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The map label for this gene is rpoD [H]

Identifier: 222525449

GI number: 222525449

Start: 2783344

End: 2784381

Strand: Direct

Name: rpoD [H]

Synonym: Chy400_2197

Alternate gene names: 222525449

Gene position: 2783344-2784381 (Clockwise)

Preceding gene: 222525448

Following gene: 222525450

Centisome position: 52.83

GC content: 58.38

Gene sequence:

>1038_bases
ATGCTCAAGCGTCGATTGTCAACCTGGGAAAAAGAAGAAGTATCACTGCACACGCACGAGCGTGATGAACGTTTCGGGCA
CGAAGAAGAGATTCTCTCTCCCGATCTGAGCGATATCGAGCAGGTAGAGCCAACCCTTGACGCTGTTCAGCATTACCTGC
AAGAGATTGGCCGCGTCTCTCTTCTGACCGCTGCTGAAGAGATCGAGTTGGCCGAGCGTATTGAACGCGGTAATGAGGCT
GAAGCCCAGCTTGCTACAGCGACCGACCTGACGCCGCGAGAACGCTACGAACTCCTTCAGGCAGTTCAGCAGGGTGAAGA
GGCACGCCGCCATCTCATCCAGGCCAATTTGCGCCTGGTCGTGAGCATTGCCAAGAAGTATGTCGGGCGCGGTCTTGCGC
TGCTTGACCTGATCCAGGAAGGTAATATCGGTCTGATGCGTGCGGTGGAGAAGTTCGATTACCATAAGGGTAATCGCTTC
AGCACATACGCAACCTGGTGGATTCGCCAGGCGGTGACGCGGGCGATTGCCGAACAGGGGCGGACAATCCGGTTGCCGGT
GCATATGAGCGAGTCGGTTGGGCAGGTGAAGCGAATCGCCGAACGTCTGGCGCAATCGCTCGAACGTCAGCCGACGGCGG
AAGAGATTGCAATGGCGCTTGGCCAGCCGGTTGAGCGTATTCAGCGCATTCTCGAAGCGGCGCGTCGTCCGGTTTCGCTG
GAAACACCGGTCGGCGATGAAGGTGAGCACACACTTGGCGATTTTCTGACCGATGAAGAACTGCCGACACCGGGAGAAAT
GGCGGCTCAAAAGCTGCTGCGCCGCGATCTGTGTGCTGCCCTTGACCGCCTCAATGATCGGGAACGCCGGATCATCGATT
TGCGCTACGGTCTGGTTGATGGCCGGCGTCGGACGCTCGAAGAGGTAGGGCGTGTGCTCGGTATGACGCGCGAACGGGCA
CGGCAGATTGAAGCCGAGGCTCTGCGGCGCTTGCGTAGTCCTGAAGTCGGGCAGCATCTCCGCGATTATCTGGAGTAG

Upstream 100 bases:

>100_bases
TCGTTACGTGCTGGGCGCCTCTGTAGGCATTCTCCGCGTGAGCGGAGGGATTTTTGTTGTGTCTTGTCATAGCTGCATAG
TTAGGCAGGAGTGCCCGCCA

Downstream 100 bases:

>100_bases
TTGCACAAGACTCTGTTCGCCAACCTGTCTGGCCGTAGCCACACAACGATACCTGACGTGCGTTTGGGATGGGATTTCCC
CGGTATTGCCCAAACGCACG

Product: RpoD subfamily RNA polymerase sigma-70 subunit

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 345; Mature: 345

Protein sequence:

>345_residues
MLKRRLSTWEKEEVSLHTHERDERFGHEEEILSPDLSDIEQVEPTLDAVQHYLQEIGRVSLLTAAEEIELAERIERGNEA
EAQLATATDLTPRERYELLQAVQQGEEARRHLIQANLRLVVSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRF
STYATWWIRQAVTRAIAEQGRTIRLPVHMSESVGQVKRIAERLAQSLERQPTAEEIAMALGQPVERIQRILEAARRPVSL
ETPVGDEGEHTLGDFLTDEELPTPGEMAAQKLLRRDLCAALDRLNDRERRIIDLRYGLVDGRRRTLEEVGRVLGMTRERA
RQIEAEALRRLRSPEVGQHLRDYLE

Sequences:

>Translated_345_residues
MLKRRLSTWEKEEVSLHTHERDERFGHEEEILSPDLSDIEQVEPTLDAVQHYLQEIGRVSLLTAAEEIELAERIERGNEA
EAQLATATDLTPRERYELLQAVQQGEEARRHLIQANLRLVVSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRF
STYATWWIRQAVTRAIAEQGRTIRLPVHMSESVGQVKRIAERLAQSLERQPTAEEIAMALGQPVERIQRILEAARRPVSL
ETPVGDEGEHTLGDFLTDEELPTPGEMAAQKLLRRDLCAALDRLNDRERRIIDLRYGLVDGRRRTLEEVGRVLGMTRERA
RQIEAEALRRLRSPEVGQHLRDYLE
>Mature_345_residues
MLKRRLSTWEKEEVSLHTHERDERFGHEEEILSPDLSDIEQVEPTLDAVQHYLQEIGRVSLLTAAEEIELAERIERGNEA
EAQLATATDLTPRERYELLQAVQQGEEARRHLIQANLRLVVSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRF
STYATWWIRQAVTRAIAEQGRTIRLPVHMSESVGQVKRIAERLAQSLERQPTAEEIAMALGQPVERIQRILEAARRPVSL
ETPVGDEGEHTLGDFLTDEELPTPGEMAAQKLLRRDLCAALDRLNDRERRIIDLRYGLVDGRRRTLEEVGRVLGMTRERA
RQIEAEALRRLRSPEVGQHLRDYLE

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=281, Percent_Identity=45.5516014234875, Blast_Score=256, Evalue=1e-69,
Organism=Escherichia coli, GI1789098, Length=305, Percent_Identity=44.5901639344262, Blast_Score=236, Evalue=2e-63,
Organism=Escherichia coli, GI1789871, Length=244, Percent_Identity=28.6885245901639, Blast_Score=82, Evalue=4e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=62, Evalue=5e-11,

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: 39634; Mature: 39634

Theoretical pI: Translated: 5.55; Mature: 5.55

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
1.7 %Met     (Translated Protein)
2.0 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
1.7 %Met     (Mature Protein)
2.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MLKRRLSTWEKEEVSLHTHERDERFGHEEEILSPDLSDIEQVEPTLDAVQHYLQEIGRVS
CCCCHHCCCHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
LLTAAEEIELAERIERGNEAEAQLATATDLTPRERYELLQAVQQGEEARRHLIQANLRLV
HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRFSTYATWWIRQAVTRAIAEQG
HHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCC
RTIRLPVHMSESVGQVKRIAERLAQSLERQPTAEEIAMALGQPVERIQRILEAARRPVSL
CEEEEECCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCHHHHHHHHHHHHCCCCCC
ETPVGDEGEHTLGDFLTDEELPTPGEMAAQKLLRRDLCAALDRLNDRERRIIDLRYGLVD
CCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC
GRRRTLEEVGRVLGMTRERARQIEAEALRRLRSPEVGQHLRDYLE
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
>Mature Secondary Structure
MLKRRLSTWEKEEVSLHTHERDERFGHEEEILSPDLSDIEQVEPTLDAVQHYLQEIGRVS
CCCCHHCCCHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
LLTAAEEIELAERIERGNEAEAQLATATDLTPRERYELLQAVQQGEEARRHLIQANLRLV
HHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRFSTYATWWIRQAVTRAIAEQG
HHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCC
RTIRLPVHMSESVGQVKRIAERLAQSLERQPTAEEIAMALGQPVERIQRILEAARRPVSL
CEEEEECCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCHHHHHHHHHHHHCCCCCC
ETPVGDEGEHTLGDFLTDEELPTPGEMAAQKLLRRDLCAALDRLNDRERRIIDLRYGLVD
CCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC
GRRRTLEEVGRVLGMTRERARQIEAEALRRLRSPEVGQHLRDYLE
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC

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]