LIN39_CAEEL
ID LIN39_CAEEL Reviewed; 253 AA.
AC P34684;
DT 01-FEB-1994, integrated into UniProtKB/Swiss-Prot.
DT 01-FEB-1994, sequence version 1.
DT 03-AUG-2022, entry version 160.
DE RecName: Full=Homeobox protein lin-39;
DE AltName: Full=Abnormal cell lineage protein 39;
GN Name=lin-39 {ECO:0000312|WormBase:C07H6.7};
GN Synonyms=ceh-15 {ECO:0000312|WormBase:C07H6.7};
GN ORFNames=C07H6.7 {ECO:0000312|WormBase:C07H6.7};
OS Caenorhabditis elegans.
OC Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
OC Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae;
OC Caenorhabditis.
OX NCBI_TaxID=6239;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA], AND FUNCTION.
RC STRAIN=Bristol N2;
RX PubMed=8101475; DOI=10.1016/0092-8674(93)90293-y;
RA Clark S.G., Chisholm A.D., Horvitz H.R.;
RT "Control of cell fates in the central body region of C. elegans by the
RT homeobox gene lin-39.";
RL Cell 74:43-55(1993).
RN [2]
RP NUCLEOTIDE SEQUENCE [MRNA].
RX PubMed=8101474; DOI=10.1016/0092-8674(93)90292-x;
RA Wang B.B., Mueller-Immergluck M.M., Austin J., Robinson N.T.,
RA Chisholm A.D., Kenyon C.;
RT "A homeotic gene cluster patterns the anteroposterior body axis of C.
RT elegans.";
RL Cell 74:29-42(1993).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Bristol N2;
RX PubMed=9851916; DOI=10.1126/science.282.5396.2012;
RG The C. elegans sequencing consortium;
RT "Genome sequence of the nematode C. elegans: a platform for investigating
RT biology.";
RL Science 282:2012-2018(1998).
RN [4]
RP FUNCTION, AND INTERACTION WITH NHR-25.
RX PubMed=15314147; DOI=10.1128/mcb.24.17.7345-7358.2004;
RA Chen Z., Eastburn D.J., Han M.;
RT "The Caenorhabditis elegans nuclear receptor gene nhr-25 regulates
RT epidermal cell development.";
RL Mol. Cell. Biol. 24:7345-7358(2004).
RN [5]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RX PubMed=21307099; DOI=10.1242/dev.062240;
RA Tian C., Shi H., Colledge C., Stern M., Waterston R., Liu J.;
RT "The C. elegans SoxC protein SEM-2 opposes differentiation factors to
RT promote a proliferative blast cell fate in the postembryonic mesoderm.";
RL Development 138:1033-1043(2011).
RN [6]
RP FUNCTION, AND DEVELOPMENTAL STAGE.
RX PubMed=23784779; DOI=10.1073/pnas.1301849110;
RA Wang X., Zhou F., Lv S., Yi P., Zhu Z., Yang Y., Feng G., Li W., Ou G.;
RT "Transmembrane protein MIG-13 links the Wnt signaling and Hox genes to the
RT cell polarity in neuronal migration.";
RL Proc. Natl. Acad. Sci. U.S.A. 110:11175-11180(2013).
CC -!- FUNCTION: Transcription factor that binds to the consensus 5'-
CC TGATNNAT(G/T)(G/A)-3' PBC/Hox motif of target genes to regulate gene
CC expression (PubMed:21307099, PubMed:23784779). Binds to the consensus
CC PBC/Hox motif lineage enhancer region of sem-2 to promote cell fate
CC specification in the postembryonic mesoderm (also known as the M
CC lineage) (PubMed:21307099). Regulates the expression of mig-13 which
CC controls the asymmetric distribution of actin cytoskeleton-binding
CC protein cor-1 in Q neuroblasts (PubMed:23784779). This in turn controls
CC the polarity migration of Q neuroblasts and the subsequent mid-body
CC region-specific development (PubMed:8101475, PubMed:23784779).
CC Regulates vulval precursor cell (VPC) differentiation, in concert with
CC orphan nuclear receptor nhr-25. {ECO:0000269|PubMed:15314147,
CC ECO:0000269|PubMed:21307099, ECO:0000269|PubMed:23784779,
CC ECO:0000269|PubMed:8101475}.
CC -!- SUBUNIT: Interacts with nhr-25. {ECO:0000269|PubMed:15314147}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC -!- DEVELOPMENTAL STAGE: Expressed in Q neuroblasts during larval
CC development with higher expression in migrating QR.ap neuroblast
CC descendents than in QL.ap neuroblast descendents.
CC {ECO:0000269|PubMed:23784779}.
CC -!- DISRUPTION PHENOTYPE: Lin-39 and mab-5 double mutants have reduced sex
CC myoblast specification-specific expression of sem-2 in the developing
CC mesoderm. {ECO:0000269|PubMed:21307099}.
CC -!- SIMILARITY: Belongs to the Antp homeobox family. Deformed subfamily.
CC {ECO:0000305}.
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DR EMBL; L19639; AAC37168.1; -; mRNA.
DR EMBL; L19248; AAB04137.1; -; mRNA.
DR EMBL; FO080423; CCD63594.1; -; Genomic_DNA.
DR PIR; B40722; B40722.
DR RefSeq; NP_001021164.1; NM_001025993.2.
DR AlphaFoldDB; P34684; -.
DR SMR; P34684; -.
DR BioGRID; 41276; 26.
DR IntAct; P34684; 23.
DR MINT; P34684; -.
DR STRING; 6239.C07H6.7.1; -.
DR EPD; P34684; -.
DR PaxDb; P34684; -.
DR EnsemblMetazoa; C07H6.7.1; C07H6.7.1; WBGene00003024.
DR EnsemblMetazoa; C07H6.7.2; C07H6.7.2; WBGene00003024.
DR GeneID; 176068; -.
DR KEGG; cel:CELE_C07H6.7; -.
DR UCSC; C07H6.7.2; c. elegans.
DR CTD; 176068; -.
DR WormBase; C07H6.7; CE03975; WBGene00003024; lin-39.
DR eggNOG; KOG0489; Eukaryota.
DR GeneTree; ENSGT00940000169766; -.
DR HOGENOM; CLU_1086806_0_0_1; -.
DR InParanoid; P34684; -.
DR OMA; EFHTHKY; -.
DR OrthoDB; 1399068at2759; -.
DR SignaLink; P34684; -.
DR PRO; PR:P34684; -.
DR Proteomes; UP000001940; Chromosome III.
DR Bgee; WBGene00003024; Expressed in embryo and 3 other tissues.
DR GO; GO:0005634; C:nucleus; IDA:WormBase.
DR GO; GO:0000987; F:cis-regulatory region sequence-specific DNA binding; IDA:UniProtKB.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0043565; F:sequence-specific DNA binding; IDA:WormBase.
DR GO; GO:0009952; P:anterior/posterior pattern specification; IMP:UniProtKB.
DR GO; GO:0048337; P:positive regulation of mesodermal cell fate specification; IGI:UniProtKB.
DR GO; GO:0045893; P:positive regulation of transcription, DNA-templated; IDA:UniProtKB.
DR GO; GO:0040026; P:positive regulation of vulval development; IMP:WormBase.
DR GO; GO:0051302; P:regulation of cell division; IMP:WormBase.
DR GO; GO:0042659; P:regulation of cell fate specification; IMP:UniProtKB.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR CDD; cd00086; homeodomain; 1.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017995; Homeobox_antennapedia.
DR InterPro; IPR001827; Homeobox_Antennapedia_CS.
DR InterPro; IPR017970; Homeobox_CS.
DR InterPro; IPR001356; Homeobox_dom.
DR InterPro; IPR020479; Homeobox_metazoa.
DR Pfam; PF00046; Homeodomain; 1.
DR PRINTS; PR00025; ANTENNAPEDIA.
DR PRINTS; PR00024; HOMEOBOX.
DR SMART; SM00389; HOX; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR PROSITE; PS00032; ANTENNAPEDIA; 1.
DR PROSITE; PS00027; HOMEOBOX_1; 1.
DR PROSITE; PS50071; HOMEOBOX_2; 1.
PE 1: Evidence at protein level;
KW Developmental protein; DNA-binding; Homeobox; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..253
FT /note="Homeobox protein lin-39"
FT /id="PRO_0000049168"
FT DNA_BIND 165..224
FT /note="Homeobox"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 1..53
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 115..148
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 148..153
FT /note="Antp-type hexapeptide"
FT COMPBIAS 115..143
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 253 AA; 27815 MW; 6B59DE9568B834A1 CRC64;
MTTSTSPSST DAPRATAPES SSSSSSSSSS SSSTSSVGAS GIPSSSELSS TIGYDPMTAS
AALSAHFGSY YDPTSSSQIA SYFASSQGLG GPQYPILGDQ SLCYNPSVTS THHDWKHLEG
DDDDDKDDDK KGISGDDDDM DKNSGGAVYP WMTRVHSTTG GSRGEKRQRT AYTRNQVLEL
EKEFHTHKYL TRKRRIEVAH SLMLTERQVK IWFQNRRMKH KKENKDKPMT PPMMPFGANL
PFGPFRFPLF NQF
