ID   PAX9_RAT                Reviewed;         342 AA.
AC   Q2L4T2;
DT   27-JUN-2006, integrated into UniProtKB/Swiss-Prot.
DT   07-MAR-2006, sequence version 1.
DT   03-AUG-2022, entry version 99.
DE   RecName: Full=Paired box protein Pax-9;
GN   Name=Pax9 {ECO:0000312|EMBL:BAE79272.1};
OS   Rattus norvegicus (Rat).
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC   Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC   Murinae; Rattus.
OX   NCBI_TaxID=10116;
RN   [1] {ECO:0000312|EMBL:BAE79272.1}
RP   NUCLEOTIDE SEQUENCE [MRNA].
RC   STRAIN=Wistar {ECO:0000312|EMBL:BAE79272.1};
RC   TISSUE=Thyroid {ECO:0000312|EMBL:BAE79272.1};
RA   Katagiri N., Suzuki M.;
RT   "Paired box protein 9 isolated from rat thyroid.";
RL   Submitted (FEB-2006) to the EMBL/GenBank/DDBJ databases.
CC   -!- FUNCTION: Transcription factor required for normal development of
CC       thymus, parathyroid glands, ultimobranchial bodies, teeth, skeletal
CC       elements of skull and larynx as well as distal limbs.
CC       {ECO:0000250|UniProtKB:P47242}.
CC   -!- SUBUNIT: Interacts with KDM5B. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
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DR   EMBL; AB248957; BAE79272.1; -; mRNA.
DR   RefSeq; NP_001034628.1; NM_001039539.1.
DR   AlphaFoldDB; Q2L4T2; -.
DR   SMR; Q2L4T2; -.
DR   STRING; 10116.ENSRNOP00000011802; -.
DR   iPTMnet; Q2L4T2; -.
DR   PhosphoSitePlus; Q2L4T2; -.
DR   PaxDb; Q2L4T2; -.
DR   Ensembl; ENSRNOT00000095003; ENSRNOP00000080106; ENSRNOG00000065348.
DR   GeneID; 362741; -.
DR   KEGG; rno:362741; -.
DR   UCSC; RGD:1560838; rat.
DR   CTD; 5083; -.
DR   RGD; 1560838; Pax9.
DR   eggNOG; KOG3517; Eukaryota.
DR   GeneTree; ENSGT00940000159896; -.
DR   InParanoid; Q2L4T2; -.
DR   OrthoDB; 1339212at2759; -.
DR   PhylomeDB; Q2L4T2; -.
DR   TreeFam; TF315397; -.
DR   PRO; PR:Q2L4T2; -.
DR   Proteomes; UP000002494; Chromosome 6.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0001228; F:DNA-binding transcription activator activity, RNA polymerase II-specific; ISO:RGD.
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:0000977; F:RNA polymerase II transcription regulatory region sequence-specific DNA binding; ISO:RGD.
DR   GO; GO:1990837; F:sequence-specific double-stranded DNA binding; ISO:RGD.
DR   GO; GO:0048856; P:anatomical structure development; IBA:GO_Central.
DR   GO; GO:0071363; P:cellular response to growth factor stimulus; ISO:RGD.
DR   GO; GO:0007492; P:endoderm development; ISO:RGD.
DR   GO; GO:0060325; P:face morphogenesis; ISO:RGD.
DR   GO; GO:0045892; P:negative regulation of transcription, DNA-templated; ISO:RGD.
DR   GO; GO:0042476; P:odontogenesis; ISO:RGD.
DR   GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; ISO:RGD.
DR   GO; GO:0042481; P:regulation of odontogenesis; ISO:RGD.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   CDD; cd00131; PAX; 1.
DR   Gene3D; 1.10.10.10; -; 2.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR043182; PAIRED_DNA-bd_dom.
DR   InterPro; IPR001523; Paired_dom.
DR   InterPro; IPR033204; PAX9.
DR   InterPro; IPR043565; PAX_fam.
DR   InterPro; IPR036388; WH-like_DNA-bd_sf.
DR   PANTHER; PTHR45636; PTHR45636; 1.
DR   PANTHER; PTHR45636:SF13; PTHR45636:SF13; 1.
DR   Pfam; PF00292; PAX; 1.
DR   PRINTS; PR00027; PAIREDBOX.
DR   SMART; SM00351; PAX; 1.
DR   SUPFAM; SSF46689; SSF46689; 1.
DR   PROSITE; PS00034; PAIRED_1; 1.
DR   PROSITE; PS51057; PAIRED_2; 1.
PE   2: Evidence at transcript level;
KW   Developmental protein; DNA-binding; Nucleus; Paired box;
KW   Reference proteome; Transcription; Transcription regulation.
FT   CHAIN           1..342
FT                   /note="Paired box protein Pax-9"
FT                   /id="PRO_0000244487"
FT   DNA_BIND        4..130
FT                   /note="Paired"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00381"
FT   REGION          7..63
FT                   /note="PAI subdomain"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00381"
FT   REGION          82..130
FT                   /note="RED subdomain"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00381"
FT   REGION          168..189
FT                   /note="Interaction with KDM5B"
FT                   /evidence="ECO:0000250"
SQ   SEQUENCE   342 AA;  36379 MW;  772255DC090D41A2 CRC64;
     MEPAFGEVNQ LGGVFVNGRP LPNAIRLRIV ELAQLGIRPC DISRQLRVSH GCVSKILARY
     NETGSILPGA IGGSKPRVTT PTVVKHIRTY KQRDPGIFAW EIRDRLLADG VCDKYNVPSV
     SSISRILRNK IGNLAQQGHY DSYKQHQPAP QPALPYNHIY SYPSPITAAA AKVPTPPGVP
     AIPGSVALPR TWPSSHSVTD ILGIRSITDQ GVSDSSPYHS PKVEEWSSLG RNNFSAAAPH
     AVNGLEKGAL EQEAKYGQAP NGLPAVSSFV SASSMAPYPT PAQVSPYMTY SAAPSGYVAG
     HGWQHAGSTP LSPHNCDIPT SLAFKGMQAA REGSHSVAAS AL