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The map label for this gene is rpoN [H]

Identifier: 13474890

GI number: 13474890

Start: 4742055

End: 4743509

Strand: Reverse

Name: rpoN [H]

Synonym: mll5872

Alternate gene names: 13474890

Gene position: 4743509-4742055 (Counterclockwise)

Preceding gene: 13474891

Following gene: 13474884

Centisome position: 67.42

GC content: 57.87

Gene sequence:

>1455_bases
ATGGAGTCCTCAGCAAGCCTGCTTCAGCGTCAGAAGCAATCGTTGGTTTTGACGCCGCAAATGATGGAATCCATTCGCCT
GTTGCAACTGGCGCATCCCGAACTGCATCAGTTCGTCGAGCAGGAAATCGAGAAGAACCCCTTTCTGGAACGGGCCTCAA
ACCGGGCGCCGAAGGACATTCCGTCGATTTCGGCCGGGAACCCGCGCATCGGGCCGACCACGGGCGGAATATCGGATCGG
GCCTCGCAGTGGAAATCAATCCGCGGCAAAAACAATGTCCAACCGGGGGGAAACCATGCGTTCGAAGATTCCTGGACGTC
CATCGAAACATTGCACGACCATGTCGCTCGTCAGATCGCTCTCAGCGCATTCGCGCCGCTGGAGCGGCGAATAGCTGGCG
AGCTTGCCGGTCATCTGGAAGACACCGGATACCTTCCGGTGAACCTTTCGGAACTGGCCCGCAGCCTGAATGTCCGGGAG
GCTGTTGTGGAACGGGTTCTCGGAACCTTGCAGCAGTTCGATCCACCGGGTATTTTTGCGCGAACTCTCAGCGAATGCCT
TGAGATACAATTGCGGCAGCTAGACAGGTTCGACCCGGCAATGGCAGCGCTGGTCGCCAATCTTGAAGCGCTGGCGCGAC
GCGATTTTCAAACATTGAAGCGCCATTGCGGTGTCGATGAAGACGACCTTCTCGACATGTTGCACGAAATCCGCGCGCTC
GATCCCAAGCCCGGAAACCGATTCCAATCCGGAGGGCCTGAATCGATCATTCCCGACGTCTTGGTCCAGCCCTCTCCCGG
AGGTGGGTGGCAAATCGAACTCAATCCAGACACGCTGCCTAGGCTGCTGATGAACCAAAACTATTTTGCCCAGGTCTCCC
GCCTAAGCGCTCAAAATTCGAAAGATCAGTCATTTCTCAACGAATGCCTCCAAAACGCGAACTGGCTAATCCGCAGCCTT
GATCAGCGCGCCAAGACGATCCTCAAGGTAGCGGCTGAAATCATCCGCCAGCAGGACGCCTTTTTTGAACATGGGGTCGC
CCACCTGCGGCCTCTCAATCTCAGGACTGTCGCGGATGCGATCAACGTGCACCAGTCGACGGTAAGCCGGGTAACGTCGA
ACAAGTACATGCTGACCCCGCGCGGCGTGTTCGAACTGAAGTATTTTTTCACTGTCGCGATCGGCTCCTCCGAAGGCGGC
GACGCGTACTCCGCCGAAGCTGTCCGCCATCAAATCAAGGCGATGGTTGCCGTGGAATCGCCCAACGAAGTGCTTTCAGA
CGACGACATTGCCACCCGGCTCAAGGAAACCGGGATCGACATTGCTCGCCGCACCGTTGCGAAATATCGTGAGGCGCTGA
ACATCCCGTCCTCCGCGCGACGTCGCCGGGAAAAGCGCGTGCGTCTTCGATGCCAATCAAGCCCGGTCGGCGGCGGCGAC
GAAAGCGGCTCTTAA

Upstream 100 bases:

>100_bases
CCGCCAAAGCCGTGACGGCTGCATGATCTAGACGAGTCAACGTCTCGAAAATCCCCTTGCACAAGGCGAAGGGTCGCTCG
GTAGGAGTTTCACGCTAGCC

Downstream 100 bases:

>100_bases
GCGAGCCCGTTCTTGATCCGTGCCAAGTGGCTTTCGCCTTCCTCCGGGCCAAAACAGCTTTCGAAATCGCCGCATTCCTG
ACAACTGGGCGCGGTGCATA

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 484; Mature: 484

Protein sequence:

>484_residues
MESSASLLQRQKQSLVLTPQMMESIRLLQLAHPELHQFVEQEIEKNPFLERASNRAPKDIPSISAGNPRIGPTTGGISDR
ASQWKSIRGKNNVQPGGNHAFEDSWTSIETLHDHVARQIALSAFAPLERRIAGELAGHLEDTGYLPVNLSELARSLNVRE
AVVERVLGTLQQFDPPGIFARTLSECLEIQLRQLDRFDPAMAALVANLEALARRDFQTLKRHCGVDEDDLLDMLHEIRAL
DPKPGNRFQSGGPESIIPDVLVQPSPGGGWQIELNPDTLPRLLMNQNYFAQVSRLSAQNSKDQSFLNECLQNANWLIRSL
DQRAKTILKVAAEIIRQQDAFFEHGVAHLRPLNLRTVADAINVHQSTVSRVTSNKYMLTPRGVFELKYFFTVAIGSSEGG
DAYSAEAVRHQIKAMVAVESPNEVLSDDDIATRLKETGIDIARRTVAKYREALNIPSSARRRREKRVRLRCQSSPVGGGD
ESGS

Sequences:

>Translated_484_residues
MESSASLLQRQKQSLVLTPQMMESIRLLQLAHPELHQFVEQEIEKNPFLERASNRAPKDIPSISAGNPRIGPTTGGISDR
ASQWKSIRGKNNVQPGGNHAFEDSWTSIETLHDHVARQIALSAFAPLERRIAGELAGHLEDTGYLPVNLSELARSLNVRE
AVVERVLGTLQQFDPPGIFARTLSECLEIQLRQLDRFDPAMAALVANLEALARRDFQTLKRHCGVDEDDLLDMLHEIRAL
DPKPGNRFQSGGPESIIPDVLVQPSPGGGWQIELNPDTLPRLLMNQNYFAQVSRLSAQNSKDQSFLNECLQNANWLIRSL
DQRAKTILKVAAEIIRQQDAFFEHGVAHLRPLNLRTVADAINVHQSTVSRVTSNKYMLTPRGVFELKYFFTVAIGSSEGG
DAYSAEAVRHQIKAMVAVESPNEVLSDDDIATRLKETGIDIARRTVAKYREALNIPSSARRRREKRVRLRCQSSPVGGGD
ESGS
>Mature_484_residues
MESSASLLQRQKQSLVLTPQMMESIRLLQLAHPELHQFVEQEIEKNPFLERASNRAPKDIPSISAGNPRIGPTTGGISDR
ASQWKSIRGKNNVQPGGNHAFEDSWTSIETLHDHVARQIALSAFAPLERRIAGELAGHLEDTGYLPVNLSELARSLNVRE
AVVERVLGTLQQFDPPGIFARTLSECLEIQLRQLDRFDPAMAALVANLEALARRDFQTLKRHCGVDEDDLLDMLHEIRAL
DPKPGNRFQSGGPESIIPDVLVQPSPGGGWQIELNPDTLPRLLMNQNYFAQVSRLSAQNSKDQSFLNECLQNANWLIRSL
DQRAKTILKVAAEIIRQQDAFFEHGVAHLRPLNLRTVADAINVHQSTVSRVTSNKYMLTPRGVFELKYFFTVAIGSSEGG
DAYSAEAVRHQIKAMVAVESPNEVLSDDDIATRLKETGIDIARRTVAKYREALNIPSSARRRREKRVRLRCQSSPVGGGD
ESGS

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is responsible for the expression of the nitrogen fixation genes (nif operon), glnA and dctA for dicar

COG id: COG1508

COG function: function code K; DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-54 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789594, Length=474, Percent_Identity=38.3966244725738, Blast_Score=323, Evalue=1e-89,

Paralogues:

None

Copy number: 70 (log & stationary phase) [C]

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR000394
- InterPro:   IPR007046
- InterPro:   IPR007634 [H]

Pfam domain/function: PF00309 Sigma54_AID; PF04963 Sigma54_CBD; PF04552 Sigma54_DBD [H]

EC number: NA

Molecular weight: Translated: 53863; Mature: 53863

Theoretical pI: Translated: 7.15; Mature: 7.15

Prosite motif: PS00717 SIGMA54_1 ; PS00718 SIGMA54_2 ; PS50044 SIGMA54_3 ; PS00659 GLYCOSYL_HYDROL_F5

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
1.7 %Met     (Translated Protein)
2.5 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
1.7 %Met     (Mature Protein)
2.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MESSASLLQRQKQSLVLTPQMMESIRLLQLAHPELHQFVEQEIEKNPFLERASNRAPKDI
CCCHHHHHHHHHHHEEECHHHHHHHHHHHHCCHHHHHHHHHHHHCCCHHHHHCCCCCCCC
PSISAGNPRIGPTTGGISDRASQWKSIRGKNNVQPGGNHAFEDSWTSIETLHDHVARQIA
CCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
LSAFAPLERRIAGELAGHLEDTGYLPVNLSELARSLNVREAVVERVLGTLQQFDPPGIFA
HHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHCCCCCHHH
RTLSECLEIQLRQLDRFDPAMAALVANLEALARRDFQTLKRHCGVDEDDLLDMLHEIRAL
HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCC
DPKPGNRFQSGGPESIIPDVLVQPSPGGGWQIELNPDTLPRLLMNQNYFAQVSRLSAQNS
CCCCCCCCCCCCCCCCCCCCEECCCCCCCEEEEECHHHHHHHHHCCCHHHHHHHHHHCCC
KDQSFLNECLQNANWLIRSLDQRAKTILKVAAEIIRQQDAFFEHGVAHLRPLNLRTVADA
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHCCCCHHHHHHH
INVHQSTVSRVTSNKYMLTPRGVFELKYFFTVAIGSSEGGDAYSAEAVRHQIKAMVAVES
HHHHHHHHHHHHCCCEEECCCCHHHEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHEECC
PNEVLSDDDIATRLKETGIDIARRTVAKYREALNIPSSARRRREKRVRLRCQSSPVGGGD
CHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCC
ESGS
CCCC
>Mature Secondary Structure
MESSASLLQRQKQSLVLTPQMMESIRLLQLAHPELHQFVEQEIEKNPFLERASNRAPKDI
CCCHHHHHHHHHHHEEECHHHHHHHHHHHHCCHHHHHHHHHHHHCCCHHHHHCCCCCCCC
PSISAGNPRIGPTTGGISDRASQWKSIRGKNNVQPGGNHAFEDSWTSIETLHDHVARQIA
CCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
LSAFAPLERRIAGELAGHLEDTGYLPVNLSELARSLNVREAVVERVLGTLQQFDPPGIFA
HHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHCCCCCHHH
RTLSECLEIQLRQLDRFDPAMAALVANLEALARRDFQTLKRHCGVDEDDLLDMLHEIRAL
HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCC
DPKPGNRFQSGGPESIIPDVLVQPSPGGGWQIELNPDTLPRLLMNQNYFAQVSRLSAQNS
CCCCCCCCCCCCCCCCCCCCEECCCCCCCEEEEECHHHHHHHHHCCCHHHHHHHHHHCCC
KDQSFLNECLQNANWLIRSLDQRAKTILKVAAEIIRQQDAFFEHGVAHLRPLNLRTVADA
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHCCCCHHHHHHH
INVHQSTVSRVTSNKYMLTPRGVFELKYFFTVAIGSSEGGDAYSAEAVRHQIKAMVAVES
HHHHHHHHHHHHCCCEEECCCCHHHEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHEECC
PNEVLSDDDIATRLKETGIDIARRTVAKYREALNIPSSARRRREKRVRLRCQSSPVGGGD
CHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCC
ESGS
CCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: DNA [C]

Specific reaction: Protein + DNA = Protein-DNA [C]

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: 2211497 [H]