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LHX4_MOUSE
ID   LHX4_MOUSE              Reviewed;         390 AA.
AC   P53776; O08916; Q810K7; Q9R280;
DT   01-OCT-1996, integrated into UniProtKB/Swiss-Prot.
DT   14-OCT-2008, sequence version 4.
DT   03-AUG-2022, entry version 167.
DE   RecName: Full=LIM/homeobox protein Lhx4;
DE            Short=LIM homeobox protein 4;
GN   Name=Lhx4; Synonyms=Gsh-4, Gsh4;
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   TISSUE=Eye;
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   [2]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 23-390.
RA   Sakai T., Kawaguchi A., Nagashima M.;
RL   Submitted (MAR-1999) to the EMBL/GenBank/DDBJ databases.
RN   [3]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 30-219.
RC   STRAIN=FVB/N; TISSUE=Embryo;
RX   PubMed=9286712; DOI=10.1006/geno.1997.4852;
RA   Yamashita T., Moriyama K., Sheng H.Z., Westphal H.;
RT   "Lhx4, a LIM homeobox gene.";
RL   Genomics 44:144-146(1997).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 161-390.
RX   PubMed=7913017; DOI=10.1002/j.1460-2075.1994.tb06582.x;
RA   Li H., Witte D.P., Branford W.W., Aronow B.J., Weinstein M., Kaur S.,
RA   Wert S., Singh G., Schreiner C.M., Whitsett J.A., Scott W.J. Jr.,
RA   Potter S.S.;
RT   "Gsh-4 encodes a LIM-type homeodomain, is expressed in the developing
RT   central nervous system and is required for early postnatal survival.";
RL   EMBO J. 13:2876-2885(1994).
CC   -!- FUNCTION: May play a critical role in the development of respiratory
CC       control mechanisms and in the normal growth and maturation of the lung.
CC       Binds preferentially to methylated DNA (By similarity).
CC       {ECO:0000250|UniProtKB:Q969G2}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00108}.
CC   -!- TISSUE SPECIFICITY: Transient expression in ventrolateral regions of
CC       the developing neural tube and hindbrain.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=AAD30125.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR   EMBL; BC049834; AAH49834.1; -; mRNA.
DR   EMBL; AF135415; AAD30125.1; ALT_INIT; mRNA.
DR   EMBL; U89343; AAC53336.1; -; mRNA.
DR   EMBL; S71659; AAB31260.1; -; mRNA.
DR   CCDS; CCDS48399.1; -.
DR   PIR; S46332; S46332.
DR   RefSeq; NP_034842.2; NM_010712.2.
DR   PDB; 3MMK; X-ray; 2.16 A; A/B=24-149.
DR   PDB; 6CME; X-ray; 1.92 A; A/B=24-149.
DR   PDBsum; 3MMK; -.
DR   PDBsum; 6CME; -.
DR   AlphaFoldDB; P53776; -.
DR   SASBDB; P53776; -.
DR   SMR; P53776; -.
DR   BioGRID; 201157; 3.
DR   IntAct; P53776; 3.
DR   STRING; 10090.ENSMUSP00000027740; -.
DR   iPTMnet; P53776; -.
DR   PhosphoSitePlus; P53776; -.
DR   PaxDb; P53776; -.
DR   PRIDE; P53776; -.
DR   Antibodypedia; 20587; 385 antibodies from 28 providers.
DR   DNASU; 16872; -.
DR   Ensembl; ENSMUST00000027740; ENSMUSP00000027740; ENSMUSG00000026468.
DR   GeneID; 16872; -.
DR   KEGG; mmu:16872; -.
DR   UCSC; uc007dbn.2; mouse.
DR   CTD; 89884; -.
DR   MGI; MGI:101776; Lhx4.
DR   VEuPathDB; HostDB:ENSMUSG00000026468; -.
DR   eggNOG; KOG4577; Eukaryota.
DR   GeneTree; ENSGT00940000157906; -.
DR   HOGENOM; CLU_027802_5_0_1; -.
DR   InParanoid; P53776; -.
DR   OMA; GLDYTMD; -.
DR   OrthoDB; 1174754at2759; -.
DR   PhylomeDB; P53776; -.
DR   TreeFam; TF315442; -.
DR   BioGRID-ORCS; 16872; 2 hits in 73 CRISPR screens.
DR   PRO; PR:P53776; -.
DR   Proteomes; UP000000589; Chromosome 1.
DR   RNAct; P53776; protein.
DR   Bgee; ENSMUSG00000026468; Expressed in pineal body and 75 other tissues.
DR   ExpressionAtlas; P53776; baseline and differential.
DR   Genevisible; P53776; MM.
DR   GO; GO:0005654; C:nucleoplasm; TAS:Reactome.
DR   GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR   GO; GO:0001228; F:DNA-binding transcription activator activity, RNA polymerase II-specific; ISO:MGI.
DR   GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR   GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR   GO; GO:0008327; F:methyl-CpG binding; ISS:UniProtKB.
DR   GO; GO:0000977; F:RNA polymerase II transcription regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR   GO; GO:0043565; F:sequence-specific DNA binding; ISO:MGI.
DR   GO; GO:1990837; F:sequence-specific double-stranded DNA binding; ISO:MGI.
DR   GO; GO:0009887; P:animal organ morphogenesis; IMP:MGI.
DR   GO; GO:0006915; P:apoptotic process; IMP:MGI.
DR   GO; GO:0021526; P:medial motor column neuron differentiation; IGI:MGI.
DR   GO; GO:0008045; P:motor neuron axon guidance; IGI:MGI.
DR   GO; GO:0043066; P:negative regulation of apoptotic process; IMP:MGI.
DR   GO; GO:0030182; P:neuron differentiation; IBA:GO_Central.
DR   GO; GO:0001890; P:placenta development; IGI:MGI.
DR   GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; ISO:MGI.
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; IPR017970; Homeobox_CS.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR001781; Znf_LIM.
DR   Pfam; PF00046; Homeodomain; 1.
DR   Pfam; PF00412; LIM; 2.
DR   SMART; SM00389; HOX; 1.
DR   SMART; SM00132; LIM; 2.
DR   SUPFAM; SSF46689; SSF46689; 1.
DR   PROSITE; PS00027; HOMEOBOX_1; 1.
DR   PROSITE; PS50071; HOMEOBOX_2; 1.
DR   PROSITE; PS00478; LIM_DOMAIN_1; 2.
DR   PROSITE; PS50023; LIM_DOMAIN_2; 2.
PE   1: Evidence at protein level;
KW   3D-structure; DNA-binding; Homeobox; LIM domain; Metal-binding; Nucleus;
KW   Reference proteome; Repeat; Transcription; Transcription regulation; Zinc.
FT   CHAIN           1..390
FT                   /note="LIM/homeobox protein Lhx4"
FT                   /id="PRO_0000075788"
FT   DOMAIN          28..87
FT                   /note="LIM zinc-binding 1"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00125"
FT   DOMAIN          88..150
FT                   /note="LIM zinc-binding 2"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00125"
FT   DNA_BIND        157..216
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          161..181
FT                   /note="Interaction with DNA"
FT                   /evidence="ECO:0000250|UniProtKB:Q969G2"
FT   REGION          199..211
FT                   /note="Interaction with 5-mCpG DNA"
FT                   /evidence="ECO:0000250|UniProtKB:Q969G2"
FT   REGION          231..253
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          355..390
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        234..253
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        355..374
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        377
FT                   /note="S -> T (in Ref. 1; AAH49834)"
FT                   /evidence="ECO:0000305"
FT   TURN            31..33
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          39..45
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          48..50
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   TURN            52..54
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   TURN            58..60
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          65..71
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          74..76
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   HELIX           78..84
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   TURN            90..92
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          102..105
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          108..110
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   HELIX           112..114
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   TURN            118..120
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          129..132
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   STRAND          138..140
FT                   /evidence="ECO:0007829|PDB:6CME"
FT   HELIX           141..147
FT                   /evidence="ECO:0007829|PDB:6CME"
SQ   SEQUENCE   390 AA;  43078 MW;  FF70967D30C724C4 CRC64;
     MMQSAAVPAE GAVKGLPEML GVPMQQIPQC AGCNQHILDK FILKVLDRHW HSSCLKCADC
     QMQLADRCFS RAGSVYCKED FFKRFGTKCT ACQQGIPPTQ VVRKAQDFVY HLHCFACIIC
     NRQLATGDEF YLMEDGRLVC KEDYETAKQN DDSEAGAKRP RTTITAKQLE TLKNAYKNSP
     KPARHVREQL SSETGLDMRV VQVWFQNRRA KEKRLKKDAG RHRWGQFYKS VKRSRGGSKQ
     EKESSAEDCG VSDSELSFRE DQILSELGHT NRIYGNVGDV TGGQLMNGSF SMDGTGQSYQ
     DLRDGSPYGI PQSPSSISSL PSHAPLLNGL DYTVDSNLGI IAHAGQGVSQ TLRAMAGGPT
     SDLSTGSSVG YPDFPTSPAS WLDEMDHPPF
 
 
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