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The map label for this gene is rpoN

Identifier: 51597818

GI number: 51597818

Start: 4193473

End: 4194906

Strand: Direct

Name: rpoN

Synonym: YPTB3526

Alternate gene names: 51597818

Gene position: 4193473-4194906 (Clockwise)

Preceding gene: 51597817

Following gene: 51597819

Centisome position: 88.38

GC content: 48.88

Gene sequence:

>1434_bases
ATGAAGCAAGGTCTGCAACTCAAGTTCAGCCAACAACTGGCGATGACTCCGCAGCTTCAGCAAGCTATTCGCTTGTTGCA
ACTTTCGACGCTTGAACTCCAGCAGGAGATTCAGCTCGCGCTGGAGAGCAACCCCCTTCTTGAGCAAACGGACCTTCATG
AAGAGATAGATGCTAAGGAAACCGTGGACAGTGAATCGCTGGATACCCGCGAAGCACTAGAACAAAAGGATATGCCGGAA
GAATTACCGCTAGATGCCACCTGGGATGAGATTTACACCGCAGGTACCCCATCCGGCATGGGCAATGATTACAGTGACGA
TGAACTGCCCGTCTATCAGGGTGAAACCACCCAAACACTGCAAGACTATCTGATGTGGCAGGTGGATTTAACACCGTTCA
CTGAGACCGACGCCGCCATTGCGACTTCTATCGTTGACGCTGTTGATGACACTGGCTATCTCACTGTGCCGCTGGAAGAT
ATTCTGGAAAGCATGGGTGATGAGAACGTAGCGCTAGACGAAGTGGAAGCGGTACTCAAACGTATTCAGCATTTTGATCC
CATCGGTGTCGCTGCCCGTAACTTGCGCGAATGCTTACTGGTACAGTTATCACAATATGCCAAAGACACCCCTTATTTGG
CCGAAGCGCGTCTGATCGTCAGCGAATATTTAGATTTGCTAGGCAACCATGATTTCCGCATGATGATCCGCTTGAGTCGG
CTGAAAGAAGATACACTTAAAGAAGCCATCGCGCTGATCCAATCACTGGATCCACGGCCAGGTCAGTCGATCAATACCGG
GGAGTCTGAGTATGTCATCCCGGATGTTCTGGTTCGTAAAGAGAAAGGTATCTGGACGGTGGAGCTGAATGCCGATAGCA
TCCCACGTCTAAAAGTTAACCAACAATACGCAGCGATGGGCAATAGCGTCCGTAATGACAGTGACGGGCAGTTTATTCGT
AGCAATTTGCAAGAAGCAAAATGGTTGATCAAAAGCCTTGAAAGCCGCAACGAAACGCTGCTAAAAGTAGCAAGATGTAT
TGTAGAACAGCAAGTCGAGTTCTTTGAGAAAGGTGCAGAGTTTATGAAACCCATGGTACTGGCTGATATCGCCCAGGCTG
TGGATATGCATGAATCAACAATCTCTCGAGTGACCACGCAGAAATTCTTGCACAGTCCCCGAGGGATTTTTGAACTGAAG
TATTTCTTCTCTAGCCACGTCAATACCGATAGTGGGGGCGAAGCCTCTTCTACGGCGATCCGGGCGCTGGTGAAGAAATT
AGTGGCGGCAGAAAACCCTGCCAAGCCATTAAGCGACAGTAAACTAACCACTTTATTATGTGAACAAGGCATTATGGTAG
CACGGCGCACCGTCGCAAAATACCGAGAGTCGTTATCCATCCCTCCGTCTAATCAACGTAAACAGTTGGTTTGA

Upstream 100 bases:

>100_bases
GTTAAACGCGTGTATCTAGGTGAAGAGTTCCGTCTTTGAACCCACGCACCTAATTTGGCTCCTCTGTTGGTCGTCCATTA
AGGAAAATTGATACAGCATT

Downstream 100 bases:

>100_bases
CCTGAACTGAGAAGGAATAGACTATGCAGCTCAATATTACCGGTCATCATGTCGAAATAACCGAAGCATTACGCGAGTTT
GTTACCACAAAATTTGCCAA

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 477; Mature: 477

Protein sequence:

>477_residues
MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKETVDSESLDTREALEQKDMPE
ELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTLQDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLED
ILESMGDENVALDEVEAVLKRIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR
LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVNQQYAAMGNSVRNDSDGQFIR
SNLQEAKWLIKSLESRNETLLKVARCIVEQQVEFFEKGAEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLVAAENPAKPLSDSKLTTLLCEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Sequences:

>Translated_477_residues
MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKETVDSESLDTREALEQKDMPE
ELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTLQDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLED
ILESMGDENVALDEVEAVLKRIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR
LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVNQQYAAMGNSVRNDSDGQFIR
SNLQEAKWLIKSLESRNETLLKVARCIVEQQVEFFEKGAEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLVAAENPAKPLSDSKLTTLLCEQGIMVARRTVAKYRESLSIPPSNQRKQLV
>Mature_477_residues
MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKETVDSESLDTREALEQKDMPE
ELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTLQDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLED
ILESMGDENVALDEVEAVLKRIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR
LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVNQQYAAMGNSVRNDSDGQFIR
SNLQEAKWLIKSLESRNETLLKVARCIVEQQVEFFEKGAEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLVAAENPAKPLSDSKLTTLLCEQGIMVARRTVAKYRESLSIPPSNQRKQLV

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. The open complex (sigma-54 and core

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=477, Percent_Identity=82.5995807127883, Blast_Score=826, Evalue=0.0,

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: 53640; Mature: 53640

Theoretical pI: Translated: 4.38; Mature: 4.38

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:

0.6 %Cys     (Translated Protein)
2.7 %Met     (Translated Protein)
3.4 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
2.7 %Met     (Mature Protein)
3.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKE
CCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCHHH
TVDSESLDTREALEQKDMPEELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTL
HCCCCCCCHHHHHHHCCCCCCCCCCCCHHHHEECCCCCCCCCCCCCCCCCCCCCCHHHHH
QDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLEDILESMGDENVALDEVEAVLK
HHHHHEEEECCCCCCCHHHHHHHHHHHHCCCCEEEECHHHHHHHCCCCCCCHHHHHHHHH
RIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR
HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVN
HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEECHHHHHHCCCCEEEEEECCCCCCCEECC
QQYAAMGNSVRNDSDGQFIRSNLQEAKWLIKSLESRNETLLKVARCIVEQQVEFFEKGAE
HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
FMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELKYFFSSHVNTDSGGEASSTAI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCHHHHHH
RALVKKLVAAENPAKPLSDSKLTTLLCEQGIMVARRTVAKYRESLSIPPSNQRKQLV
HHHHHHHHHCCCCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCC
>Mature Secondary Structure
MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKE
CCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCHHH
TVDSESLDTREALEQKDMPEELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTL
HCCCCCCCHHHHHHHCCCCCCCCCCCCHHHHEECCCCCCCCCCCCCCCCCCCCCCHHHHH
QDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLEDILESMGDENVALDEVEAVLK
HHHHHEEEECCCCCCCHHHHHHHHHHHHCCCCEEEECHHHHHHHCCCCCCCHHHHHHHHH
RIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR
HHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVN
HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEECHHHHHHCCCCEEEEEECCCCCCCEECC
QQYAAMGNSVRNDSDGQFIRSNLQEAKWLIKSLESRNETLLKVARCIVEQQVEFFEKGAE
HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
FMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELKYFFSSHVNTDSGGEASSTAI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCHHHHHH
RALVKKLVAAENPAKPLSDSKLTTLLCEQGIMVARRTVAKYRESLSIPPSNQRKQLV
HHHHHHHHHCCCCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCC

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: 2999700; 2695747 [H]