ID   NODD1_BRADU             Reviewed;         314 AA.
AC   Q45264; Q93GU3;
DT   28-FEB-2003, integrated into UniProtKB/Swiss-Prot.
DT   01-NOV-1996, sequence version 1.
DT   25-MAY-2022, entry version 120.
DE   RecName: Full=Nodulation protein D 1;
GN   Name=nodD1; OrderedLocusNames=bll2023;
OS   Bradyrhizobium diazoefficiens (strain JCM 10833 / BCRC 13528 / IAM 13628 /
OS   NBRC 14792 / USDA 110).
OC   Bacteria; Proteobacteria; Alphaproteobacteria; Hyphomicrobiales;
OC   Bradyrhizobiaceae; Bradyrhizobium.
OX   NCBI_TaxID=224911;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=JCM 10833 / BCRC 13528 / IAM 13628 / NBRC 14792 / USDA 110;
RX   PubMed=1421512; DOI=10.1094/mpmi-5-257;
RA   Goettfert M., Holzhauser D., Bani D., Hennecke H.;
RT   "Structural and functional analysis of two different nodD genes in
RT   Bradyrhizobium japonicum USDA110.";
RL   Mol. Plant Microbe Interact. 5:257-265(1992).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=USDA 110spc4;
RX   PubMed=11157954; DOI=10.1128/jb.183.4.1405-1412.2001;
RA   Goettfert M., Roethlisberger S., Kuendig C., Beck C., Marty R.,
RA   Hennecke H.;
RT   "Potential symbiosis-specific genes uncovered by sequencing a 410-kb DNA
RT   region of the Bradyrhizobium japonicum chromosome.";
RL   J. Bacteriol. 183:1405-1412(2001).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=JCM 10833 / BCRC 13528 / IAM 13628 / NBRC 14792 / USDA 110;
RX   PubMed=12597275; DOI=10.1093/dnares/9.6.189;
RA   Kaneko T., Nakamura Y., Sato S., Minamisawa K., Uchiumi T., Sasamoto S.,
RA   Watanabe A., Idesawa K., Iriguchi M., Kawashima K., Kohara M.,
RA   Matsumoto M., Shimpo S., Tsuruoka H., Wada T., Yamada M., Tabata S.;
RT   "Complete genomic sequence of nitrogen-fixing symbiotic bacterium
RT   Bradyrhizobium japonicum USDA110.";
RL   DNA Res. 9:189-197(2002).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 13-301.
RC   STRAIN=JCM 10833 / BCRC 13528 / IAM 13628 / NBRC 14792 / USDA 110;
RA   Yokoyama T., Ando S.;
RT   "Abilities of flavonoids to affect nod gene expression in Thai soybean
RT   Bradyrhizobium with reference to USDA strains of B. japonicum and B.
RT   elkanii.";
RL   Submitted (OCT-2001) to the EMBL/GenBank/DDBJ databases.
CC   -!- FUNCTION: NodD regulates the expression of the nodABCFE genes which
CC       encode other nodulation proteins. NodD is also a negative regulator of
CC       its own expression. Binds flavonoids as inducers (By similarity).
CC       {ECO:0000250}.
CC   -!- SIMILARITY: Belongs to the LysR transcriptional regulatory family.
CC       {ECO:0000305}.
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DR   EMBL; M81825; AAA26234.1; -; Genomic_DNA.
DR   EMBL; AF322013; AAG60994.1; -; Genomic_DNA.
DR   EMBL; BA000040; BAC47288.1; -; Genomic_DNA.
DR   EMBL; AB073136; BAB70604.1; -; Genomic_DNA.
DR   RefSeq; NP_768663.1; NC_004463.1.
DR   RefSeq; WP_011084820.1; NZ_CP011360.1.
DR   AlphaFoldDB; Q45264; -.
DR   SMR; Q45264; -.
DR   STRING; 224911.27350277; -.
DR   PRIDE; Q45264; -.
DR   EnsemblBacteria; BAC47288; BAC47288; BAC47288.
DR   GeneID; 64021797; -.
DR   KEGG; bja:bll2023; -.
DR   PATRIC; fig|224911.44.peg.1525; -.
DR   eggNOG; COG0583; Bacteria.
DR   HOGENOM; CLU_039613_39_0_5; -.
DR   InParanoid; Q45264; -.
DR   OMA; DVDFLIF; -.
DR   PhylomeDB; Q45264; -.
DR   Proteomes; UP000002526; 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:0006355; P:regulation of transcription, DNA-templated; IBA:GO_Central.
DR   CDD; cd08462; PBP2_NodD; 1.
DR   Gene3D; 1.10.10.10; -; 1.
DR   InterPro; IPR005119; LysR_subst-bd.
DR   InterPro; IPR037416; NodD_PBP2.
DR   InterPro; IPR000847; Tscrpt_reg_HTH_LysR.
DR   InterPro; IPR036388; WH-like_DNA-bd_sf.
DR   InterPro; IPR036390; WH_DNA-bd_sf.
DR   Pfam; PF00126; HTH_1; 1.
DR   Pfam; PF03466; LysR_substrate; 1.
DR   PRINTS; PR00039; HTHLYSR.
DR   SUPFAM; SSF46785; SSF46785; 1.
DR   PROSITE; PS50931; HTH_LYSR; 1.
PE   3: Inferred from homology;
KW   Activator; DNA-binding; Nodulation; Reference proteome; Repressor;
KW   Transcription; Transcription regulation.
FT   CHAIN           1..314
FT                   /note="Nodulation protein D 1"
FT                   /id="PRO_0000105703"
FT   DOMAIN          6..63
FT                   /note="HTH lysR-type"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00253"
FT   DNA_BIND        23..42
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00253"
SQ   SEQUENCE   314 AA;  35855 MW;  BB49AD4AFB9D60CD CRC64;
     MRFKGLDLNL LVALDAVMTA RNLTAAARKI NLSQPAMSAA IARLRTYFRD ELFTMRGREL
     VPTPGAEALA GPVREALLHI QLSIISRDAL DPAQSSRRFR VILSDFMTIV FFRRIVDRMA
     QEAPAVRFEL LPFSDEPDDL LRRGEVDFLI LPELFMSSAH PKATLFDESL VCVGCRANKQ
     LSRQLTFEQY ISMGHVTAKF GRALRPNLEE WFLLEHGLRR RIEVVVQGFS LIPPLLLDTS
     RIGTMPLRLA RHFEKRMPLR IIQPPLPLPT FTEALQWPSF HNTDPASIWM RRILLEEASN
     MASGDQEPPT RRRC