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The map label for this gene is rpoN [H]

Identifier: 34498787

GI number: 34498787

Start: 3630106

End: 3631506

Strand: Direct

Name: rpoN [H]

Synonym: CV_3332

Alternate gene names: 34498787

Gene position: 3630106-3631506 (Clockwise)

Preceding gene: 34498786

Following gene: 34498788

Centisome position: 76.41

GC content: 67.31

Gene sequence:

>1401_bases
ATGAAACAGGCCCTTCAGCTCAAGGTATCCCAGCAACTGACGCTGACGCCGCAGCTGCAGCAGTCGATCAAGCTGCTGCA
GCTGTCCACGCTGGATCTGCAGGCGGAAGTGGAACGCTTCCTGCTCGACAATCCGCTGCTGGAGCGCGGCGACGAGCCCC
GCGACGGCGAGGCCCCGGGCGACGGCCCCGAACAGCAGGACAGCCCGGTCGAAGCGCAGGAAGCCGATAGCCGCGACGAC
GGCGCCGGCGAGCTGCTGGACTGGGGCGCGGGCGCACGCAAGGGGGACGACGACGACTTCGACCCCATGCTCAACGTGCC
CTGCCCCATCAGCCTGCGCGAGCACCTGCTGACCCAGCTGGGCGAGCTCGCCCTCACCGACCGCGACCGCGCGGTGGTCA
GCCTGCTGATCGAGGAGCTGGACGACGACGGCTACCTGCCGCTGGGACTGGACGAACTGGCCGGCAACCTGCCGCTGGAA
CTGGAGCTGGACAGCGACGAGCTGGCGGTGGGCCTCGCGCTGCTGCAGCAGTTCGACCCGGCCGGCGTCGGCGCCCGCTC
GCTGGCCGAATCGCTGACGCTGCAGCTGCGGCGCCTGCCGGGAGACGAGCCCGGGCACGCGCTGGCGCTGGCCATCGTCC
GCGAGCATCTGGCATTGCTGGGCGGACGCGACTACGCCAGGCTGAAAAAGCTGCTGCGCTGCGACGACGCCGCGCTGCGC
GACGCGCAGGCGCTGATCGCCAGGCTCAACCCCCATCCCGCCACCGGCTTCGGCCACGGCGACGTCCACTACGTGATCCC
CGACATCAGCGTACGCAAGCTGCGCGGCCGCTGGACCGCCGAGCTCAACCGCGCCGCGATGCCCCGCCTGCGGGTCAACC
GGCTGTACGAACGGATGCTGGCCGACCACCGCGCCGGCGGCGAAATGTCGGGCCGTCTGCAGGAGGCGCGCTGGCTGGTC
AAGAACATCCAGCAGCGATTTGACACCATACTCAAAGTGGCGGAAGCTATTGTCGAGCGTCAACAGTTGTTCTTTGAGCA
CGGCGAAGTGGCGATGCGCCCGCTGATTCTGCGGGACATCGCGGAAGAGCTGGGCCTGCACGAATCCACCGTTTCCCGAT
CCACCAGCCAGAAATACCTGCTCTGTTCGCGGGGTTTGTTCGAGCTCAAGTATTTCTTCGGCAGTTCGCTGGAAACTGAA
AGCGGCGGCGAGTGCTCCGCCACCGCGATCAAGGCCCATATCCGCGGCATGATAGACGCCGAGGACCGCGCCAAGCCGCT
GTCCGACAGCGCCATCGCCGACGCGCTGGCCAAACAGGGAATTCAGGTTGCCAGACGCACCGTAGCCAAGTATCGTGAAG
CCATGCAGATTCCGGCGGTGAATCTGCGCAAGGCGCTGTAG

Upstream 100 bases:

>100_bases
CAGCGACGGCTCGGTGCTGGCCTCCGGCCAGCCGGAAGAACTGGTCAACAACGAGAAAGTGCGCGAGGTCTACCTCGGCG
AGCACTTCCACCTGTAAGCG

Downstream 100 bases:

>100_bases
GGCGCCTCAAGAATACAATGCCGCCCGACAACCCGACCGGGCGGTCAACACCAGAAGGAGCTAGGGTATGAACCTCAAAG
TAACTGGCCTGCACCTGGAA

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 466; Mature: 466

Protein sequence:

>466_residues
MKQALQLKVSQQLTLTPQLQQSIKLLQLSTLDLQAEVERFLLDNPLLERGDEPRDGEAPGDGPEQQDSPVEAQEADSRDD
GAGELLDWGAGARKGDDDDFDPMLNVPCPISLREHLLTQLGELALTDRDRAVVSLLIEELDDDGYLPLGLDELAGNLPLE
LELDSDELAVGLALLQQFDPAGVGARSLAESLTLQLRRLPGDEPGHALALAIVREHLALLGGRDYARLKKLLRCDDAALR
DAQALIARLNPHPATGFGHGDVHYVIPDISVRKLRGRWTAELNRAAMPRLRVNRLYERMLADHRAGGEMSGRLQEARWLV
KNIQQRFDTILKVAEAIVERQQLFFEHGEVAMRPLILRDIAEELGLHESTVSRSTSQKYLLCSRGLFELKYFFGSSLETE
SGGECSATAIKAHIRGMIDAEDRAKPLSDSAIADALAKQGIQVARRTVAKYREAMQIPAVNLRKAL

Sequences:

>Translated_466_residues
MKQALQLKVSQQLTLTPQLQQSIKLLQLSTLDLQAEVERFLLDNPLLERGDEPRDGEAPGDGPEQQDSPVEAQEADSRDD
GAGELLDWGAGARKGDDDDFDPMLNVPCPISLREHLLTQLGELALTDRDRAVVSLLIEELDDDGYLPLGLDELAGNLPLE
LELDSDELAVGLALLQQFDPAGVGARSLAESLTLQLRRLPGDEPGHALALAIVREHLALLGGRDYARLKKLLRCDDAALR
DAQALIARLNPHPATGFGHGDVHYVIPDISVRKLRGRWTAELNRAAMPRLRVNRLYERMLADHRAGGEMSGRLQEARWLV
KNIQQRFDTILKVAEAIVERQQLFFEHGEVAMRPLILRDIAEELGLHESTVSRSTSQKYLLCSRGLFELKYFFGSSLETE
SGGECSATAIKAHIRGMIDAEDRAKPLSDSAIADALAKQGIQVARRTVAKYREAMQIPAVNLRKAL
>Mature_466_residues
MKQALQLKVSQQLTLTPQLQQSIKLLQLSTLDLQAEVERFLLDNPLLERGDEPRDGEAPGDGPEQQDSPVEAQEADSRDD
GAGELLDWGAGARKGDDDDFDPMLNVPCPISLREHLLTQLGELALTDRDRAVVSLLIEELDDDGYLPLGLDELAGNLPLE
LELDSDELAVGLALLQQFDPAGVGARSLAESLTLQLRRLPGDEPGHALALAIVREHLALLGGRDYARLKKLLRCDDAALR
DAQALIARLNPHPATGFGHGDVHYVIPDISVRKLRGRWTAELNRAAMPRLRVNRLYERMLADHRAGGEMSGRLQEARWLV
KNIQQRFDTILKVAEAIVERQQLFFEHGEVAMRPLILRDIAEELGLHESTVSRSTSQKYLLCSRGLFELKYFFGSSLETE
SGGECSATAIKAHIRGMIDAEDRAKPLSDSAIADALAKQGIQVARRTVAKYREAMQIPAVNLRKAL

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released [H]

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=483, Percent_Identity=42.8571428571429, Blast_Score=372, Evalue=1e-104,

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: 51516; Mature: 51516

Theoretical pI: Translated: 4.86; Mature: 4.86

Prosite motif: PS00717 SIGMA54_1 ; PS00718 SIGMA54_2 ; PS50044 SIGMA54_3

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.9 %Cys     (Translated Protein)
1.7 %Met     (Translated Protein)
2.6 %Cys+Met (Translated Protein)
0.9 %Cys     (Mature Protein)
1.7 %Met     (Mature Protein)
2.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKQALQLKVSQQLTLTPQLQQSIKLLQLSTLDLQAEVERFLLDNPLLERGDEPRDGEAPG
CCCCHHHHHCCCEECCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHCCCCCCCCCCCC
DGPEQQDSPVEAQEADSRDDGAGELLDWGAGARKGDDDDFDPMLNVPCPISLREHLLTQL
CCCCCCCCCCCHHHCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
GELALTDRDRAVVSLLIEELDDDGYLPLGLDELAGNLPLELELDSDELAVGLALLQQFDP
HHHHHCCCHHHHHHHHHHHHCCCCCCCCCHHHHCCCCCEEEEECCHHHHHHHHHHHHCCC
AGVGARSLAESLTLQLRRLPGDEPGHALALAIVREHLALLGGRDYARLKKLLRCDDAALR
CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCHHHHH
DAQALIARLNPHPATGFGHGDVHYVIPDISVRKLRGRWTAELNRAAMPRLRVNRLYERML
HHHHHHHHCCCCCCCCCCCCCEEEEECCCHHHHHCCCHHHHHHHHHCCHHHHHHHHHHHH
ADHRAGGEMSGRLQEARWLVKNIQQRFDTILKVAEAIVERQQLFFEHGEVAMRPLILRDI
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
AEELGLHESTVSRSTSQKYLLCSRGLFELKYFFGSSLETESGGECSATAIKAHIRGMIDA
HHHHCCCHHHHHHCCCCHHHHHHCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCC
EDRAKPLSDSAIADALAKQGIQVARRTVAKYREAMQIPAVNLRKAL
HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHCC
>Mature Secondary Structure
MKQALQLKVSQQLTLTPQLQQSIKLLQLSTLDLQAEVERFLLDNPLLERGDEPRDGEAPG
CCCCHHHHHCCCEECCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHCCCCCCCCCCCC
DGPEQQDSPVEAQEADSRDDGAGELLDWGAGARKGDDDDFDPMLNVPCPISLREHLLTQL
CCCCCCCCCCCHHHCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
GELALTDRDRAVVSLLIEELDDDGYLPLGLDELAGNLPLELELDSDELAVGLALLQQFDP
HHHHHCCCHHHHHHHHHHHHCCCCCCCCCHHHHCCCCCEEEEECCHHHHHHHHHHHHCCC
AGVGARSLAESLTLQLRRLPGDEPGHALALAIVREHLALLGGRDYARLKKLLRCDDAALR
CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCHHHHH
DAQALIARLNPHPATGFGHGDVHYVIPDISVRKLRGRWTAELNRAAMPRLRVNRLYERML
HHHHHHHHCCCCCCCCCCCCCEEEEECCCHHHHHCCCHHHHHHHHHCCHHHHHHHHHHHH
ADHRAGGEMSGRLQEARWLVKNIQQRFDTILKVAEAIVERQQLFFEHGEVAMRPLILRDI
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
AEELGLHESTVSRSTSQKYLLCSRGLFELKYFFGSSLETESGGECSATAIKAHIRGMIDA
HHHHCCCHHHHHHCCCCHHHHHHCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCC
EDRAKPLSDSAIADALAKQGIQVARRTVAKYREAMQIPAVNLRKAL
HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHCC

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: 1417413 [H]