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The map label for this gene is rpoN [H]

Identifier: 197103644

GI number: 197103644

Start: 173216

End: 174715

Strand: Direct

Name: rpoN [H]

Synonym: PHZ_c0178

Alternate gene names: 197103644

Gene position: 173216-174715 (Clockwise)

Preceding gene: 197103643

Following gene: 197103645

Centisome position: 4.33

GC content: 72.87

Gene sequence:

>1500_bases
TTGGCGCTCGCCGCGCGACTGGAGCTTCGACAGGGGCAGGGGCTGGTCATCACCCCCCAGCTGCAGCAGGCGATCAAGCT
GCTGCAGATGTCCAACCTCGAGCTCGAGGCCTTCGTCGAGGCCGAGCTGGAGCGCAACCCGCTGCTGCAGCGGGACGAGC
GCGACCACGAGCCCGAGGAGGCGCCGGCCGAGGCCCCTGTCGCCGAGGCCGCCGCCGACCGCATCGATGATTCCACCGCC
CGCGCCGACCTGGACGCCGCCCACGACGCGGCCTCGCCGGGCGAGCTGGCCACCGGCGACGCCCCCGCCCAGGCGGCGGG
GGAGGCCGGCGGCGCCGTCGACTGGTCCCGCGCCGGCAAGGGCGGCGGCTTCGAGGGCGACGCCGACGGGCTGGACGGGC
TGCTGGCCCACGAGAAGAGCCTGGCCGAGCACCTGCACGACCAGGTGGCGGTGGCCGGGCTTTCGCCCGCCGAGGCGGCG
GTGGCCCAGGTGCTGATCGATTCGGTGGACGAGGGCGGCTACCTGCGGGCCGACCTGGAGGAGATCGCCGAACGCCTGGG
CTGCGGCCTGCCGCTGGTGGAGCAGGTGCTGGGCGTGCTGCACGGCTTCGAGCCGGTGGGCGTCGGCGCGCGCGACGTGC
GCGAGTGCCTGGCGCTGCAGCTGAAGGACCGCAACCGCTACGACCCGGCGATGGCGGCGCTGCTCGACAACCTGCCGCTG
CTGGCCAGGCGCGACCTCGCCGCCCTGAAGCGGGTCTGCGGCGTGGACGACGAGGACCTGAAGGAGATGATCGCCGAGCT
GCGGGGCCTGACCCCCCGGCCCGGCGCGGCCTTCGGCGGCGAGCCGGCCCAGCCGGTGGCGCCGGACGTGTTCGTGCGCG
AGGGGCCGGGCGGCCTGTGGCACGTGGAGCTGAACTCCGAGACCCTGCCGCGGCTGCTGGTGGACCAGCGCTACCACGCC
CACGTCAGCGGCAAGGCGCGCTCGGACCAGGAGAAGACCTTCGTCGCCGACTGCCTGGCCCAGGCCAACTGGCTGATGAA
GAGCCTGGACCAGCGGGCCAAGACGATCCTGAAGGTCTCGTCCGAGATCGTCCGCCAGCAGGACGCCTTCCTGGCCTTCG
GCGTCGAGCACCTGCGGCCCCTGAACCTGAAGACCATCGCCGAGGCGATCGGCATGCACGAGAGCACCGTCAGCCGGGTG
ACCTCGAACAAGTACATGGCCACGCCGCGCGGCGTGTTCGAGATGAAGTTCTTCTTCACCGCGGCCATCGCGTCGGCCGA
CGGCGGCGAGGCGCACTCGGCCGAGAGCGTGCGCCACAGGATCCGCCAGCTGATCGACGCCGAGGCGCGCGAGGAGGACG
TCCACTCGGACGACCGCATCGTCGAGATCCTCAAGCAGGCCGGCGTCGACATCGCCCGCCGCACCGTCGCCAAGTACCGC
GAGGCCATGCGCATCCCCTCGTCGGTGGAGCGCCGGCGCATGCTGAAGGAAGCCGTCTAG

Upstream 100 bases:

>100_bases
CCCGGGCGGGGCCGCGTCAGCGCGGCGGTTAACCAATCGGTCGCAAACACAGGCCTAGCCTCCCCTCAGCAAGAAACAGG
CCAGAGGGGGCTTGAGGACC

Downstream 100 bases:

>100_bases
CGCTTCCTGCGTTGAGCCCCTTGGCGCGGCCGTTTGGGAGCGCCAGATGAGGGGGCGATGCTGCTATCCGATCCGCACCA
GCCTCTGTCCGAGGTCCTGC

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 499; Mature: 498

Protein sequence:

>499_residues
MALAARLELRQGQGLVITPQLQQAIKLLQMSNLELEAFVEAELERNPLLQRDERDHEPEEAPAEAPVAEAAADRIDDSTA
RADLDAAHDAASPGELATGDAPAQAAGEAGGAVDWSRAGKGGGFEGDADGLDGLLAHEKSLAEHLHDQVAVAGLSPAEAA
VAQVLIDSVDEGGYLRADLEEIAERLGCGLPLVEQVLGVLHGFEPVGVGARDVRECLALQLKDRNRYDPAMAALLDNLPL
LARRDLAALKRVCGVDDEDLKEMIAELRGLTPRPGAAFGGEPAQPVAPDVFVREGPGGLWHVELNSETLPRLLVDQRYHA
HVSGKARSDQEKTFVADCLAQANWLMKSLDQRAKTILKVSSEIVRQQDAFLAFGVEHLRPLNLKTIAEAIGMHESTVSRV
TSNKYMATPRGVFEMKFFFTAAIASADGGEAHSAESVRHRIRQLIDAEAREEDVHSDDRIVEILKQAGVDIARRTVAKYR
EAMRIPSSVERRRMLKEAV

Sequences:

>Translated_499_residues
MALAARLELRQGQGLVITPQLQQAIKLLQMSNLELEAFVEAELERNPLLQRDERDHEPEEAPAEAPVAEAAADRIDDSTA
RADLDAAHDAASPGELATGDAPAQAAGEAGGAVDWSRAGKGGGFEGDADGLDGLLAHEKSLAEHLHDQVAVAGLSPAEAA
VAQVLIDSVDEGGYLRADLEEIAERLGCGLPLVEQVLGVLHGFEPVGVGARDVRECLALQLKDRNRYDPAMAALLDNLPL
LARRDLAALKRVCGVDDEDLKEMIAELRGLTPRPGAAFGGEPAQPVAPDVFVREGPGGLWHVELNSETLPRLLVDQRYHA
HVSGKARSDQEKTFVADCLAQANWLMKSLDQRAKTILKVSSEIVRQQDAFLAFGVEHLRPLNLKTIAEAIGMHESTVSRV
TSNKYMATPRGVFEMKFFFTAAIASADGGEAHSAESVRHRIRQLIDAEAREEDVHSDDRIVEILKQAGVDIARRTVAKYR
EAMRIPSSVERRRMLKEAV
>Mature_498_residues
ALAARLELRQGQGLVITPQLQQAIKLLQMSNLELEAFVEAELERNPLLQRDERDHEPEEAPAEAPVAEAAADRIDDSTAR
ADLDAAHDAASPGELATGDAPAQAAGEAGGAVDWSRAGKGGGFEGDADGLDGLLAHEKSLAEHLHDQVAVAGLSPAEAAV
AQVLIDSVDEGGYLRADLEEIAERLGCGLPLVEQVLGVLHGFEPVGVGARDVRECLALQLKDRNRYDPAMAALLDNLPLL
ARRDLAALKRVCGVDDEDLKEMIAELRGLTPRPGAAFGGEPAQPVAPDVFVREGPGGLWHVELNSETLPRLLVDQRYHAH
VSGKARSDQEKTFVADCLAQANWLMKSLDQRAKTILKVSSEIVRQQDAFLAFGVEHLRPLNLKTIAEAIGMHESTVSRVT
SNKYMATPRGVFEMKFFFTAAIASADGGEAHSAESVRHRIRQLIDAEAREEDVHSDDRIVEILKQAGVDIARRTVAKYRE
AMRIPSSVERRRMLKEAV

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. This sigma factor is required for th

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=501, Percent_Identity=39.3213572854291, Blast_Score=316, Evalue=3e-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: 54068; Mature: 53936

Theoretical pI: Translated: 4.75; Mature: 4.75

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)
2.0 %Met     (Translated Protein)
2.8 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
1.8 %Met     (Mature Protein)
2.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MALAARLELRQGQGLVITPQLQQAIKLLQMSNLELEAFVEAELERNPLLQRDERDHEPEE
CCCHHHHHHHCCCCEEECHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCC
APAEAPVAEAAADRIDDSTARADLDAAHDAASPGELATGDAPAQAAGEAGGAVDWSRAGK
CCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCHHHHCCCCCCCCHHCCCC
GGGFEGDADGLDGLLAHEKSLAEHLHDQVAVAGLSPAEAAVAQVLIDSVDEGGYLRADLE
CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHH
EIAERLGCGLPLVEQVLGVLHGFEPVGVGARDVRECLALQLKDRNRYDPAMAALLDNLPL
HHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCH
LARRDLAALKRVCGVDDEDLKEMIAELRGLTPRPGAAFGGEPAQPVAPDVFVREGPGGLW
HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCCCCEE
HVELNSETLPRLLVDQRYHAHVSGKARSDQEKTFVADCLAQANWLMKSLDQRAKTILKVS
EEEECCCHHHHHHHHCHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
SEIVRQQDAFLAFGVEHLRPLNLKTIAEAIGMHESTVSRVTSNKYMATPRGVFEMKFFFT
HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHHHHH
AAIASADGGEAHSAESVRHRIRQLIDAEAREEDVHSDDRIVEILKQAGVDIARRTVAKYR
HHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCHHHHHHHHHHHH
EAMRIPSSVERRRMLKEAV
HHHCCCHHHHHHHHHHHCC
>Mature Secondary Structure 
ALAARLELRQGQGLVITPQLQQAIKLLQMSNLELEAFVEAELERNPLLQRDERDHEPEE
CCHHHHHHHCCCCEEECHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCC
APAEAPVAEAAADRIDDSTARADLDAAHDAASPGELATGDAPAQAAGEAGGAVDWSRAGK
CCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCHHHHCCCCCCCCHHCCCC
GGGFEGDADGLDGLLAHEKSLAEHLHDQVAVAGLSPAEAAVAQVLIDSVDEGGYLRADLE
CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHH
EIAERLGCGLPLVEQVLGVLHGFEPVGVGARDVRECLALQLKDRNRYDPAMAALLDNLPL
HHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCH
LARRDLAALKRVCGVDDEDLKEMIAELRGLTPRPGAAFGGEPAQPVAPDVFVREGPGGLW
HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCCCCEE
HVELNSETLPRLLVDQRYHAHVSGKARSDQEKTFVADCLAQANWLMKSLDQRAKTILKVS
EEEECCCHHHHHHHHCHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
SEIVRQQDAFLAFGVEHLRPLNLKTIAEAIGMHESTVSRVTSNKYMATPRGVFEMKFFFT
HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHHHHH
AAIASADGGEAHSAESVRHRIRQLIDAEAREEDVHSDDRIVEILKQAGVDIARRTVAKYR
HHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCHHHHHHHHHHHH
EAMRIPSSVERRRMLKEAV
HHHCCCHHHHHHHHHHHCC

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: 1459461; 7898437; 9260957; 11259647 [H]