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The map label for this gene is rpoN [H]

Identifier: 66047374

GI number: 66047374

Start: 4934535

End: 4936070

Strand: Direct

Name: rpoN [H]

Synonym: Psyr_4147

Alternate gene names: 66047374

Gene position: 4934535-4936070 (Clockwise)

Preceding gene: 66047373

Following gene: 66047375

Centisome position: 80.98

GC content: 57.94

Gene sequence:

>1536_bases
ATGGCGCATGCGCGCCGGCGAATAAGGTGTTTAGCCCCTGCCATGAAACCATCGCTAGTCTTGAGAATGGGCCAGCAGCT
GACGATGACACCGCAGCTGCAACAGGCAATCCGCTTACTTCAGCTTTCCACTCTGGATCTCCAGCAGGAGATCCAGGAGG
CGCTGGAGTCAAACCCTATGCTGGAGCGGCAGGAAGAAGGCGACGACTTCGACCATTCCGACCCGCTTGCCGACAACATC
GAACAAAAGCCCAACCCCGACGTTCAGGAACCGACCTATCAGGAATCCGCGCCTACCGTGGACAACCTTGAAGAAGGTGA
ATGGAACGAACGCATTCCCAACGAGCTGCCCGTCGATACCGCATGGGAAGACATCTACCAGACCAGCGCCAGCAGCCTGC
CAAGCAACGATGACGACGAGTGGGACTTCACCACGCGCACCTCTGTGGGCGAAAGCCTGCAAAGCCACCTGCTGTGGCAA
CTGAATGTCGCGCCGATGTCCGACAAGGACCGTCTGGTAGCGGTTACGCTGATCGACTGCATCAACAACCAGGGTTATCT
CGACGAGACGCTCGATGAGATTCTCGAGTCCTTCGACCCCGAACTGGACATCGAGCTCGACGAGATCGAAGCCGTACTGC
ACCGCATCCAGCAGTTTGAACCTGCCGGCATCGGCGCTCGCAACCTGAGCGAATGCCTGCTGCTGCAACTGCGCCAGCTG
CCAGCAAAAACACCCTGGCTGACAGAAGCACAACGCCTGGTCAGCGACTACATCGACCTGCTCGGAAGCCGCGACTACGG
CCAGCTGATGCGACGCATGAAGCTCAAGGAAGACGAGCTGCGTCAGGTCATCGAACTGGTGCAGAGCCTCAACCCGCGTC
CAGGCTCGCAGATCGAATCCACAGAAGCCGAATACGTCATTCCGGATGTGATCGTGCGCAAGGACAATGAACGCTGGCTG
GTCGAACTCAATCAGGAGTCGGTGCCGCGCCTGCGCGTCAATCCGCAATACGCGGGCTTCGTACGGCGCGCCGATACCAG
CGCAGACAACACCTTCATGCGCAATCAGTTGCAGGAAGCGCGCTGGTTCATCAAGAGCCTGCAAAGCCGCAACGAAACGT
TGATGAAGGTCGCCACGCAAATCGTCGAACATCAGCGCGGCTTTCTCGAGTACGGTGACGAGGCCATGAAGCCGCTCGTC
CTGCACGACATCGCCGAGGCAGTGGGCATGCACGAGTCGACCATCTCGCGCGTAACCACCCAGAAATTCATGCACACCCC
ACGCGGCATTTACGAGCTGAAATACTTCTTCTCAAGCCATGTGAGCACCTCCGAGGGCGGTGAATGCTCGTCCACGGCAA
TTCGCGCAATCATCAAAAAACTGGTTGCGGCGGAAAATCAGAAAAAGCCGTTGAGTGATAGCAAGATCGCTGGTTTACTG
GAGGCACAAGGCATTCAAGTAGCCCGTCGCACAGTCGCCAAGTACCGTGAGTCTCTCGGGATCGCCCCTTCCAGTGAGCG
TAAGCGGCTGATGTGA

Upstream 100 bases:

>100_bases
CAGTGTATTGACAACATTTTATTTGTCATATCTCTCTAGGCAAACGCACAGGTTTCAGGCATATAATTTGCTTAAGTTGG
CGCCACGGCGCCTGTAGTAG

Downstream 100 bases:

>100_bases
TGCAGGCCGAGCCACAGCGTCCCAGAGGCATGCGCCATGCCTGCCTCTTTATGCACTGGCAAAGGAGAAAGCTGTATGCA
AGTCAACATCAGTGGACACC

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 511; Mature: 510

Protein sequence:

>511_residues
MAHARRRIRCLAPAMKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDHSDPLADNI
EQKPNPDVQEPTYQESAPTVDNLEEGEWNERIPNELPVDTAWEDIYQTSASSLPSNDDDEWDFTTRTSVGESLQSHLLWQ
LNVAPMSDKDRLVAVTLIDCINNQGYLDETLDEILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQL
PAKTPWLTEAQRLVSDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIESTEAEYVIPDVIVRKDNERWL
VELNQESVPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLV
LHDIAEAVGMHESTISRVTTQKFMHTPRGIYELKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLL
EAQGIQVARRTVAKYRESLGIAPSSERKRLM

Sequences:

>Translated_511_residues
MAHARRRIRCLAPAMKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDHSDPLADNI
EQKPNPDVQEPTYQESAPTVDNLEEGEWNERIPNELPVDTAWEDIYQTSASSLPSNDDDEWDFTTRTSVGESLQSHLLWQ
LNVAPMSDKDRLVAVTLIDCINNQGYLDETLDEILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQL
PAKTPWLTEAQRLVSDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIESTEAEYVIPDVIVRKDNERWL
VELNQESVPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLV
LHDIAEAVGMHESTISRVTTQKFMHTPRGIYELKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLL
EAQGIQVARRTVAKYRESLGIAPSSERKRLM
>Mature_510_residues
AHARRRIRCLAPAMKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDHSDPLADNIE
QKPNPDVQEPTYQESAPTVDNLEEGEWNERIPNELPVDTAWEDIYQTSASSLPSNDDDEWDFTTRTSVGESLQSHLLWQL
NVAPMSDKDRLVAVTLIDCINNQGYLDETLDEILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQLP
AKTPWLTEAQRLVSDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIESTEAEYVIPDVIVRKDNERWLV
ELNQESVPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLVL
HDIAEAVGMHESTISRVTTQKFMHTPRGIYELKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLLE
AQGIQVARRTVAKYRESLGIAPSSERKRLM

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 xylCAB operon and the xylS gene. The open complex (sigma-54 a

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=499, Percent_Identity=53.9078156312625, Blast_Score=531, Evalue=1e-152,

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: 58335; Mature: 58203

Theoretical pI: Translated: 4.58; Mature: 4.58

Prosite motif: 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)
2.7 %Met     (Translated Protein)
3.5 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
2.5 %Met     (Mature Protein)
3.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAHARRRIRCLAPAMKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPM
CCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
LERQEEGDDFDHSDPLADNIEQKPNPDVQEPTYQESAPTVDNLEEGEWNERIPNELPVDT
CCHHHCCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCH
AWEDIYQTSASSLPSNDDDEWDFTTRTSVGESLQSHLLWQLNVAPMSDKDRLVAVTLIDC
HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHEEEEECCCCCCCCCEEHHHHHHH
INNQGYLDETLDEILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQL
HCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHC
PAKTPWLTEAQRLVSDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIES
CCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCC
TEAEYVIPDVIVRKDNERWLVELNQESVPRLRVNPQYAGFVRRADTSADNTFMRNQLQEA
CCCCEECCHHHEECCCCCEEEEECCCCCCCEEECCHHHHHHHHCCCCCCHHHHHHHHHHH
RWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLVLHDIAEAVGMHESTISRVTT
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHH
QKFMHTPRGIYELKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLL
HHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHH
EAQGIQVARRTVAKYRESLGIAPSSERKRLM
HHHHHHHHHHHHHHHHHHCCCCCCCHHCCCC
>Mature Secondary Structure 
AHARRRIRCLAPAMKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPM
CCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
LERQEEGDDFDHSDPLADNIEQKPNPDVQEPTYQESAPTVDNLEEGEWNERIPNELPVDT
CCHHHCCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCH
AWEDIYQTSASSLPSNDDDEWDFTTRTSVGESLQSHLLWQLNVAPMSDKDRLVAVTLIDC
HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHEEEEECCCCCCCCCEEHHHHHHH
INNQGYLDETLDEILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQL
HCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHC
PAKTPWLTEAQRLVSDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIES
CCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCC
TEAEYVIPDVIVRKDNERWLVELNQESVPRLRVNPQYAGFVRRADTSADNTFMRNQLQEA
CCCCEECCHHHEECCCCCEEEEECCCCCCCEEECCHHHHHHHHCCCCCCHHHHHHHHHHH
RWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLVLHDIAEAVGMHESTISRVTT
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCCHHHHHHHHHH
QKFMHTPRGIYELKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLL
HHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHH
EAQGIQVARRTVAKYRESLGIAPSSERKRLM
HHHHHHHHHHHHHHHHHHCCCCCCCHHCCCC

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: 2602128; 12534463 [H]