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Homeobox protein vnd (Homeobox protein NK-2) (Protein ventral nervous system defective)

 VND_DROME               Reviewed;         723 AA.
P22808; Q24589; Q26436; Q9UB43; Q9W5F0;
01-AUG-1991, integrated into UniProtKB/Swiss-Prot.
10-MAY-2004, sequence version 3.
18-JUL-2018, entry version 174.
RecName: Full=Homeobox protein vnd;
AltName: Full=Homeobox protein NK-2;
AltName: Full=Protein ventral nervous system defective;
Name=vnd; Synonyms=NK2; ORFNames=CG6172;
Drosophila melanogaster (Fruit fly).
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta;
Pterygota; Neoptera; Holometabola; Diptera; Brachycera; Muscomorpha;
Ephydroidea; Drosophilidae; Drosophila; Sophophora.
NCBI_TaxID=7227;
[1]
NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, AND
MUTAGENESIS OF ALA-579.
PubMed=7628450;
Jimenez F., Martin-Morris L.E., Velasco L., Chu H., Sierra J.,
Rosen D.R., White K.;
"vnd, a gene required for early neurogenesis of Drosophila, encodes a
homeodomain protein.";
EMBO J. 14:3487-3495(1995).
[2]
NUCLEOTIDE SEQUENCE [MRNA].
PubMed=7625694; DOI=10.1111/j.1749-6632.1995.tb24830.x;
Nirenberg M., Nakayama K., Nakayama N., Kim Y., Mellerick D.,
Wang L.H., Webber K.O., Lad R.;
"The NK-2 homeobox gene and the early development of the central
nervous system of Drosophila.";
Ann. N. Y. Acad. Sci. 758:224-242(1995).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=Berkeley;
PubMed=10731132; DOI=10.1126/science.287.5461.2185;
Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D.,
Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F.,
George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N.,
Sutton G.G., Wortman J.R., Yandell M.D., Zhang Q., Chen L.X.,
Brandon R.C., Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D.,
Wan K.H., Doyle C., Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G.,
Abril J.F., Agbayani A., An H.-J., Andrews-Pfannkoch C., Baldwin D.,
Ballew R.M., Basu A., Baxendale J., Bayraktaroglu L., Beasley E.M.,
Beeson K.Y., Benos P.V., Berman B.P., Bhandari D., Bolshakov S.,
Borkova D., Botchan M.R., Bouck J., Brokstein P., Brottier P.,
Burtis K.C., Busam D.A., Butler H., Cadieu E., Center A., Chandra I.,
Cherry J.M., Cawley S., Dahlke C., Davenport L.B., Davies P.,
de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I., Dietz S.M.,
Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C., Dunn P.,
Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S., Fleischmann W.,
Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M., Glasser K.,
Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M.,
Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J.,
Hostin D., Houston K.A., Howland T.J., Wei M.-H., Ibegwam C.,
Jalali M., Kalush F., Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A.,
Kimmel B.E., Kodira C.D., Kraft C.L., Kravitz S., Kulp D., Lai Z.,
Lasko P., Lei Y., Levitsky A.A., Li J.H., Li Z., Liang Y., Lin X.,
Liu X., Mattei B., McIntosh T.C., McLeod M.P., McPherson D.,
Merkulov G., Milshina N.V., Mobarry C., Morris J., Moshrefi A.,
Mount S.M., Moy M., Murphy B., Murphy L., Muzny D.M., Nelson D.L.,
Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R., Pacleb J.M.,
Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V., Reese M.G.,
Reinert K., Remington K., Saunders R.D.C., Scheeler F., Shen H.,
Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J.,
Spier E., Spradling A.C., Stapleton M., Strong R., Sun E.,
Svirskas R., Tector C., Turner R., Venter E., Wang A.H., Wang X.,
Wang Z.-Y., Wassarman D.A., Weinstock G.M., Weissenbach J.,
Williams S.M., Woodage T., Worley K.C., Wu D., Yang S., Yao Q.A.,
Ye J., Yeh R.-F., Zaveri J.S., Zhan M., Zhang G., Zhao Q., Zheng L.,
Zheng X.H., Zhong F.N., Zhong W., Zhou X., Zhu S.C., Zhu X.,
Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M., Venter J.C.;
"The genome sequence of Drosophila melanogaster.";
Science 287:2185-2195(2000).
[4]
GENOME REANNOTATION.
STRAIN=Berkeley;
PubMed=12537572; DOI=10.1186/gb-2002-3-12-research0083;
Misra S., Crosby M.A., Mungall C.J., Matthews B.B., Campbell K.S.,
Hradecky P., Huang Y., Kaminker J.S., Millburn G.H., Prochnik S.E.,
Smith C.D., Tupy J.L., Whitfield E.J., Bayraktaroglu L., Berman B.P.,
Bettencourt B.R., Celniker S.E., de Grey A.D.N.J., Drysdale R.A.,
Harris N.L., Richter J., Russo S., Schroeder A.J., Shu S.Q.,
Stapleton M., Yamada C., Ashburner M., Gelbart W.M., Rubin G.M.,
Lewis S.E.;
"Annotation of the Drosophila melanogaster euchromatic genome: a
systematic review.";
Genome Biol. 3:RESEARCH0083.1-RESEARCH0083.22(2002).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=Oregon-R;
PubMed=10731137; DOI=10.1126/science.287.5461.2220;
Benos P.V., Gatt M.K., Ashburner M., Murphy L., Harris D.,
Barrell B.G., Ferraz C., Vidal S., Brun C., Demailles J., Cadieu E.,
Dreano S., Gloux S., Lelaure V., Mottier S., Galibert F., Borkova D.,
Minana B., Kafatos F.C., Louis C., Siden-Kiamos I., Bolshakov S.,
Papagiannakis G., Spanos L., Cox S., Madueno E., de Pablos B.,
Modolell J., Peter A., Schoettler P., Werner M., Mourkioti F.,
Beinert N., Dowe G., Schaefer U., Jaeckle H., Bucheton A.,
Callister D.M., Campbell L.A., Darlamitsou A., Henderson N.S.,
McMillan P.J., Salles C., Tait E.A., Valenti P., Saunders R.D.C.,
Glover D.M.;
"From sequence to chromosome: the tip of the X chromosome of D.
melanogaster.";
Science 287:2220-2222(2000).
[6]
NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 477-634.
STRAIN=Canton-S;
PubMed=2573058; DOI=10.1073/pnas.86.20.7716;
Kim Y., Nirenberg M.;
"Drosophila NK-homeobox genes.";
Proc. Natl. Acad. Sci. U.S.A. 86:7716-7720(1989).
[7]
STRUCTURE BY NMR OF 538-613.
PubMed=7643404; DOI=10.1006/jmbi.1995.0435;
Tsao D.H.H., Gruschus J.M., Wang L.-H., Nirenberg M., Ferretti J.A.;
"The three-dimensional solution structure of the NK-2 homeodomain from
Drosophila.";
J. Mol. Biol. 251:297-307(1995).
[8]
STRUCTURE BY NMR OF 544-606.
PubMed=9154919; DOI=10.1021/bi9620060;
Gruschus J.M., Tsao D.H.H., Wang L.-H., Nirenberg M., Ferretti J.A.;
"Interactions of the vnd/NK-2 homeodomain with DNA by nuclear magnetic
resonance spectroscopy: basis of binding specificity.";
Biochemistry 36:5372-5380(1997).
[9]
STRUCTURE BY NMR OF 533-612.
Bosong X.;
Submitted (JUL-1999) to the PDB data bank.
-!- FUNCTION: Probable transcriptional regulator involved in the
regulation of the proneural AS-C genes and the neurogenic genes of
the enhancer of split complex. Could specifically activate
proneural genes in the ventral-most neuroectoderm.
{ECO:0000269|PubMed:7628450}.
-!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
-!- TISSUE SPECIFICITY: Expressed in the CNS and midgut.
{ECO:0000269|PubMed:7628450}.
-!- SIMILARITY: Belongs to the NK-2 homeobox family. {ECO:0000305}.
-----------------------------------------------------------------------
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EMBL; X87141; CAA60619.1; -; mRNA.
EMBL; S78691; AAB34960.1; -; mRNA.
EMBL; AE014298; AAF45521.1; -; Genomic_DNA.
EMBL; AL031883; CAA21410.1; -; Genomic_DNA.
EMBL; M27290; AAA28617.1; -; Genomic_DNA.
PIR; S57246; S57246.
RefSeq; NP_476786.2; NM_057438.4.
PDB; 1NK2; NMR; -; P=538-613.
PDB; 1NK3; NMR; -; P=538-613.
PDB; 1QRY; NMR; -; A=538-613.
PDB; 1VND; NMR; -; A=538-613.
PDBsum; 1NK2; -.
PDBsum; 1NK3; -.
PDBsum; 1QRY; -.
PDBsum; 1VND; -.
ProteinModelPortal; P22808; -.
SMR; P22808; -.
BioGrid; 57572; 15.
DIP; DIP-60882N; -.
IntAct; P22808; 15.
STRING; 7227.FBpp0070105; -.
PaxDb; P22808; -.
PRIDE; P22808; -.
EnsemblMetazoa; FBtr0070110; FBpp0070105; FBgn0261930.
GeneID; 31003; -.
KEGG; dme:Dmel_CG6172; -.
CTD; 31003; -.
FlyBase; FBgn0261930; vnd.
eggNOG; KOG0842; Eukaryota.
eggNOG; ENOG410XR21; LUCA.
GeneTree; ENSGT00910000144003; -.
InParanoid; P22808; -.
KO; K08029; -.
OrthoDB; EOG091G0LZ2; -.
PhylomeDB; P22808; -.
Reactome; R-DME-210746; Regulation of gene expression in endocrine-committed (NEUROG3+) progenitor cells.
EvolutionaryTrace; P22808; -.
GenomeRNAi; 31003; -.
PRO; PR:P22808; -.
Proteomes; UP000000803; Chromosome X.
Bgee; FBgn0261930; -.
ExpressionAtlas; P22808; baseline and differential.
Genevisible; P22808; DM.
GO; GO:0005634; C:nucleus; IDA:FlyBase.
GO; GO:0000981; F:RNA polymerase II transcription factor activity, sequence-specific DNA binding; IDA:FlyBase.
GO; GO:0043565; F:sequence-specific DNA binding; IEA:InterPro.
GO; GO:0008134; F:transcription factor binding; IPI:FlyBase.
GO; GO:0007420; P:brain development; IMP:FlyBase.
GO; GO:0007417; P:central nervous system development; NAS:FlyBase.
GO; GO:0009953; P:dorsal/ventral pattern formation; TAS:FlyBase.
GO; GO:0007398; P:ectoderm development; TAS:FlyBase.
GO; GO:0021782; P:glial cell development; IMP:FlyBase.
GO; GO:0010629; P:negative regulation of gene expression; IMP:FlyBase.
GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; IMP:FlyBase.
GO; GO:0014019; P:neuroblast development; IMP:FlyBase.
GO; GO:0007400; P:neuroblast fate determination; IMP:FlyBase.
GO; GO:0007389; P:pattern specification process; NAS:FlyBase.
GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; IDA:FlyBase.
GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IMP:FlyBase.
GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
GO; GO:0007419; P:ventral cord development; TAS:FlyBase.
CDD; cd00086; homeodomain; 1.
InterPro; IPR009057; Homeobox-like_sf.
InterPro; IPR017970; Homeobox_CS.
InterPro; IPR001356; Homeobox_dom.
Pfam; PF00046; Homeobox; 1.
SMART; SM00389; HOX; 1.
SUPFAM; SSF46689; SSF46689; 1.
PROSITE; PS00027; HOMEOBOX_1; 1.
PROSITE; PS50071; HOMEOBOX_2; 1.
1: Evidence at protein level;
3D-structure; Complete proteome; Developmental protein;
Differentiation; DNA-binding; Homeobox; Neurogenesis; Nucleus;
Reference proteome; Transcription; Transcription regulation.
CHAIN 1 723 Homeobox protein vnd.
/FTId=PRO_0000049071.
DNA_BIND 545 604 Homeobox. {ECO:0000255|PROSITE-
ProRule:PRU00108}.
COMPBIAS 225 350 His-rich.
COMPBIAS 319 360 Ala-rich.
COMPBIAS 483 493 Asn-rich.
COMPBIAS 664 720 Ala-rich.
COMPBIAS 675 715 His-rich.
MUTAGEN 579 579 A->T: In vnd-29; disrupts neuroblast
development.
{ECO:0000269|PubMed:7628450}.
CONFLICT 52 52 R -> A (in Ref. 2; AAB34960).
{ECO:0000305}.
CONFLICT 55 55 R -> P (in Ref. 2; AAB34960).
{ECO:0000305}.
CONFLICT 88 88 D -> E (in Ref. 1; CAA60619).
{ECO:0000305}.
CONFLICT 149 149 A -> R (in Ref. 1; CAA60619).
{ECO:0000305}.
CONFLICT 153 153 Missing (in Ref. 1; CAA60619).
{ECO:0000305}.
CONFLICT 254 254 L -> V (in Ref. 2; AAB34960).
{ECO:0000305}.
CONFLICT 362 362 Q -> K (in Ref. 1; CAA60619).
{ECO:0000305}.
CONFLICT 399 399 I -> M (in Ref. 1; CAA60619).
{ECO:0000305}.
CONFLICT 405 405 Y -> H (in Ref. 5; CAA21410).
{ECO:0000305}.
CONFLICT 610 610 E -> D (in Ref. 5; CAA21410).
{ECO:0000305}.
CONFLICT 633 634 RR -> VG (in Ref. 6). {ECO:0000305}.
STRAND 542 545 {ECO:0000244|PDB:1VND}.
HELIX 554 566 {ECO:0000244|PDB:1NK2}.
HELIX 572 581 {ECO:0000244|PDB:1NK2}.
HELIX 586 606 {ECO:0000244|PDB:1NK2}.
STRAND 608 611 {ECO:0000244|PDB:1QRY}.
SEQUENCE 723 AA; 76422 MW; 811F20B03A93C95E CRC64;
MTTSASLERT PSKRDRDRER DNSSGLGSAG SLPASPQSAI TVSPSSPATP KRPLRTSTPS
LERKREREDR EDREDRKERQ ERHERDRDHE RFAAVFSTAS TTVPTNTSSS SGLAPEQLRI
PTGAAAFSGF PGLHSMSSLM LPSSAAVAAA AAAPFLPWSP ILLPPWNHAL LPAAFYPAAL
RNALPGLFDA KVPSSQRSGF HISDILNLEG SELKNAAAAA AAAAHHGSDL SHHSASESTS
GHRGQGSHTS PSALSPTPAG VSADEHHNGS GTGGGAGEAD HHSTTEHHAP PSHPQQQHPH
HQQHHHPHLL LPQQHHQQAV APLPLAHHQS GEAQSHAHAN AAAAHLLASH NAAAAAAVAA
GQYLPNLPKN FPGSFGDEMS SYHHMAQTML QHSGRSAWIK ENELYGTQQP ASPDSTSPVT
SEVSYTYIGS NCQTSPALSG DYKSYSRSAD SDALSVGDAL HTLHGSSGNG SAGGAPTAHA
LHNNNNNTTN NNNHSLKAEG INGAGSGHDD SLNEDGIEED IDDVDDADGS GGGDANGSDG
LPNKKRKRRV LFTKAQTYEL ERRFRQQRYL SAPEREHLAS LIRLTPTQVK IWFQNHRYKT
KRAQNEKGYE GHPGLLHGHA THPHHPSALP SPRRVAVPVL VRNGKPCLGD SSKLGADCVS
VSSATATAMQ NAAAHHLVAL NGAAAYQHAA AAAAGLHAHA HAHAHAHGHG HPHAHAQRAA
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