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The map label for this gene is nodD [H]

Identifier: 167622469

GI number: 167622469

Start: 638700

End: 639638

Strand: Reverse

Name: nodD [H]

Synonym: Shal_0529

Alternate gene names: 167622469

Gene position: 639638-638700 (Counterclockwise)

Preceding gene: 167622470

Following gene: 167622467

Centisome position: 12.24

GC content: 47.71

Gene sequence:

>939_bases
ATGAATCCAACTGACTTAAAAATTATTCAACAGTGCGATCTCAACTTATTGCTAAGCCTAGCGATCCTGATTGAGGAGCA
GAGTGTATCTAAGAGTGCAGACAGGCTAGACATCTCCCAGCCTGCCATGAGCCAAAACTTAAAGAAATTGCGCAATATGT
TCGATGACCCCCTGTTTGTAAAACAGGGTCAAGGCATTCGTGCCACCAGCAAGGCTCTGAGACTATATGCCTCACTCACC
GAATGGCTGCAGATGAGCGATCGACTGATCTCGCAGATCGCTTTCGATCCTATGGAAAGTCATGGGGTGATCCGCATCGC
ATTTATGGATGATCTCACCCAGACCATGATCCCCATGATGCTAGACAGGATCCTCGCTTTTGCGCCCAATGTTGAACTCG
AGTTTGTGCACAAGCCTAGAGATGTATTTTCGCTGCTAGAATCTGGCGAGATAGACATCGCTGCAGCGGGTACAGATGCC
CCTCCTGCGAATATTCATGGCCGCCATATCAGCACCGATAATTACTGCGCCGCCTACAGTCTAAAGCATCCCTTAGCCAA
AATTGCACAACCGACACTGGCGCAGATTTTCTCCTATGATACGGCTGAATATTCAGCCTCTAACTTAGTCGAGATAGAGA
TCACTCAACTTGCATTACAACACCAACTACAGCGGAAAATCACCTTTGCGACGGGCTCGTTTCTAGTCTTATTACAGGGG
CTACTCGCCGGAAAACATGTTGGCTTTCTGCCTCAGCGTGTTCTCCATTCTGCAAAATGGCGCTCACAATTAAAGGGAGT
CGTGTTCACCGATCTACCTCAGCTAGACAGCACCCTCTACTGGCACGCAAGAGTACACAAAGACCCATTGATCCAATGGT
TTAAAGACCAATGCCTAGATATTGTCAGCCAACTACAACTGCAAAGAGGTGGAGGTTAA

Upstream 100 bases:

>100_bases
TTTGCTGGGATCGTCACCAAAGAGCGCCAGAGCTGCAGCAGTGGTTTAGACGTCAGTTGGTCACGCTTTTTCATAAACAC
TTTCCCTTAGAACAAGCCCT

Downstream 100 bases:

>100_bases
ATCAACAGGCTAGACTTATAGCCCTCTTTGCCACTCCTGCCGTAATTCAATTTTACTCGGCGTATTCATCGCAGCTTCTA
CCTGCGCAACGAGAGCTTGC

Product: LysR family transcriptional regulator

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 312; Mature: 312

Protein sequence:

>312_residues
MNPTDLKIIQQCDLNLLLSLAILIEEQSVSKSADRLDISQPAMSQNLKKLRNMFDDPLFVKQGQGIRATSKALRLYASLT
EWLQMSDRLISQIAFDPMESHGVIRIAFMDDLTQTMIPMMLDRILAFAPNVELEFVHKPRDVFSLLESGEIDIAAAGTDA
PPANIHGRHISTDNYCAAYSLKHPLAKIAQPTLAQIFSYDTAEYSASNLVEIEITQLALQHQLQRKITFATGSFLVLLQG
LLAGKHVGFLPQRVLHSAKWRSQLKGVVFTDLPQLDSTLYWHARVHKDPLIQWFKDQCLDIVSQLQLQRGGG

Sequences:

>Translated_312_residues
MNPTDLKIIQQCDLNLLLSLAILIEEQSVSKSADRLDISQPAMSQNLKKLRNMFDDPLFVKQGQGIRATSKALRLYASLT
EWLQMSDRLISQIAFDPMESHGVIRIAFMDDLTQTMIPMMLDRILAFAPNVELEFVHKPRDVFSLLESGEIDIAAAGTDA
PPANIHGRHISTDNYCAAYSLKHPLAKIAQPTLAQIFSYDTAEYSASNLVEIEITQLALQHQLQRKITFATGSFLVLLQG
LLAGKHVGFLPQRVLHSAKWRSQLKGVVFTDLPQLDSTLYWHARVHKDPLIQWFKDQCLDIVSQLQLQRGGG
>Mature_312_residues
MNPTDLKIIQQCDLNLLLSLAILIEEQSVSKSADRLDISQPAMSQNLKKLRNMFDDPLFVKQGQGIRATSKALRLYASLT
EWLQMSDRLISQIAFDPMESHGVIRIAFMDDLTQTMIPMMLDRILAFAPNVELEFVHKPRDVFSLLESGEIDIAAAGTDA
PPANIHGRHISTDNYCAAYSLKHPLAKIAQPTLAQIFSYDTAEYSASNLVEIEITQLALQHQLQRKITFATGSFLVLLQG
LLAGKHVGFLPQRVLHSAKWRSQLKGVVFTDLPQLDSTLYWHARVHKDPLIQWFKDQCLDIVSQLQLQRGGG

Specific function: NodD regulates the expression of the nodABCFE genes which encode other nodulation proteins. NodD is also a negative regulator of its own expression. Binds flavonoids as inducers [H]

COG id: COG0583

COG function: function code K; Transcriptional regulator

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 HTH lysR-type DNA-binding domain [H]

Homologues:

Organism=Escherichia coli, GI87081684, Length=326, Percent_Identity=25.7668711656442, Blast_Score=80, Evalue=1e-16,
Organism=Escherichia coli, GI1790147, Length=310, Percent_Identity=23.5483870967742, Blast_Score=72, Evalue=6e-14,
Organism=Escherichia coli, GI1786820, Length=265, Percent_Identity=23.3962264150943, Blast_Score=67, Evalue=2e-12,

Paralogues:

None

Copy number: 825 Molecules/Cell In: Growth Phase, Glucose-minimal MOPS Media. [C]

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR000847
- InterPro:   IPR005119
- InterPro:   IPR011991 [H]

Pfam domain/function: PF00126 HTH_1; PF03466 LysR_substrate [H]

EC number: NA

Molecular weight: Translated: 35045; Mature: 35045

Theoretical pI: Translated: 6.86; Mature: 6.86

Prosite motif: PS50931 HTH_LYSR

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.0 %Cys     (Translated Protein)
2.9 %Met     (Translated Protein)
3.8 %Cys+Met (Translated Protein)
1.0 %Cys     (Mature Protein)
2.9 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MNPTDLKIIQQCDLNLLLSLAILIEEQSVSKSADRLDISQPAMSQNLKKLRNMFDDPLFV
CCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCEEE
KQGQGIRATSKALRLYASLTEWLQMSDRLISQIAFDPMESHGVIRIAFMDDLTQTMIPMM
ECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHHHHHHHH
LDRILAFAPNVELEFVHKPRDVFSLLESGEIDIAAAGTDAPPANIHGRHISTDNYCAAYS
HHHHHHHCCCCEEEEECCCHHHHHHHHCCCEEEEECCCCCCCCCCCCCEECCCCCEEEHH
LKHPLAKIAQPTLAQIFSYDTAEYSASNLVEIEITQLALQHQLQRKITFATGSFLVLLQG
HHHHHHHHCCHHHHHHHHCCCHHHCCCCEEEEHHHHHHHHHHHHHHHHHCCCHHHHHHHH
LLAGKHVGFLPQRVLHSAKWRSQLKGVVFTDLPQLDSTLYWHARVHKDPLIQWFKDQCLD
HHHCCCCCHHHHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEHHCCCHHHHHHHHHHHH
IVSQLQLQRGGG
HHHHHHHHCCCC
>Mature Secondary Structure
MNPTDLKIIQQCDLNLLLSLAILIEEQSVSKSADRLDISQPAMSQNLKKLRNMFDDPLFV
CCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCEEE
KQGQGIRATSKALRLYASLTEWLQMSDRLISQIAFDPMESHGVIRIAFMDDLTQTMIPMM
ECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHHHHHHHH
LDRILAFAPNVELEFVHKPRDVFSLLESGEIDIAAAGTDAPPANIHGRHISTDNYCAAYS
HHHHHHHCCCCEEEEECCCHHHHHHHHCCCEEEEECCCCCCCCCCCCCEECCCCCEEEHH
LKHPLAKIAQPTLAQIFSYDTAEYSASNLVEIEITQLALQHQLQRKITFATGSFLVLLQG
HHHHHHHHCCHHHHHHHHCCCHHHCCCCEEEEHHHHHHHHHHHHHHHHHCCCHHHHHHHH
LLAGKHVGFLPQRVLHSAKWRSQLKGVVFTDLPQLDSTLYWHARVHKDPLIQWFKDQCLD
HHHCCCCCHHHHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEHHCCCHHHHHHHHHHHH
IVSQLQLQRGGG
HHHHHHHHCCCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 10.0

TargetDB status: NA

Availability: NA

References: 3960737 [H]