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The map label for this gene is rpoN [H]

Identifier: 62185555

GI number: 62185555

Start: 1116189

End: 1117460

Strand: Direct

Name: rpoN [H]

Synonym: CAB956

Alternate gene names: 62185555

Gene position: 1116189-1117460 (Clockwise)

Preceding gene: 62185554

Following gene: 62185557

Centisome position: 97.54

GC content: 41.27

Gene sequence:

>1272_bases
ATGCTTCAACACCATCAAAAGCTTTCTCTTCACTACCTTCCCTCGCTGCGTATGCAGCAGGGATTGCAAATATTACAATC
TCCGATTACCGAGCTCTCCTCCTATATACTCCAACAAATCATTCATAATCCATTTTTTGATATCTCTTCTCTAGAGGAGG
AAGAATGGTCAACCTGTTCTTCATTCTCTTCCTTGGATGCTTCCTATTCTCGTCCTGAATCTTTATTTTCCCATCTTCTC
ACACAGGTTCAACAAACTTTTGATCGTTCTGAAGATCTGCTTATTGCTCAGCACATTATAGGGAATCTCTCAGATCAAGG
GTTGTTTCTTTCTTCTCCCGAAGAACTCTCGCTACAACTTGAAGTTTCTTTAGAGACCATTGATAAAGTATGGAAAACGA
TTCAACATTTCCATCCTCTGGGCATTGCTTCTCCATCTCTACAAGATTATTGGCTTCTACATTTAGAAGGCTCTCCACAT
GATCTTGCTTACAAGATTATCAAAGAGCACTACTCTCTTTTGATTAACTGTGACTTCCTTCGTATCGCAAAGAAATGTCA
CTGCTCCCCTTCAAACTTAAGATATGCTCTTAAAAATGCATTAACCACAATCCCGTGGTGCCCTGCCCAGGGATACGCTT
CCTCTTCCAATATACAACCCGCGCTTCCTGACGTCTATGTCGCTAAACAAGATCGGGTTTGGGAGATTCAAATCAGTTCC
CAAGGACTACCTCCCATAAAACTTAATCGCGAGGTATTTCATATTTATGAACAGCTGCCTAGAGAGGAAAAAAAGTCCCT
CACACAGCAAATTCTTTCTGCTAAATGGCTGATTAAAAACTTAAGAAAACGAGAACAAACATTATTTTCTATTGTTGAGA
AAATCCTTCCGCATCAGGAAAACTTTCTCCTGGGCAAAACGTCCTGCCCGAAACCATTGTCGGTAAAAATTTTATCGGAA
GAATTGCCCTATCATGAATCTACGATATTTCGTGCTATAGAAAATAAGACACTGGCAGGCCCTATAGGCATCATACCTCT
GAAACACCTCTTCCCTCGAGCTGTCAGTCCTAGTGATGCCCAATCCAAAGAAACTATATTACAATGGATTCATCAATGGG
TAGCTTCTGAAACTATCCCGTTGTCTGATGCGGATATTAGCGAACGTATCTCACAGCAGGGCATCCAATGTGCCCGTCGC
ACGGTAGCGAAATACCGAACACAATTAAAAATTCTCCCCGCTCATAAAAGAAAAGTCCATTCGCAAATGTAA

Upstream 100 bases:

>100_bases
CAGCGCAAACTCGTTTTCTTTGGGGCACAGTGCGTGTCATGAAACCGAGTCGTTTTCTTAAGGAAATCCCTAGAGATTAC
TTGATTCAAGTACATTAGGT

Downstream 100 bases:

>100_bases
AGCGGTTTTACATTTTAGTCATTAGGTAAAGTACGCTACATAGATTTGCTGCCAGCGCACACTTTCTAATTTCTGTTCTC
TGGCATATTTTTCAAGAACG

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 423; Mature: 423

Protein sequence:

>423_residues
MLQHHQKLSLHYLPSLRMQQGLQILQSPITELSSYILQQIIHNPFFDISSLEEEEWSTCSSFSSLDASYSRPESLFSHLL
TQVQQTFDRSEDLLIAQHIIGNLSDQGLFLSSPEELSLQLEVSLETIDKVWKTIQHFHPLGIASPSLQDYWLLHLEGSPH
DLAYKIIKEHYSLLINCDFLRIAKKCHCSPSNLRYALKNALTTIPWCPAQGYASSSNIQPALPDVYVAKQDRVWEIQISS
QGLPPIKLNREVFHIYEQLPREEKKSLTQQILSAKWLIKNLRKREQTLFSIVEKILPHQENFLLGKTSCPKPLSVKILSE
ELPYHESTIFRAIENKTLAGPIGIIPLKHLFPRAVSPSDAQSKETILQWIHQWVASETIPLSDADISERISQQGIQCARR
TVAKYRTQLKILPAHKRKVHSQM

Sequences:

>Translated_423_residues
MLQHHQKLSLHYLPSLRMQQGLQILQSPITELSSYILQQIIHNPFFDISSLEEEEWSTCSSFSSLDASYSRPESLFSHLL
TQVQQTFDRSEDLLIAQHIIGNLSDQGLFLSSPEELSLQLEVSLETIDKVWKTIQHFHPLGIASPSLQDYWLLHLEGSPH
DLAYKIIKEHYSLLINCDFLRIAKKCHCSPSNLRYALKNALTTIPWCPAQGYASSSNIQPALPDVYVAKQDRVWEIQISS
QGLPPIKLNREVFHIYEQLPREEKKSLTQQILSAKWLIKNLRKREQTLFSIVEKILPHQENFLLGKTSCPKPLSVKILSE
ELPYHESTIFRAIENKTLAGPIGIIPLKHLFPRAVSPSDAQSKETILQWIHQWVASETIPLSDADISERISQQGIQCARR
TVAKYRTQLKILPAHKRKVHSQM
>Mature_423_residues
MLQHHQKLSLHYLPSLRMQQGLQILQSPITELSSYILQQIIHNPFFDISSLEEEEWSTCSSFSSLDASYSRPESLFSHLL
TQVQQTFDRSEDLLIAQHIIGNLSDQGLFLSSPEELSLQLEVSLETIDKVWKTIQHFHPLGIASPSLQDYWLLHLEGSPH
DLAYKIIKEHYSLLINCDFLRIAKKCHCSPSNLRYALKNALTTIPWCPAQGYASSSNIQPALPDVYVAKQDRVWEIQISS
QGLPPIKLNREVFHIYEQLPREEKKSLTQQILSAKWLIKNLRKREQTLFSIVEKILPHQENFLLGKTSCPKPLSVKILSE
ELPYHESTIFRAIENKTLAGPIGIIPLKHLFPRAVSPSDAQSKETILQWIHQWVASETIPLSDADISERISQQGIQCARR
TVAKYRTQLKILPAHKRKVHSQM

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=360, Percent_Identity=29.7222222222222, Blast_Score=144, Evalue=2e-35,

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: 48508; Mature: 48508

Theoretical pI: Translated: 7.91; Mature: 7.91

Prosite motif: PS00718 SIGMA54_2 ; PS50044 SIGMA54_3

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.7 %Cys     (Translated Protein)
0.7 %Met     (Translated Protein)
2.4 %Cys+Met (Translated Protein)
1.7 %Cys     (Mature Protein)
0.7 %Met     (Mature Protein)
2.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MLQHHQKLSLHYLPSLRMQQGLQILQSPITELSSYILQQIIHNPFFDISSLEEEEWSTCS
CCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHH
SFSSLDASYSRPESLFSHLLTQVQQTFDRSEDLLIAQHIIGNLSDQGLFLSSPEELSLQL
HHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCEEECCCHHEEEEE
EVSLETIDKVWKTIQHFHPLGIASPSLQDYWLLHLEGSPHDLAYKIIKEHYSLLINCDFL
EEEHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHEECCHHH
RIAKKCHCSPSNLRYALKNALTTIPWCPAQGYASSSNIQPALPDVYVAKQDRVWEIQISS
HHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEECCCCEEEEEECC
QGLPPIKLNREVFHIYEQLPREEKKSLTQQILSAKWLIKNLRKREQTLFSIVEKILPHQE
CCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
NFLLGKTSCPKPLSVKILSEELPYHESTIFRAIENKTLAGPIGIIPLKHLFPRAVSPSDA
CEEEECCCCCCCCEEEEEHHHCCCHHHHHHHHHHCCCCCCCCCCCCHHHHCCCCCCCCCC
QSKETILQWIHQWVASETIPLSDADISERISQQGIQCARRTVAKYRTQLKILPAHKRKVH
HHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHEECCHHHHHHH
SQM
CCC
>Mature Secondary Structure
MLQHHQKLSLHYLPSLRMQQGLQILQSPITELSSYILQQIIHNPFFDISSLEEEEWSTCS
CCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHH
SFSSLDASYSRPESLFSHLLTQVQQTFDRSEDLLIAQHIIGNLSDQGLFLSSPEELSLQL
HHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCEEECCCHHEEEEE
EVSLETIDKVWKTIQHFHPLGIASPSLQDYWLLHLEGSPHDLAYKIIKEHYSLLINCDFL
EEEHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHEECCHHH
RIAKKCHCSPSNLRYALKNALTTIPWCPAQGYASSSNIQPALPDVYVAKQDRVWEIQISS
HHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEECCCCEEEEEECC
QGLPPIKLNREVFHIYEQLPREEKKSLTQQILSAKWLIKNLRKREQTLFSIVEKILPHQE
CCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
NFLLGKTSCPKPLSVKILSEELPYHESTIFRAIENKTLAGPIGIIPLKHLFPRAVSPSDA
CEEEECCCCCCCCEEEEEHHHCCCHHHHHHHHHHCCCCCCCCCCCCHHHHCCCCCCCCCC
QSKETILQWIHQWVASETIPLSDADISERISQQGIQCARRTVAKYRTQLKILPAHKRKVH
HHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHEECCHHHHHHH
SQM
CCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 8113171; 10984043 [H]