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The map label for this gene is rpoD [H]

Identifier: 221633247

GI number: 221633247

Start: 1250477

End: 1251499

Strand: Reverse

Name: rpoD [H]

Synonym: trd_1265

Alternate gene names: 221633247

Gene position: 1251499-1250477 (Counterclockwise)

Preceding gene: 221633251

Following gene: 221633245

Centisome position: 62.48

GC content: 64.03

Gene sequence:

>1023_bases
ATGACGCAGGAGCGCGAGCGACGGGAGACCAGCCGGCGCCGGCGAAGTGGAACGAGCCGGTCGGTGGAGCGGGAAGCGAG
CGAAGCGTTTGCCGAGGAGCGAGCGATCGAGCCGGTCGAAGCGGAAATCGTCGAGCCCGAGGCGCTCCTCAGCGACGCGG
AACTGGAAGATCTCTTCCGGAGCGATCCTTCGCTGGCCAGCGATCCCCTGCGGCTCTACCTGCGGGACATCGCTGAGGCA
CCGTTGCTCACGCCCGAAGAGGAAGTCGAGCTCGCCAAGCGCATCAAGGAGGGGGATACCGAGGCGCTGCAACGCTTCGT
CCGCTCGAATCTACGGTTGGTGGTCAGCATCGCGAAGCGCTATGTTGGGCGGGGGCTGTCGCTCCTCGATCTCATTCAGG
AGGGAAACATCGGGCTCATGCGGGCAGTCGAGAAGTTCGACTGGCGCCGGGGATATCGTTTCAGCACCTATGCGACCTGG
TGGATTCGCCAGGCGATCACGCGTGCGATCGCTGATCAGGGTCGGACGATCCGCTTGCCGGTCCACATGACTGACTCCAT
CACTCGCTACCACCGGACGACGACGCAACTCGCGCAGGAACTGGGGCGGCAGCCGACACCGGAAGAGATCGCAGAAGCGA
TGAGCGTGCAGCCGGAAAAGATCGCGCAGATCGTCCGGGCCGCGCAGCGGGCCGTTTCCTTGGATCAACCGCTCAGTGAG
GAGGACGAGACGAGTCTCGGCGATCTCATCGCTGACGAGTTGGCGCAGTCGCCCGAGGAACTCGCCGAGGAGTCGCTGAT
GCGGCGCGATATCGCTGAAATTCTGGAAATGCTGACGCCGCGCGAACGACTGGTCCTCCAGTTGCGATACGGTCTCTCGG
ATGGTGAGCCACGGACGCTCGCCGAAGTCGGGGATCTCCTCGGCATCAGTCGCGAGCGTGTCCGGCAGATCGAAAACGAG
GCACTCCGAAAGCTGCGGCGTATCGCTCGCGAGCGGCTCGCTGAGTATTACGCGGGGATCTGA

Upstream 100 bases:

>100_bases
GAAATCCCCCTCCCCTGACCTCGACGACTCGGCACCGTTACCCTGGGTCGATGACGGGTGACGGGGGTGAGGGGCACGGG
ATCGATGCTGGAGGATGTGC

Downstream 100 bases:

>100_bases
GCTGCTGGGAAAAAGAGCGCACCCGCCCGCGCTGGGCGGGGCATCAGGAGTCCAGTCGGCGCTCCCGGCTAGTCGTGATA
GCCGTTCGCTCTCGCGGCAC

Product: RNA polymerase sigma factor rpoD

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 340; Mature: 339

Protein sequence:

>340_residues
MTQERERRETSRRRRSGTSRSVEREASEAFAEERAIEPVEAEIVEPEALLSDAELEDLFRSDPSLASDPLRLYLRDIAEA
PLLTPEEEVELAKRIKEGDTEALQRFVRSNLRLVVSIAKRYVGRGLSLLDLIQEGNIGLMRAVEKFDWRRGYRFSTYATW
WIRQAITRAIADQGRTIRLPVHMTDSITRYHRTTTQLAQELGRQPTPEEIAEAMSVQPEKIAQIVRAAQRAVSLDQPLSE
EDETSLGDLIADELAQSPEELAEESLMRRDIAEILEMLTPRERLVLQLRYGLSDGEPRTLAEVGDLLGISRERVRQIENE
ALRKLRRIARERLAEYYAGI

Sequences:

>Translated_340_residues
MTQERERRETSRRRRSGTSRSVEREASEAFAEERAIEPVEAEIVEPEALLSDAELEDLFRSDPSLASDPLRLYLRDIAEA
PLLTPEEEVELAKRIKEGDTEALQRFVRSNLRLVVSIAKRYVGRGLSLLDLIQEGNIGLMRAVEKFDWRRGYRFSTYATW
WIRQAITRAIADQGRTIRLPVHMTDSITRYHRTTTQLAQELGRQPTPEEIAEAMSVQPEKIAQIVRAAQRAVSLDQPLSE
EDETSLGDLIADELAQSPEELAEESLMRRDIAEILEMLTPRERLVLQLRYGLSDGEPRTLAEVGDLLGISRERVRQIENE
ALRKLRRIARERLAEYYAGI
>Mature_339_residues
TQERERRETSRRRRSGTSRSVEREASEAFAEERAIEPVEAEIVEPEALLSDAELEDLFRSDPSLASDPLRLYLRDIAEAP
LLTPEEEVELAKRIKEGDTEALQRFVRSNLRLVVSIAKRYVGRGLSLLDLIQEGNIGLMRAVEKFDWRRGYRFSTYATWW
IRQAITRAIADQGRTIRLPVHMTDSITRYHRTTTQLAQELGRQPTPEEIAEAMSVQPEKIAQIVRAAQRAVSLDQPLSEE
DETSLGDLIADELAQSPEELAEESLMRRDIAEILEMLTPRERLVLQLRYGLSDGEPRTLAEVGDLLGISRERVRQIENEA
LRKLRRIARERLAEYYAGI

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: Essential [C]

Operon status: Not Known

Operon components: None

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

Homologues:

Organism=Escherichia coli, GI1789448, Length=260, Percent_Identity=48.4615384615385, Blast_Score=253, Evalue=1e-68,
Organism=Escherichia coli, GI1789098, Length=261, Percent_Identity=49.4252873563218, Blast_Score=248, Evalue=4e-67,
Organism=Escherichia coli, GI1789871, Length=284, Percent_Identity=31.6901408450704, Blast_Score=109, Evalue=3e-25,
Organism=Escherichia coli, GI1788231, Length=200, Percent_Identity=32, Blast_Score=76, Evalue=3e-15,

Paralogues:

None

Copy number: 700 (log & 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: 39006; Mature: 38875

Theoretical pI: Translated: 4.79; Mature: 4.79

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
1.8 %Met     (Translated Protein)
1.8 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.5 %Met     (Mature Protein)
1.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTQERERRETSRRRRSGTSRSVEREASEAFAEERAIEPVEAEIVEPEALLSDAELEDLFR
CCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHC
SDPSLASDPLRLYLRDIAEAPLLTPEEEVELAKRIKEGDTEALQRFVRSNLRLVVSIAKR
CCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
YVGRGLSLLDLIQEGNIGLMRAVEKFDWRRGYRFSTYATWWIRQAITRAIADQGRTIRLP
HHHCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEE
VHMTDSITRYHRTTTQLAQELGRQPTPEEIAEAMSVQPEKIAQIVRAAQRAVSLDQPLSE
ECHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCC
EDETSLGDLIADELAQSPEELAEESLMRRDIAEILEMLTPRERLVLQLRYGLSDGEPRTL
CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCHHH
AEVGDLLGISRERVRQIENEALRKLRRIARERLAEYYAGI
HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
>Mature Secondary Structure 
TQERERRETSRRRRSGTSRSVEREASEAFAEERAIEPVEAEIVEPEALLSDAELEDLFR
CCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHC
SDPSLASDPLRLYLRDIAEAPLLTPEEEVELAKRIKEGDTEALQRFVRSNLRLVVSIAKR
CCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
YVGRGLSLLDLIQEGNIGLMRAVEKFDWRRGYRFSTYATWWIRQAITRAIADQGRTIRLP
HHHCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEE
VHMTDSITRYHRTTTQLAQELGRQPTPEEIAEAMSVQPEKIAQIVRAAQRAVSLDQPLSE
ECHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCC
EDETSLGDLIADELAQSPEELAEESLMRRDIAEILEMLTPRERLVLQLRYGLSDGEPRTL
CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCHHH
AEVGDLLGISRERVRQIENEALRKLRRIARERLAEYYAGI
HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 8914262; 12663927 [H]