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The map label for this gene is rpoD [H]

Identifier: 239616750

GI number: 239616750

Start: 362395

End: 363612

Strand: Direct

Name: rpoD [H]

Synonym: Kole_0343

Alternate gene names: 239616750

Gene position: 362395-363612 (Clockwise)

Preceding gene: 239616749

Following gene: 239616751

Centisome position: 15.74

GC content: 39.74

Gene sequence:

>1218_bases
ATGGCAGATAAAAAGAATAAGGCAAAAATGGTGGAGGAACCAAAAGAAAAAAACTCTTCACAAAAGAAAACAACTGAAGT
AGTCATGCTTTCAGACAAAGAGGTTCAATCACGAATCAAAAAACTCGTTAAATTGGGAAAAAAGAAGGGTTATATAACCT
ATGAAGATATAGACAATGCCTTTCCCCCGGATTATGAGGGATTTGATTCTTCATTGGTTGAAGTAATCTACGAGGAATTA
GAAAAGAACAAGGTTCGAATACTGGAGAAAGAACCCACCGAGGATCAGGAAGAAAGCGGACAGGAAAATCCGGCCGAAGA
TATAGAAACACTTCTCGAAAGTGCTCCAGAGATGTATGACAACATATCTCTAAAAGATCCTATAAAGATGTATCTGAAAG
AAATTGGCAAGATCCCTCTGTTAACACCAAGTAAAGAAAGAGAATTGGCAAGGAGAGCACAAAAGGGTGATAAAAAAGCG
AGAGAAGAACTTATAACAGCTAATTTGCGTCTCGTTGTTTCTATCGCCAAAAGATATATAGGTAGAGGCTTATCTTTCCT
TGACCTTATACAGGAAGGAAATATAGGTCTCATAAAAGCTGTTGAAAAATTCGATTGGAAGAAAGGATACAAGTTCAGCA
CCTACGCTACCTGGTGGATCAGGCAGGCAATAACCCGTGCTATTGCTGACCAGGCAAGAACTATACGAGTTCCCGTACAC
ATGGTTGAAACCATCAACAAGGTGAACAAGGTGATCCGTGAACATCTTCAGGAACACGGAGAATATCCAACGGTTGAAGA
ATTGGGTAAATTAACAGGAAAAACCCCGGAAAAAATAGAAGAAATCCTTGCTGCTTCAAAAGAAACCGTTTCGCTCGAGT
CACCTATCAGCGGTGACGAAGAATCCACCATGGGAGATTTCGTTCATGATGAATCCATCGAAAAACCCGAAGAAGCAGCA
ATAAAAATGCTCCTGCGTGAGCAAATCGACGAAGTTTTAGATACTTTGAGCCCGAGGGAAGCCATGGTCTTGAAAATGAG
ATATGGTCTTCTCGATGGAAAAACAAAAACTTTAGAAGAGGTTGGACAATTCTTTAATGTTACCAGAGAAAGAATTAGAC
AGATTGAGGTTAAAGCTTTGAGAAAACTTAGACATCCGTCAAGAAGCAAACAGCTCAAAGCACTGCTTGGAATGCTAAAT
AGCTCAAAATCAGAGTAG

Upstream 100 bases:

>100_bases
CTTAGAAAAGTAATCGACCCAGCTATGAAAGAATCACTGATGATTCGTCGCATGGAACTCACAAGGTTACTAAAAAGAAC
CTTGAAGGGTGGTGAAGCTG

Downstream 100 bases:

>100_bases
CGCGTTTTGAATTCTATAAGCAACGTCCCCTTAATTTGCGTATCATTGATTAGAAAAAAGGATCAGATATAATCGAGTTG
AGAATAAAGGGGACGTGATA

Product: RNA polymerase, sigma 70 subunit, RpoD subfamily

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 405; Mature: 404

Protein sequence:

>405_residues
MADKKNKAKMVEEPKEKNSSQKKTTEVVMLSDKEVQSRIKKLVKLGKKKGYITYEDIDNAFPPDYEGFDSSLVEVIYEEL
EKNKVRILEKEPTEDQEESGQENPAEDIETLLESAPEMYDNISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKGDKKA
REELITANLRLVVSIAKRYIGRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVH
MVETINKVNKVIREHLQEHGEYPTVEELGKLTGKTPEKIEEILAASKETVSLESPISGDEESTMGDFVHDESIEKPEEAA
IKMLLREQIDEVLDTLSPREAMVLKMRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALLGMLN
SSKSE

Sequences:

>Translated_405_residues
MADKKNKAKMVEEPKEKNSSQKKTTEVVMLSDKEVQSRIKKLVKLGKKKGYITYEDIDNAFPPDYEGFDSSLVEVIYEEL
EKNKVRILEKEPTEDQEESGQENPAEDIETLLESAPEMYDNISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKGDKKA
REELITANLRLVVSIAKRYIGRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVH
MVETINKVNKVIREHLQEHGEYPTVEELGKLTGKTPEKIEEILAASKETVSLESPISGDEESTMGDFVHDESIEKPEEAA
IKMLLREQIDEVLDTLSPREAMVLKMRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALLGMLN
SSKSE
>Mature_404_residues
ADKKNKAKMVEEPKEKNSSQKKTTEVVMLSDKEVQSRIKKLVKLGKKKGYITYEDIDNAFPPDYEGFDSSLVEVIYEELE
KNKVRILEKEPTEDQEESGQENPAEDIETLLESAPEMYDNISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKGDKKAR
EELITANLRLVVSIAKRYIGRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVHM
VETINKVNKVIREHLQEHGEYPTVEELGKLTGKTPEKIEEILAASKETVSLESPISGDEESTMGDFVHDESIEKPEEAAI
KMLLREQIDEVLDTLSPREAMVLKMRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALLGMLNS
SKSE

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=259, Percent_Identity=57.9150579150579, Blast_Score=303, Evalue=9e-84,
Organism=Escherichia coli, GI1789098, Length=315, Percent_Identity=40.3174603174603, Blast_Score=230, Evalue=1e-61,
Organism=Escherichia coli, GI1789871, Length=273, Percent_Identity=31.1355311355311, Blast_Score=106, Evalue=2e-24,
Organism=Escherichia coli, GI1788231, Length=203, Percent_Identity=29.064039408867, Blast_Score=65, Evalue=5e-12,

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: 46420; Mature: 46289

Theoretical pI: Translated: 6.73; Mature: 6.73

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)
2.5 %Met     (Mature Protein)
2.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MADKKNKAKMVEEPKEKNSSQKKTTEVVMLSDKEVQSRIKKLVKLGKKKGYITYEDIDNA
CCCCCHHHHHHHCHHHCCCCHHHHHHEEEECCHHHHHHHHHHHHHHHCCCCEEHHCCCCC
FPPDYEGFDSSLVEVIYEELEKNKVRILEKEPTEDQEESGQENPAEDIETLLESAPEMYD
CCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHH
NISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKGDKKAREELITANLRLVVSIAKRYI
CCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHH
GRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVH
HCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHH
MVETINKVNKVIREHLQEHGEYPTVEELGKLTGKTPEKIEEILAASKETVSLESPISGDE
HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCHHHHHHHHHCCHHHEECCCCCCCCC
ESTMGDFVHDESIEKPEEAAIKMLLREQIDEVLDTLSPREAMVLKMRYGLLDGKTKTLEE
HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHH
VGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALLGMLNSSKSE
HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCC
>Mature Secondary Structure 
ADKKNKAKMVEEPKEKNSSQKKTTEVVMLSDKEVQSRIKKLVKLGKKKGYITYEDIDNA
CCCCHHHHHHHCHHHCCCCHHHHHHEEEECCHHHHHHHHHHHHHHHCCCCEEHHCCCCC
FPPDYEGFDSSLVEVIYEELEKNKVRILEKEPTEDQEESGQENPAEDIETLLESAPEMYD
CCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHH
NISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKGDKKAREELITANLRLVVSIAKRYI
CCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHH
GRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPVH
HCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHH
MVETINKVNKVIREHLQEHGEYPTVEELGKLTGKTPEKIEEILAASKETVSLESPISGDE
HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCHHHHHHHHHCCHHHEECCCCCCCCC
ESTMGDFVHDESIEKPEEAAIKMLLREQIDEVLDTLSPREAMVLKMRYGLLDGKTKTLEE
HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHH
VGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALLGMLNSSKSE
HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCC

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: 9.0

TargetDB status: NA

Availability: NA

References: 9045836; 10360571 [H]