VSX2_DANRE
ID VSX2_DANRE Reviewed; 393 AA.
AC O42477; Q6NWA4; Q7SXI5;
DT 08-NOV-2002, integrated into UniProtKB/Swiss-Prot.
DT 23-OCT-2007, sequence version 3.
DT 03-AUG-2022, entry version 133.
DE RecName: Full=Visual system homeobox 2;
DE AltName: Full=Ceh-10 homeodomain-containing homolog;
DE AltName: Full=Homeobox protein ALX;
DE AltName: Full=Homeobox protein CHX10;
DE AltName: Full=Transcription factor VSX2;
GN Name=vsx2; Synonyms=alx, chx10;
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), FUNCTION, AND DEVELOPMENTAL
RP STAGE.
RX PubMed=9203137; DOI=10.1016/s0925-4773(97)00036-1;
RA Barabino S.M., Spada F., Cotelli F., Boncinelli E.;
RT "Inactivation of the zebrafish homologue of Chx10 by antisense
RT oligonucleotides causes eye malformations similar to the ocular retardation
RT phenotype.";
RL Mech. Dev. 63:133-143(1997).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RC TISSUE=Embryo;
RG NIH - Zebrafish Gene Collection (ZGC) project;
RL Submitted (MAR-2004) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RX PubMed=17919464; DOI=10.1016/j.brainres.2007.06.007;
RA Clark A.M., Yun S., Veien E.S., Wu Y.Y., Chow R.L., Dorsky R.I.,
RA Levine E.M.;
RT "Negative regulation of Vsx1 by its paralog Chx10/Vsx2 is conserved in the
RT vertebrate retina.";
RL Brain Res. 1192:99-113(2008).
CC -!- FUNCTION: Acts as a transcriptional regulator (By similarity). Mediates
CC the differentiation of V2a interneurons (By similarity). Plays a role
CC in eye development and organization of the neuroretina (PubMed:9203137,
CC PubMed:17919464). {ECO:0000250|UniProtKB:Q61412,
CC ECO:0000269|PubMed:17919464, ECO:0000269|PubMed:9203137}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250|UniProtKB:Q61412}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=O42477-1; Sequence=Displayed;
CC Name=2;
CC IsoId=O42477-2; Sequence=VSP_002304;
CC -!- DEVELOPMENTAL STAGE: Expressed 12 hours post-fertilization (hpf),
CC concomitantly with the appearance of the optic vesicles. At 18-20 hpf
CC expressed in presumptive neural retina. At 24 hpf when the lens are
CC formed, expression in the eye is restricted to the neural retina. At 48
CC hpf, after completion of the retinal differentiation, expression is
CC restricted to the germinal cells at the margin of the retina and to
CC paired parasagittal locations in the dorsal mesencephalon and
CC rhombencephalon. {ECO:0000269|PubMed:9203137}.
CC -!- DISRUPTION PHENOTYPE: Morpholino knockdown causes a decrease in eye
CC size and an increase in expression of vsx1 and ccnd1 at 24 hours post-
CC fertilization. {ECO:0000269|PubMed:17919464}.
CC -!- SIMILARITY: Belongs to the paired homeobox family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAB66714.1; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; U62898; AAB66714.1; ALT_FRAME; mRNA.
DR EMBL; BC055588; AAH55588.1; -; mRNA.
DR EMBL; BC067664; AAH67664.1; -; mRNA.
DR AlphaFoldDB; O42477; -.
DR SMR; O42477; -.
DR STRING; 7955.ENSDARP00000038309; -.
DR PRIDE; O42477; -.
DR ZFIN; ZDB-GENE-001222-1; vsx2.
DR eggNOG; KOG0494; Eukaryota.
DR InParanoid; O42477; -.
DR PhylomeDB; O42477; -.
DR PRO; PR:O42477; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Unplaced.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IEA:InterPro.
DR GO; GO:0043565; F:sequence-specific DNA binding; IDA:ZFIN.
DR GO; GO:1990837; F:sequence-specific double-stranded DNA binding; IBA:GO_Central.
DR GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; IDA:ZFIN.
DR GO; GO:0061074; P:regulation of neural retina development; IMP:ZFIN.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0050896; P:response to stimulus; IEA:UniProtKB-KW.
DR GO; GO:0007601; P:visual perception; IEA:UniProtKB-KW.
DR CDD; cd00086; homeodomain; 1.
DR InterPro; IPR023339; CVC.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017970; Homeobox_CS.
DR InterPro; IPR001356; Homeobox_dom.
DR InterPro; IPR003654; OAR_dom.
DR Pfam; PF00046; Homeodomain; 1.
DR Pfam; PF03826; OAR; 1.
DR SMART; SM00389; HOX; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR PROSITE; PS51496; CVC; 1.
DR PROSITE; PS00027; HOMEOBOX_1; 1.
DR PROSITE; PS50071; HOMEOBOX_2; 1.
DR PROSITE; PS50803; OAR; 1.
PE 2: Evidence at transcript level;
KW Activator; Alternative splicing; Developmental protein; DNA-binding;
KW Homeobox; Nucleus; Reference proteome; Repressor; Sensory transduction;
KW Transcription; Transcription regulation; Vision.
FT CHAIN 1..393
FT /note="Visual system homeobox 2"
FT /id="PRO_0000049360"
FT DOMAIN 225..299
FT /note="CVC"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00829"
FT DNA_BIND 165..224
FT /note="Homeobox"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 18..41
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 128..168
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 300..393
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 46..53
FT /note="Octapeptide motif"
FT MOTIF 150..154
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255"
FT MOTIF 342..355
FT /note="OAR"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00138"
FT COMPBIAS 128..143
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 304..319
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 320..344
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 370..393
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 251..271
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:9203137, ECO:0000303|Ref.2"
FT /id="VSP_002304"
FT CONFLICT 23
FT /note="E -> EATE (in Ref. 1; AAB66714)"
FT /evidence="ECO:0000305"
FT CONFLICT 40
FT /note="P -> Q (in Ref. 2; AAH67664)"
FT /evidence="ECO:0000305"
FT CONFLICT 84
FT /note="P -> A (in Ref. 1; AAB66714)"
FT /evidence="ECO:0000305"
FT CONFLICT 176
FT /note="Q -> E (in Ref. 1; AAB66714)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 393 AA; 43293 MW; C76744A019DEC34D CRC64;
MTGKDGAVLS ESLNKSKSLC ATENGGNNNP HLSKSSITHP PKCTGFGIQE ILGLNKEPSS
APRSTLDSFP AGAHLLASRS MLGPAGVGVG VGMGLIGPGG IPSFYSQPAF LEVLSDAQNV
HLQPLSRTVG PLEHNQSASS DSDDVSSSER KMSKSSLSQS KKRKKRRHRT IFTSYQLEEL
EKAFNEAHYP DVYAREMLAM KTELPEDRIQ VWFQNRRAKW RKREKCWGRS SVMAEYGLYG
AMVRHSIPLP VQDGFPTTSC FSKHEYPPFF AESILKSAKD GIMDSCAPWL LGMHKKSLET
AGHQSNEKSD VTQTPTNPKP DEAEAEERRT ESPMSKEELR ENSIAALRAK AQEHSAKVLG
TVSSERLEHN METTATEEKS SEQIDAKEEE KSS
