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The map label for this gene is rpoD [H]

Identifier: 125623388

GI number: 125623388

Start: 519868

End: 521211

Strand: Direct

Name: rpoD [H]

Synonym: llmg_0521

Alternate gene names: 125623388

Gene position: 519868-521211 (Clockwise)

Preceding gene: 125623387

Following gene: 125623389

Centisome position: 20.55

GC content: 38.32

Gene sequence:

>1344_bases
TTGGCAGCAAATAAAAAAAGAATAAGTCAAATTTCGAAAGAAACAGGAGTTCAAAACCGTGTCTTGGTTGAGAAAGCCCA
AGAAATTGGCTTACTTGTAAAATCACATTCAAGTTCAGTTGGACCTGGTGAGGAACGTCGTCTTCTTGAAGCATTAAATG
TTAAACCTGTTGTTGTTGAAAAGATGGATAGTCCTAAAACTTTAGCGAGAGTTGAAATCAAAGAAAATGGTGATACTTTT
AATGTAAAAGCTTATGAAAAAGCAGTTAAAGGCTATATTACCAAACGTAAACCTTTGGGTGAAGCGCTTGATGAAGAAAT
CATGGATGAGCTTTCTGTTAAATTTGGAATTGTGGATGATGCTCTTGAAGATTTGTTCAAACAAATTCAAGATGCAGGAA
TTTCAATTGTGGATAAAGATGGAAATCCAAGTCCTTTGGCTCTTGTGACTGATGAAATTGAAAAAGAAGAAGTTTCAGAT
ACTGCAATGGATGAAATCGTTACGAATGTTCGTATTGATGATCCTGTTCGTATGTATCTTAAAGAAATCGGTCGTTATCC
ATTGATTTCTCTTGATGAAGAAACAAAACTTGCTGAAGCAATTATTGCTGGTGGTGAAGGGGCAGAATTTGCGAAACAAA
TGCTTGCCGAAGCCAACTTGCGTTTGGTTGTTTCAATTGCAAAACGTTATTCTGGACGTGGAATGCAATTTTTGGATTTG
ATTCAAGAAGGAAATATGGGCTTGATGAAAGCTGTGGATAAGTTTGACCACACGAAAGGATTCAAGTTCTCAACCTATGC
AACTTGGTGGATTCGCCAAGCGATTACACGTGCAATTGCTGACCAAGCCCGCACGATTCGTATTCCAGTGCATATGGTTG
AAACAATCAATAAATTGATTCGTGTTCAACGTAATCTTTTGCAAGAACTCGGACGCGACCCTTCACCTGAAGAAATTGGT
AAAGAGTTGCACATGGCGCCAGATAAGGTTCGTGAAGTTCTGAAAATTGCTCAAGAACCAGTATCACTCGAAACACCTAT
TGGTGAAGAAGATGATTCTCATCTTGGTGACTTCATTGAGGATGATGTCATCGAATCACCTGTTGATTATACAAACCGTA
TTCTTTTACGTGAACAGTTAGATGAAGTGATGGACACTTTGACTGACCGTGAAGAAAATGTTTTGAGAATGCGTTTCGGT
CTTGATGATGGACGGATGCATACTTTGGAAGATGTTGGAAAACAATTCAAAGTGACTCGTGAACGTATTCGTCAAATTGA
AGCAAAAGCAATCAAAAAACTTCGTCACCCACGTCGTTCTAAACCATTGCGTGACTTTATGTAA

Upstream 100 bases:

>100_bases
ATTAATCAAAAGAAAAAATTATAATATTTTTTTACTGACAATTGGCTAGTCTATTTAATGACAGTTTTGTCAGTAGTTTT
ACCCAAAGAGGAGGATCGAA

Downstream 100 bases:

>100_bases
TTTAAAAACTTACTGATACAATTGTCAGTAAGTTTTTTTATATTTTTTTAGAAATTATAGTTACTAAGAGTCAACAATTT
TTATCCAGAGGAGTTTTATG

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 447; Mature: 446

Protein sequence:

>447_residues
MAANKKRISQISKETGVQNRVLVEKAQEIGLLVKSHSSSVGPGEERRLLEALNVKPVVVEKMDSPKTLARVEIKENGDTF
NVKAYEKAVKGYITKRKPLGEALDEEIMDELSVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSD
TAMDEIVTNVRIDDPVRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDL
IQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIG
KELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFG
LDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM

Sequences:

>Translated_447_residues
MAANKKRISQISKETGVQNRVLVEKAQEIGLLVKSHSSSVGPGEERRLLEALNVKPVVVEKMDSPKTLARVEIKENGDTF
NVKAYEKAVKGYITKRKPLGEALDEEIMDELSVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSD
TAMDEIVTNVRIDDPVRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDL
IQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIG
KELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFG
LDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM
>Mature_446_residues
AANKKRISQISKETGVQNRVLVEKAQEIGLLVKSHSSSVGPGEERRLLEALNVKPVVVEKMDSPKTLARVEIKENGDTFN
VKAYEKAVKGYITKRKPLGEALDEEIMDELSVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDT
AMDEIVTNVRIDDPVRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLI
QEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGK
ELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGL
DDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM

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=244, Percent_Identity=65.983606557377, Blast_Score=342, Evalue=2e-95,
Organism=Escherichia coli, GI1789098, Length=288, Percent_Identity=39.9305555555556, Blast_Score=219, Evalue=3e-58,
Organism=Escherichia coli, GI1789871, Length=274, Percent_Identity=31.3868613138686, Blast_Score=114, Evalue=1e-26,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=29.2079207920792, Blast_Score=65, Evalue=1e-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:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

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

EC number: NA

Molecular weight: Translated: 50726; Mature: 50595

Theoretical pI: Translated: 5.11; Mature: 5.11

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
3.4 %Met     (Translated Protein)
3.4 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
3.1 %Met     (Mature Protein)
3.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAANKKRISQISKETGVQNRVLVEKAQEIGLLVKSHSSSVGPGEERRLLEALNVKPVVVE
CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEE
KMDSPKTLARVEIKENGDTFNVKAYEKAVKGYITKRKPLGEALDEEIMDELSVKFGIVDD
CCCCCCCEEEEEEECCCCEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCHHHH
ALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMDEIVTNVRIDDPVRMYL
HHHHHHHHHHHCCCEEEECCCCCCCEEEEHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
KEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDL
HHHCCCCEEECCHHHHHHHHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHH
IQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI
HHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHH
RVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHLGDFIE
HHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHH
DDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTR
HHHHCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHEECCCCCCCHHHHHHHHHHHHHH
ERIRQIEAKAIKKLRHPRRSKPLRDFM
HHHHHHHHHHHHHHHCCCCCCCHHHCC
>Mature Secondary Structure 
AANKKRISQISKETGVQNRVLVEKAQEIGLLVKSHSSSVGPGEERRLLEALNVKPVVVE
CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEE
KMDSPKTLARVEIKENGDTFNVKAYEKAVKGYITKRKPLGEALDEEIMDELSVKFGIVDD
CCCCCCCEEEEEEECCCCEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCHHHH
ALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMDEIVTNVRIDDPVRMYL
HHHHHHHHHHHCCCEEEECCCCCCCEEEEHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
KEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDL
HHHCCCCEEECCHHHHHHHHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHH
IQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLI
HHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHH
RVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHLGDFIE
HHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHH
DDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTR
HHHHCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHEECCCCCCCHHHHHHHHHHHHHH
ERIRQIEAKAIKKLRHPRRSKPLRDFM
HHHHHHHHHHHHHHHCCCCCCCHHHCC

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: 7503808; 11337471 [H]