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The map label for this gene is rpoD [H]

Identifier: 15674827

GI number: 15674827

Start: 642029

End: 643138

Strand: Direct

Name: rpoD [H]

Synonym: SPy_0782

Alternate gene names: 15674827

Gene position: 642029-643138 (Clockwise)

Preceding gene: 15674826

Following gene: 15674828

Centisome position: 34.66

GC content: 38.74

Gene sequence:

>1110_bases
ATGACAAAACAAAAAGAAATAACAACTTTTAACGTTCAAGTTGCGGAGTTTATTCGCCATCACAAAAAAGAAGGAACAGC
GATTGATGATGACGTGACCGAAAAACTTGTCATTCCATTTGCTTTGGATGCTGATCAGATTGATGACTTACTTGAGCGGT
TAACAGATGGTGGTATCTCGATTACGGATAAAGAAGGTAACCCATCATCAAAATACATTGTTGAAGAACCAAAACCAGAA
GAATTAACTGATGAAGAATTAATTGGTAGTAATTCAGCTAAAGTAAACGACCCTGTCCGCATGTACCTCAAAGAAATTGG
TGTGGTACCGCTTTTAACAAGTGAAGAGGAAAAAGAATTGGCTGTTGCGGTTGCCAAGGGAGATTTAATGGCTAAACAAC
GTTTAGCGGAAGCAAACCTTCGTCTTGTTGTCTCAATTGCAAAACGTTATGTTGGACGTGGAATGCAATTTCTTGATTTA
ATTCAAGAAGGTAACATGGGACTCATGAAAGCTGTTGATAAATTTGATTATTCAAAAGGATTCAAATTCTCAACTTATGC
AACATGGTGGATTCGTCAAGCTATAACACGCGCAATTGCAGATCAAGCACGTACGATTCGTATCCCTGTTCATATGGTTG
AAACCATTAATAAATTGGTTCGTGAACAACGTAACCTTCTTCAAGAACTTGGTCAAGATCCAACGCCAGAACAAATCGCA
GAACGTATGGAAATGACTCCAGACAAGGTTCGTGAAATTCTAAAAATTGCTCAAGAACCTGTTTCTTTAGAAACACCAAT
TGGGGAAGAAGATGATAGTCACTTAGGTGATTTTATCGAAGATGAAGTTATTGAAAATCCAGTAGATTATACGACGCGTG
TTGTTCTTCGTGAGCAATTGGATGAAGTTTTAGATACGCTTACTGACCGTGAAGAGAACGTTCTTCGCCTACGCTTTGGC
CTTGACGATGGTAAAATGCGTACGTTAGAGGACGTAGGTAAAGTCTTTAATGTTACTCGTGAGCGCATTCGACAGATTGA
AGCTAAAGCCCTTAGAAAACTTCGCCATCCTAGTCGTAGTAAACAATTAAGAGACTTTATAGAGGACTAA

Upstream 100 bases:

>100_bases
AAAAAGTTAGAGAATCTAGTAACAAAGGCGATCATCAAGCGGCTCTAGAAGTACTAGAACATTTTATTGCGCAGAAACGA
AAAATGGAATAGAGGAAATT

Downstream 100 bases:

>100_bases
AATCGTCCAGTGGACGATTTTAGGTCGTTCCTTTGAAATAAGAAAGGAGCGAAAATCCTAAGTGGCACTTATCAGCGGTA
CACCTACAAATTAGAAATCG

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 369; Mature: 368

Protein sequence:

>369_residues
MTKQKEITTFNVQVAEFIRHHKKEGTAIDDDVTEKLVIPFALDADQIDDLLERLTDGGISITDKEGNPSSKYIVEEPKPE
ELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAKGDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL
IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIA
ERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFG
LDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQLRDFIED

Sequences:

>Translated_369_residues
MTKQKEITTFNVQVAEFIRHHKKEGTAIDDDVTEKLVIPFALDADQIDDLLERLTDGGISITDKEGNPSSKYIVEEPKPE
ELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAKGDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDL
IQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIA
ERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFG
LDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQLRDFIED
>Mature_368_residues
TKQKEITTFNVQVAEFIRHHKKEGTAIDDDVTEKLVIPFALDADQIDDLLERLTDGGISITDKEGNPSSKYIVEEPKPEE
LTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAKGDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDLI
QEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAE
RMEMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGL
DDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQLRDFIED

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=239, Percent_Identity=69.4560669456067, Blast_Score=349, Evalue=2e-97,
Organism=Escherichia coli, GI1789098, Length=295, Percent_Identity=43.728813559322, Blast_Score=243, Evalue=1e-65,
Organism=Escherichia coli, GI1789871, Length=273, Percent_Identity=30.03663003663, Blast_Score=110, Evalue=1e-25,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=30.1980198019802, Blast_Score=72, Evalue=4e-14,

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: 42271; Mature: 42140

Theoretical pI: Translated: 4.68; Mature: 4.68

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.7 %Met     (Translated Protein)
2.7 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.4 %Met     (Mature Protein)
2.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTKQKEITTFNVQVAEFIRHHKKEGTAIDDDVTEKLVIPFALDADQIDDLLERLTDGGIS
CCCCCCEEEEHHHHHHHHHHHHHCCCCCCCHHHHHEEEEEECCHHHHHHHHHHHCCCCCE
ITDKEGNPSSKYIVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEKEL
EECCCCCCCCCEEECCCCCCCCCHHHHHCCCCCCCCHHHHHHHHHCCCCEEECCCCHHHH
AVAVAKGDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKG
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCHHHHHHHHHHCCCC
FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIA
CCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
ERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQL
HHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
DEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS
HHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
KQLRDFIED
HHHHHHHCC
>Mature Secondary Structure 
TKQKEITTFNVQVAEFIRHHKKEGTAIDDDVTEKLVIPFALDADQIDDLLERLTDGGIS
CCCCCEEEEHHHHHHHHHHHHHCCCCCCCHHHHHEEEEEECCHHHHHHHHHHHCCCCCE
ITDKEGNPSSKYIVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEKEL
EECCCCCCCCCEEECCCCCCCCCHHHHHCCCCCCCCHHHHHHHHHCCCCEEECCCCHHHH
AVAVAKGDLMAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKG
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCHHHHHHHHHHCCCC
FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIA
CCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
ERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQL
HHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
DEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS
HHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
KQLRDFIED
HHHHHHHCC

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: 9209063; 12397186 [H]