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The map label for this gene is rpoN [H]

Identifier: 110635992

GI number: 110635992

Start: 3956497

End: 3957978

Strand: Reverse

Name: rpoN [H]

Synonym: Meso_3667

Alternate gene names: 110635992

Gene position: 3957978-3956497 (Counterclockwise)

Preceding gene: 110635993

Following gene: 110635991

Centisome position: 89.7

GC content: 61.54

Gene sequence:

>1482_bases
ATGGCGCTTTCAACCGGCATACAGTTGCGGCAGTCCCAATCGCTGGTCATGACGCCCCAGCTGCTGCAGTCTATCCGGCT
GCTGCAGCTGACACATATCGAGTTGGAGCTGTTCATATCCGAGGAGATCGAGCGCAATCCGCTCCTCGATCTTGTCGATG
CGAGCGAGGAGGTGCCCGCAAGCGTCCTTGAGGAGAGATTTGCCTCGCCGGACAGCGCCGCGGATATTGCCGAGCGGCTG
GACACCTCGCCCGAAGATCTGTTTCCAGATGACCCGGACGTGCGGGACACAATAGGGCCGGATCTCATGGCCCAGTGGCG
CTCCGCCGCCGGAAATGGGCTCGTCGCGACGGGCGAGGATTGGAATCTGGAGGAGACGACGGCCGCGCCGGCTACCTTGC
GCGACCATGTTCGCGAGCAGATCGTTCTCGCCTTTCCCGATCCGGTCTTGAAGCTGATCGCCGAGGAGCTGCTGGATGGA
CTGGACGATGCCGGCTATTTCACGGGCGACCTGAACGAGATCGCCGAACGCTTGGCTGCCGAGACGGTGCTGGTGGAGCG
GGTGCTTTCGATCTGCCAGACCTTTGATCCCCCCGGCCTGTTCGCCCGCACGCTTGCCGAATGCCTTGCGCTGCAATTGA
AGGCGCGGGATCGTCTGGATCCTGCCATGCAGGCGATGCTTTCGCGTCTTGATCTGCTTTCAAGGCGCGATTTTGCTTCT
TTGAAGAAAGTCTGCGGCGTGGACGAGGAGGACCTCGTGGAGATGCTGGCGGAAATCCGCTCGCTCGATCCCAAGCCCGG
CACGGCCTTCTCGTCGGCACCCGCCGAACCTGTCCTGCCGGATGTGATCGTGCGGCCCTCCGCCGGGGGAGCATGGGCGA
TCGAGCTCAATCCGGAAGTGCTGCCACGCGTGCTCGTTAACGAGACATATTTCACGGCCGTTTCCACGCGGGCCGGCAAA
GAGGAGAAAGCCTTTCTTTCCGAGTGCCTTCAAAGTGCCAACTGGCTGACTCGCAGCCTGGAGCAGCGGGCAAGGACCAT
CCTGAAAGTTGCCTCCGAGATCGTGCGCCAGCAGGATGCGTTTTTCGTGAATGGCGTTCGGCACCTGCGTCCGCTGACGC
TGAAAATGGTGGCTGATGCGATCGAAATGCACGAATCGACCATCAGCCGCGTCGCCACCAACAAATACATGATGACGCCT
CGCGGTCTCTTCGAACTGCGCTACTTCTTCACGACTGCCATTGCCGCCGCCGACGGAGGCGATGCGCATTCGGCGGAGGC
GGTGCGTGACCGGATCCGGCAGCTTGTGGAGGCGGAAGACCCCAACGAAGTGCTTTCCGACGATACGATTGTCGAGGTTC
TGCGAAAGGACGGAATTGATATCGCCCGCAGGACGATAGCAAAATACCGGGAGGCGATGAACATCCCGTCGTCGGTTCAG
CGCAGGCGCGAGAAGAGGGTGCTCGCCCGAGCCGGCGCATGA

Upstream 100 bases:

>100_bases
TGCAAAAGCAATCCAACATTGGCCCGGTGCTTGACAAGCAAATATCGGGCCAGTTTTATCGCCATAAGCAGAAAAGCCCG
TGAAGTGGGTAAAGGACGGA

Downstream 100 bases:

>100_bases
CCGCATCGAGGCTCGACTTCGTGCCTCGATTTGACAAGAGTCGGCGAAACCACTAGAAGCCCGCCGCCAGAGGACGGCAG
GATCGGTCATCTATCCTTCT

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 493; Mature: 492

Protein sequence:

>493_residues
MALSTGIQLRQSQSLVMTPQLLQSIRLLQLTHIELELFISEEIERNPLLDLVDASEEVPASVLEERFASPDSAADIAERL
DTSPEDLFPDDPDVRDTIGPDLMAQWRSAAGNGLVATGEDWNLEETTAAPATLRDHVREQIVLAFPDPVLKLIAEELLDG
LDDAGYFTGDLNEIAERLAAETVLVERVLSICQTFDPPGLFARTLAECLALQLKARDRLDPAMQAMLSRLDLLSRRDFAS
LKKVCGVDEEDLVEMLAEIRSLDPKPGTAFSSAPAEPVLPDVIVRPSAGGAWAIELNPEVLPRVLVNETYFTAVSTRAGK
EEKAFLSECLQSANWLTRSLEQRARTILKVASEIVRQQDAFFVNGVRHLRPLTLKMVADAIEMHESTISRVATNKYMMTP
RGLFELRYFFTTAIAAADGGDAHSAEAVRDRIRQLVEAEDPNEVLSDDTIVEVLRKDGIDIARRTIAKYREAMNIPSSVQ
RRREKRVLARAGA

Sequences:

>Translated_493_residues
MALSTGIQLRQSQSLVMTPQLLQSIRLLQLTHIELELFISEEIERNPLLDLVDASEEVPASVLEERFASPDSAADIAERL
DTSPEDLFPDDPDVRDTIGPDLMAQWRSAAGNGLVATGEDWNLEETTAAPATLRDHVREQIVLAFPDPVLKLIAEELLDG
LDDAGYFTGDLNEIAERLAAETVLVERVLSICQTFDPPGLFARTLAECLALQLKARDRLDPAMQAMLSRLDLLSRRDFAS
LKKVCGVDEEDLVEMLAEIRSLDPKPGTAFSSAPAEPVLPDVIVRPSAGGAWAIELNPEVLPRVLVNETYFTAVSTRAGK
EEKAFLSECLQSANWLTRSLEQRARTILKVASEIVRQQDAFFVNGVRHLRPLTLKMVADAIEMHESTISRVATNKYMMTP
RGLFELRYFFTTAIAAADGGDAHSAEAVRDRIRQLVEAEDPNEVLSDDTIVEVLRKDGIDIARRTIAKYREAMNIPSSVQ
RRREKRVLARAGA
>Mature_492_residues
ALSTGIQLRQSQSLVMTPQLLQSIRLLQLTHIELELFISEEIERNPLLDLVDASEEVPASVLEERFASPDSAADIAERLD
TSPEDLFPDDPDVRDTIGPDLMAQWRSAAGNGLVATGEDWNLEETTAAPATLRDHVREQIVLAFPDPVLKLIAEELLDGL
DDAGYFTGDLNEIAERLAAETVLVERVLSICQTFDPPGLFARTLAECLALQLKARDRLDPAMQAMLSRLDLLSRRDFASL
KKVCGVDEEDLVEMLAEIRSLDPKPGTAFSSAPAEPVLPDVIVRPSAGGAWAIELNPEVLPRVLVNETYFTAVSTRAGKE
EKAFLSECLQSANWLTRSLEQRARTILKVASEIVRQQDAFFVNGVRHLRPLTLKMVADAIEMHESTISRVATNKYMMTPR
GLFELRYFFTTAIAAADGGDAHSAEAVRDRIRQLVEAEDPNEVLSDDTIVEVLRKDGIDIARRTIAKYREAMNIPSSVQR
RREKRVLARAGA

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=498, Percent_Identity=38.1526104417671, Blast_Score=315, Evalue=5e-87,

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: 54649; Mature: 54518

Theoretical pI: Translated: 4.45; Mature: 4.45

Prosite motif: PS00041 HTH_ARAC_FAMILY_1 ; PS00717 SIGMA54_1 ; PS00718 SIGMA54_2 ; PS50044 SIGMA54_3

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
2.2 %Met     (Translated Protein)
3.0 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
2.0 %Met     (Mature Protein)
2.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MALSTGIQLRQSQSLVMTPQLLQSIRLLQLTHIELELFISEEIERNPLLDLVDASEEVPA
CCCCCCCHHHCCCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHCCCCCCCH
SVLEERFASPDSAADIAERLDTSPEDLFPDDPDVRDTIGPDLMAQWRSAAGNGLVATGED
HHHHHHCCCCCHHHHHHHHCCCCCHHCCCCCCCCHHHCCHHHHHHHHHHCCCCEEECCCC
WNLEETTAAPATLRDHVREQIVLAFPDPVLKLIAEELLDGLDDAGYFTGDLNEIAERLAA
CCCCHHCCCHHHHHHHHHHHEEEECCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH
ETVLVERVLSICQTFDPPGLFARTLAECLALQLKARDRLDPAMQAMLSRLDLLSRRDFAS
HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCHHHH
LKKVCGVDEEDLVEMLAEIRSLDPKPGTAFSSAPAEPVLPDVIVRPSAGGAWAIELNPEV
HHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCCCCEEEEEECHHH
LPRVLVNETYFTAVSTRAGKEEKAFLSECLQSANWLTRSLEQRARTILKVASEIVRQQDA
HHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
FFVNGVRHLRPLTLKMVADAIEMHESTISRVATNKYMMTPRGLFELRYFFTTAIAAADGG
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEECCHHHHHHHHHHHHHHHHCCCC
DAHSAEAVRDRIRQLVEAEDPNEVLSDDTIVEVLRKDGIDIARRTIAKYREAMNIPSSVQ
CCCHHHHHHHHHHHHHCCCCCHHHHCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHH
RRREKRVLARAGA
HHHHHHHHHHCCC
>Mature Secondary Structure 
ALSTGIQLRQSQSLVMTPQLLQSIRLLQLTHIELELFISEEIERNPLLDLVDASEEVPA
CCCCCCHHHCCCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHCCCCCCCH
SVLEERFASPDSAADIAERLDTSPEDLFPDDPDVRDTIGPDLMAQWRSAAGNGLVATGED
HHHHHHCCCCCHHHHHHHHCCCCCHHCCCCCCCCHHHCCHHHHHHHHHHCCCCEEECCCC
WNLEETTAAPATLRDHVREQIVLAFPDPVLKLIAEELLDGLDDAGYFTGDLNEIAERLAA
CCCCHHCCCHHHHHHHHHHHEEEECCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH
ETVLVERVLSICQTFDPPGLFARTLAECLALQLKARDRLDPAMQAMLSRLDLLSRRDFAS
HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCHHHH
LKKVCGVDEEDLVEMLAEIRSLDPKPGTAFSSAPAEPVLPDVIVRPSAGGAWAIELNPEV
HHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCCCCEEEEEECHHH
LPRVLVNETYFTAVSTRAGKEEKAFLSECLQSANWLTRSLEQRARTILKVASEIVRQQDA
HHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
FFVNGVRHLRPLTLKMVADAIEMHESTISRVATNKYMMTPRGLFELRYFFTTAIAAADGG
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEECCHHHHHHHHHHHHHHHHCCCC
DAHSAEAVRDRIRQLVEAEDPNEVLSDDTIVEVLRKDGIDIARRTIAKYREAMNIPSSVQ
CCCHHHHHHHHHHHHHCCCCCHHHHCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHH
RRREKRVLARAGA
HHHHHHHHHHCCC

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]