ID   YCXD_BACSU              Reviewed;         444 AA.
AC   Q08792;
DT   01-FEB-1995, integrated into UniProtKB/Swiss-Prot.
DT   01-FEB-1995, sequence version 1.
DT   03-AUG-2022, entry version 138.
DE   RecName: Full=Uncharacterized HTH-type transcriptional regulator YcxD;
DE   AltName: Full=ORF8;
GN   Name=ycxD; OrderedLocusNames=BSU03560;
OS   Bacillus subtilis (strain 168).
OC   Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus.
OX   NCBI_TaxID=224308;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=168 / JH642;
RX   PubMed=8355609; DOI=10.1111/j.1365-2958.1993.tb01629.x;
RA   Cosmina P., Rodriguez F., de Ferra F., Grandi G., Perego M., Venema G.,
RA   van Sinderen D.;
RT   "Sequence and analysis of the genetic locus responsible for surfactin
RT   synthesis in Bacillus subtilis.";
RL   Mol. Microbiol. 8:821-831(1993).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=168;
RX   PubMed=8969502; DOI=10.1099/13500872-142-11-3047;
RA   Yamane K., Kumano M., Kurita K.;
RT   "The 25 degrees-36 degrees region of the Bacillus subtilis chromosome:
RT   determination of the sequence of a 146 kb segment and identification of 113
RT   genes.";
RL   Microbiology 142:3047-3056(1996).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=168;
RX   PubMed=9384377; DOI=10.1038/36786;
RA   Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V.,
RA   Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R.,
RA   Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S.,
RA   Bruschi C.V., Caldwell B., Capuano V., Carter N.M., Choi S.-K.,
RA   Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F.,
RA   Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D.,
RA   Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M.,
RA   Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P.,
RA   Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K.,
RA   Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S.,
RA   Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y.,
RA   Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G.,
RA   Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J.,
RA   Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C.,
RA   Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S.,
RA   Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B.,
RA   Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S.,
RA   Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M.,
RA   Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y.,
RA   Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J.,
RA   Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A.,
RA   Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M.,
RA   Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S.,
RA   Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E.,
RA   Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K.,
RA   Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E.,
RA   Yoshikawa H., Danchin A.;
RT   "The complete genome sequence of the Gram-positive bacterium Bacillus
RT   subtilis.";
RL   Nature 390:249-256(1997).
RN   [4]
RP   GENE FAMILY.
RX   PubMed=12123465; DOI=10.1046/j.1365-2958.2002.03036.x;
RA   Belitsky B.R., Sonenshein A.L.;
RT   "GabR, a member of a novel protein family, regulates the utilization of
RT   gamma-aminobutyrate in Bacillus subtilis.";
RL   Mol. Microbiol. 45:569-583(2002).
CC   -!- COFACTOR:
CC       Name=pyridoxal 5'-phosphate; Xref=ChEBI:CHEBI:597326;
CC         Evidence={ECO:0000305};
CC   -!- SIMILARITY: In the C-terminal section; belongs to the class-I
CC       pyridoxal-phosphate-dependent aminotransferase family. {ECO:0000305}.
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DR   EMBL; X70356; CAA49821.1; -; Genomic_DNA.
DR   EMBL; D50453; BAA08990.1; -; Genomic_DNA.
DR   EMBL; AL009126; CAB12150.1; -; Genomic_DNA.
DR   PIR; I40492; I40492.
DR   RefSeq; NP_388238.1; NC_000964.3.
DR   RefSeq; WP_003246711.1; NZ_JNCM01000031.1.
DR   AlphaFoldDB; Q08792; -.
DR   SMR; Q08792; -.
DR   STRING; 224308.BSU03560; -.
DR   PaxDb; Q08792; -.
DR   PRIDE; Q08792; -.
DR   EnsemblBacteria; CAB12150; CAB12150; BSU_03560.
DR   GeneID; 938304; -.
DR   KEGG; bsu:BSU03560; -.
DR   PATRIC; fig|224308.179.peg.373; -.
DR   eggNOG; COG1167; Bacteria.
DR   InParanoid; Q08792; -.
DR   OMA; MPEQIMV; -.
DR   PhylomeDB; Q08792; -.
DR   BioCyc; BSUB:BSU03560-MON; -.
DR   Proteomes; UP000001570; Chromosome.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0003700; F:DNA-binding transcription factor activity; IEA:InterPro.
DR   GO; GO:0030170; F:pyridoxal phosphate binding; IEA:InterPro.
DR   GO; GO:0008483; F:transaminase activity; IBA:GO_Central.
DR   GO; GO:1901605; P:alpha-amino acid metabolic process; IBA:GO_Central.
DR   GO; GO:0009058; P:biosynthetic process; IEA:InterPro.
DR   CDD; cd07377; WHTH_GntR; 1.
DR   Gene3D; 1.10.10.10; -; 1.
DR   Gene3D; 3.40.640.10; -; 1.
DR   InterPro; IPR004839; Aminotransferase_I/II.
DR   InterPro; IPR015424; PyrdxlP-dep_Trfase.
DR   InterPro; IPR015421; PyrdxlP-dep_Trfase_major.
DR   InterPro; IPR000524; Tscrpt_reg_HTH_GntR.
DR   InterPro; IPR036388; WH-like_DNA-bd_sf.
DR   InterPro; IPR036390; WH_DNA-bd_sf.
DR   Pfam; PF00155; Aminotran_1_2; 1.
DR   Pfam; PF00392; GntR; 1.
DR   SMART; SM00345; HTH_GNTR; 1.
DR   SUPFAM; SSF46785; SSF46785; 1.
DR   SUPFAM; SSF53383; SSF53383; 1.
DR   PROSITE; PS50949; HTH_GNTR; 1.
PE   3: Inferred from homology;
KW   Aminotransferase; DNA-binding; Pyridoxal phosphate; Reference proteome;
KW   Transcription; Transcription regulation; Transferase.
FT   CHAIN           1..444
FT                   /note="Uncharacterized HTH-type transcriptional regulator
FT                   YcxD"
FT                   /id="PRO_0000050707"
FT   DOMAIN          1..69
FT                   /note="HTH gntR-type"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00307"
FT   DNA_BIND        29..48
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00307"
FT   MOD_RES         286
FT                   /note="N6-(pyridoxal phosphate)lysine"
FT                   /evidence="ECO:0000250"
SQ   SEQUENCE   444 AA;  50756 MW;  1C392C3D386696E7 CRC64;
     MEKYMSLLTR IEEMMQSTSY QEGDRLPSIR QLSARYQVSK STVIRALQEL EKRHLIYSVP
     KSGYYIVKKS GKSKSGQPGP IDFATSAPDP DVFPYLDFQH CINKAIDTYK NDLFIYGTPK
     GLPSLIRVLR KLLATQQVFA DERHIFITSG VQQALSLLCA MPFPNGKEKI AIEQPGYHLM
     VEQLETLGIP AIGVKRTEEG LDIAKVERLF QTESIKFFYT MPRFHNPLGC SLSERDKQEL
     VRLAEAYDVY LVEDDYLGDL EENKKADPLY AYDLSSHVIY LKSFSKMMFP GLRVGAAVLP
     EALTDTFYAY KKLNDIDCSM ISQAALEIYL KSGMYGRHKE KIRDSYKERS LRLHQAIRTH
     RQLGSGRFTF SSGQAPCMHT HLVLPQDLPA SRVIHRLEKQ GVLLEAIDRH YLSDYPKENL
     LKINISNVKT EDIERGVKLL MSHL