Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 220932606

GI number: 220932606

Start: 1894305

End: 1894934

Strand: Reverse

Name: rpoD [H]

Synonym: Hore_17700

Alternate gene names: 220932606

Gene position: 1894934-1894305 (Counterclockwise)

Preceding gene: 220932607

Following gene: 220932605

Centisome position: 73.5

GC content: 39.37

Gene sequence:

>630_bases
ATGATAAATGATTATCTAAAACAGTTAGGAAAAATAAAGATACTTGAAGCTGAAGAGGAAAAAGAGTTATGGATAAAATA
CAAAGACTATAATGACACAGAAGCCCGGCAGAGGTTGATAACTTCTTATCAGCCTCTGGTATTTAAAATAGTAAGACAGT
ACGCCCGGGATAATGAGGTGGTTATGGACCTTATTCAGGAGGGGACTCTGGGACTTATTGATGCTATTGATTCATATGAT
CATAAAAGGGGCAAGTCTTTTTCCAGTTATGCCCTTTATTATATCAGGGGCAGGGTTATTAACTATCTTAAAAAAGCTCC
AGCCTGTTCTATTCCTGCTGAACTGAGGGCAGCAGGTTCTGAGTTTCTTGAACAACTGGTTACTGAAGGGGACGACCTGG
AAGACAGGGTTGAAAAAAATTTAGTAATGGACAGGATAAAAAAAGCAGTCGGTTCCCTGCCCTCCCGTGAAGGTTATATT
ATCAGGGAAATCTATTTAAAGGATAAAAAACCCAAAAAAGTTGCCGGAGAAATGGGGATAAGCCTGTCATATTTACACCG
CTTAAAAAAGAAAGCTGTTAGAAGATTACGGGGGAAATTATCCTGGTCTGTATACCGGGGTCTTCTGTAA

Upstream 100 bases:

>100_bases
CAGTTTTTGAGGGAAGCTGGCATGGTGAAGATGATTACAGGCTGAGCATTGAAACCAATCTTAAATTTTAAACAAAATCT
TAAATAAGGAGAAGTCCCTG

Downstream 100 bases:

>100_bases
AATGATTCCGGCGGTTTTTAGTATTTTAATAAATGATTTTGTAGCTGGTATAATTGATAACGGGAATAAATTTAAGAAAT
TAAGTGTTGTTATATAGTTT

Product: FliA/WhiG family RNA polymerase sigma-28 subunit

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 209; Mature: 209

Protein sequence:

>209_residues
MINDYLKQLGKIKILEAEEEKELWIKYKDYNDTEARQRLITSYQPLVFKIVRQYARDNEVVMDLIQEGTLGLIDAIDSYD
HKRGKSFSSYALYYIRGRVINYLKKAPACSIPAELRAAGSEFLEQLVTEGDDLEDRVEKNLVMDRIKKAVGSLPSREGYI
IREIYLKDKKPKKVAGEMGISLSYLHRLKKKAVRRLRGKLSWSVYRGLL

Sequences:

>Translated_209_residues
MINDYLKQLGKIKILEAEEEKELWIKYKDYNDTEARQRLITSYQPLVFKIVRQYARDNEVVMDLIQEGTLGLIDAIDSYD
HKRGKSFSSYALYYIRGRVINYLKKAPACSIPAELRAAGSEFLEQLVTEGDDLEDRVEKNLVMDRIKKAVGSLPSREGYI
IREIYLKDKKPKKVAGEMGISLSYLHRLKKKAVRRLRGKLSWSVYRGLL
>Mature_209_residues
MINDYLKQLGKIKILEAEEEKELWIKYKDYNDTEARQRLITSYQPLVFKIVRQYARDNEVVMDLIQEGTLGLIDAIDSYD
HKRGKSFSSYALYYIRGRVINYLKKAPACSIPAELRAAGSEFLEQLVTEGDDLEDRVEKNLVMDRIKKAVGSLPSREGYI
IREIYLKDKKPKKVAGEMGISLSYLHRLKKKAVRRLRGKLSWSVYRGLL

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium [H]

COG id: COG0568

COG function: function code K; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-70 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789098, Length=92, Percent_Identity=41.304347826087, Blast_Score=67, Evalue=7e-13,

Paralogues:

None

Copy number: <10 (log phase) 250 (stationary phase) [C]

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 24283; Mature: 24283

Theoretical pI: Translated: 9.90; Mature: 9.90

Prosite motif: PS00715 SIGMA70_1

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
1.9 %Met     (Translated Protein)
2.4 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
2.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MINDYLKQLGKIKILEAEEEKELWIKYKDYNDTEARQRLITSYQPLVFKIVRQYARDNEV
CCHHHHHHHCCEEEEECCCCCCEEEEECCCCCHHHHHHHHHHCCHHHHHHHHHHHCCHHH
VMDLIQEGTLGLIDAIDSYDHKRGKSFSSYALYYIRGRVINYLKKAPACSIPAELRAAGS
HHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH
EFLEQLVTEGDDLEDRVEKNLVMDRIKKAVGSLPSREGYIIREIYLKDKKPKKVAGEMGI
HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCEEEHHHHHCCCCCHHHHHHHCC
SLSYLHRLKKKAVRRLRGKLSWSVYRGLL
HHHHHHHHHHHHHHHHHHHHHHHHHHCCC
>Mature Secondary Structure
MINDYLKQLGKIKILEAEEEKELWIKYKDYNDTEARQRLITSYQPLVFKIVRQYARDNEV
CCHHHHHHHCCEEEEECCCCCCEEEEECCCCCHHHHHHHHHHCCHHHHHHHHHHHCCHHH
VMDLIQEGTLGLIDAIDSYDHKRGKSFSSYALYYIRGRVINYLKKAPACSIPAELRAAGS
HHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH
EFLEQLVTEGDDLEDRVEKNLVMDRIKKAVGSLPSREGYIIREIYLKDKKPKKVAGEMGI
HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCEEEHHHHHCCCCCHHHHHHHCC
SLSYLHRLKKKAVRRLRGKLSWSVYRGLL
HHHHHHHHHHHHHHHHHHHHHHHHHHCCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 9209063; 12397186 [H]