50..57
FT /evidence="ECO:0007829|PDB:2DJP"
FT HELIX 61..67
FT /evidence="ECO:0007829|PDB:2DJP"
FT HELIX 76..78
FT /evidence="ECO:0007829|PDB:2DJP"
FT STRAND 82..87
FT /evidence="ECO:0007829|PDB:2DJP"
SQ SEQUENCE 227 AA; 25003 MW; 3F119652D42F224F CRC64;
MASPSRQPPP GGSGLLQGSR ARSYGSLVQS ACSPVRERRL EHQLEPGDTL AGLALKYGVT
MEQIKRANRL YTNDSIFLKK TLYIPILTEP RDLFNGLDSE EEKDGEEKVH PSNSEVWPHS
TERKKQETGA GRANGEVLPT PGQETPTPIH DLSASDFLKK LDSQISLSKK AAAQKLKKGE
NGVPGEDAGL HLSSPWMQQR AVLGPVPLTR TSRTRTLRDQ EDEIFKL
