ID   NICR_PSEPK              Reviewed;         158 AA.
AC   Q88FY0;
DT   05-SEP-2012, integrated into UniProtKB/Swiss-Prot.
DT   01-JUN-2003, sequence version 1.
DT   03-AUG-2022, entry version 109.
DE   RecName: Full=HTH-type transcriptional repressor NicR;
DE   AltName: Full=Nicotinate degradation protein R;
GN   Name=nicR; OrderedLocusNames=PP_3946;
OS   Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950
OS   / KT2440).
OC   Bacteria; Proteobacteria; Gammaproteobacteria; Pseudomonadales;
OC   Pseudomonadaceae; Pseudomonas.
OX   NCBI_TaxID=160488;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440;
RX   PubMed=12534463; DOI=10.1046/j.1462-2920.2002.00366.x;
RA   Nelson K.E., Weinel C., Paulsen I.T., Dodson R.J., Hilbert H.,
RA   Martins dos Santos V.A.P., Fouts D.E., Gill S.R., Pop M., Holmes M.,
RA   Brinkac L.M., Beanan M.J., DeBoy R.T., Daugherty S.C., Kolonay J.F.,
RA   Madupu R., Nelson W.C., White O., Peterson J.D., Khouri H.M., Hance I.,
RA   Chris Lee P., Holtzapple E.K., Scanlan D., Tran K., Moazzez A.,
RA   Utterback T.R., Rizzo M., Lee K., Kosack D., Moestl D., Wedler H.,
RA   Lauber J., Stjepandic D., Hoheisel J., Straetz M., Heim S., Kiewitz C.,
RA   Eisen J.A., Timmis K.N., Duesterhoeft A., Tuemmler B., Fraser C.M.;
RT   "Complete genome sequence and comparative analysis of the metabolically
RT   versatile Pseudomonas putida KT2440.";
RL   Environ. Microbiol. 4:799-808(2002).
RN   [2]
RP   FUNCTION, AND PATHWAY.
RC   STRAIN=ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440;
RX   PubMed=18678916; DOI=10.1073/pnas.0802273105;
RA   Jimenez J.I., Canales A., Jimenez-Barbero J., Ginalski K., Rychlewski L.,
RA   Garcia J.L., Diaz E.;
RT   "Deciphering the genetic determinants for aerobic nicotinic acid
RT   degradation: the nic cluster from Pseudomonas putida KT2440.";
RL   Proc. Natl. Acad. Sci. U.S.A. 105:11329-11334(2008).
RN   [3]
RP   FUNCTION, PATHWAY, DISRUPTION PHENOTYPE, AND INDUCTION.
RC   STRAIN=ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440;
RX   PubMed=21450002; DOI=10.1111/j.1462-2920.2011.02471.x;
RA   Jimenez J.I., Juarez J.F., Garcia J.L., Diaz E.;
RT   "A finely tuned regulatory circuit of the nicotinic acid degradation
RT   pathway in Pseudomonas putida.";
RL   Environ. Microbiol. 13:1718-1732(2011).
CC   -!- FUNCTION: Transcriptional repressor for the nicCDEFTP and nicXR
CC       operons, encoding the lower aerobic nicotinate degradation pathway.
CC       Acts under non-induced conditions: repression of the nicCDEFTP and
CC       nicXR operons becomes alleviated in presence of 6-hydroxynicotinate
CC       (6HNA). {ECO:0000269|PubMed:18678916, ECO:0000269|PubMed:21450002}.
CC   -!- PATHWAY: Cofactor degradation; nicotinate degradation [regulation].
CC       {ECO:0000269|PubMed:18678916, ECO:0000269|PubMed:21450002}.
CC   -!- INDUCTION: Expressed both in the presence and in the absence of the 6-
CC       hydroxynicotinate (6HNA) inducer. {ECO:0000269|PubMed:21450002}.
CC   -!- DISRUPTION PHENOTYPE: Delayed growth when using nicotinate as sole
CC       carbon and energy source, growth is faster in the presence of 6HNA when
CC       compared with that of the wild-type strain.
CC       {ECO:0000269|PubMed:21450002}.
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DR   EMBL; AE015451; AAN69540.1; -; Genomic_DNA.
DR   RefSeq; NP_746076.1; NC_002947.4.
DR   RefSeq; WP_003251120.1; NC_002947.4.
DR   AlphaFoldDB; Q88FY0; -.
DR   SMR; Q88FY0; -.
DR   STRING; 160488.PP_3946; -.
DR   EnsemblBacteria; AAN69540; AAN69540; PP_3946.
DR   KEGG; ppu:PP_3946; -.
DR   PATRIC; fig|160488.4.peg.4201; -.
DR   eggNOG; COG1846; Bacteria.
DR   HOGENOM; CLU_083287_4_0_6; -.
DR   OMA; FTEQVGH; -.
DR   PhylomeDB; Q88FY0; -.
DR   BioCyc; PPUT160488:G1G01-4211-MON; -.
DR   UniPathway; UPA01010; -.
DR   Proteomes; UP000000556; 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:0019439; P:aromatic compound catabolic process; IEA:UniProtKB-KW.
DR   Gene3D; 1.10.10.10; -; 1.
DR   InterPro; IPR000835; HTH_MarR-typ.
DR   InterPro; IPR036388; WH-like_DNA-bd_sf.
DR   InterPro; IPR036390; WH_DNA-bd_sf.
DR   Pfam; PF12802; MarR_2; 1.
DR   PRINTS; PR00598; HTHMARR.
DR   SMART; SM00347; HTH_MARR; 1.
DR   SUPFAM; SSF46785; SSF46785; 1.
DR   PROSITE; PS50995; HTH_MARR_2; 1.
PE   2: Evidence at transcript level;
KW   Aromatic hydrocarbons catabolism; DNA-binding; Reference proteome;
KW   Repressor; Transcription; Transcription regulation.
FT   CHAIN           1..158
FT                   /note="HTH-type transcriptional repressor NicR"
FT                   /id="PRO_0000418485"
FT   DOMAIN          20..152
FT                   /note="HTH marR-type"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00345"
FT   DNA_BIND        66..89
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00345"
SQ   SEQUENCE   158 AA;  17286 MW;  D082776B021F94EF CRC64;
     MSKKTTPSSA PLDNTPYDVT EQVGHLLRKA YQRHTAIFQQ QACDPQLTSI QFVTLCALRD
     HGPSSQAELI KATAVDQATI RGIVERLKAR ELVQLSPDPG DRRKVIVELT ESGAALLDAM
     IPCARQISEL SMGSLNAGER VAILYLLRKM IDSDENAG