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The map label for this gene is rpoD [H]

Identifier: 89897819

GI number: 89897819

Start: 10911

End: 12623

Strand: Direct

Name: rpoD [H]

Synonym: CF0012

Alternate gene names: 89897819

Gene position: 10911-12623 (Clockwise)

Preceding gene: 89897818

Following gene: 89897820

Centisome position: 0.94

GC content: 41.74

Gene sequence:

>1713_bases
ATGAATACACAAAATGGCCAGGCTACGGAAGCGGCTCATGAAGAAGAAGCTCAGAAAAAGTTAGAGGAACTTGTTTCTCT
AGCTAAGGATCAAGGCTTTATCACTTACGAGGAGATCAACGAGATCCTTCCAATGTCATTCGACACACCTGAACAAATTG
ATCAGGTGCTGATTTTTCTTGCGGGAATGGATATCCAAGTCTTGAATCAGGCTGATGTTGAACGACAAAAAGAAAGAAAA
AAAGAGGCCAAAGAGTTAGAGGGGTTAGCCAGGCGCACAGAGGGAACACCAGACGATCCTGTGCGCATGTACCTAAAAGA
AATGGGAACAGTTCCTCTTTTAACTAGAGAGGAAGAAGTTGAGATTTCTAAGAGAATAGAGAAGGCCCAAGTTCAGATCG
AACGTATTATTTTACGTTTTCGTTATTCCTCGAAAGAGGCGATTTCTATCGCGCAGTATCTGATTAATGGTAAAGAGCGT
TTTGATAAAATTATTTCAGAAAAAGAAGTTGAAGACAAAGCGCATTTCATAAAATTGCTCCCTAAATTGATAACTTTGCT
TAAAGAAGAGGACGCGTATTTAGAGTCTCTGCTTTTAGCTTTAAAGCAAAATAATTTGTCTAAACAAGAGGCTGCAAAGT
TAAGCGATGATTTAGAAAAGTGTCGTATCCGTACGCAAGCATATCTGCGTTGTCTCCATTGTCGTCACAATGTTACCGAA
GATTTTGGTGAGGTTGTCTTTAAGGCATACGATTCTTTCCTACAATTAGAGCAGCAAATTAATGATTTGAAGGTTCGGGC
GGAAAGGAATAAGTTTGCTGCGGCAAAATTAGATGCGGCTAAGCGTAGATTATACAAGAGAGAGGTTGCTGCGGGAAGAA
CTCTAGAGGAGTTCAAAAAAGACGTGCGTATGTTGCAACGGTGGATGGACAAGAGCCAAGAGGCCAAAAAAGAAATGGTT
GAGTCCAACCTCCGTTTAGTGATTTCTATAGCTAAAAAATATACCAACCGAGGGTTGTCTTTCTTAGATTTGATTCAGGA
GGGCAATATGGGTTTGATGAAGGCTGTAGAAAAATTTGAATATCGCAGAGGATATAAATTTTCTACCTATGCCACCTGGT
GGATCCGGCAAGCGGTTACTCGGGCCATTGCGGATCAGGCACGAACTATTCGTATTCCAGTACACATGATTGAAACCATA
AACAAGGTTCTTCGTGGTGCAAAAAAATTAATGATGGAAACAGGTAAAGAGCCTACTCCAGAAGAGTTGGCGGAGGAATT
AGGTTTAACTCCTGATCGGGTGCGGGAAATTTATAAAATTGCCCAACATCCAATCTCTTTACAGGCAGAAGTTGGTGAAG
GAGGAGAAAGCTCCTTCGGAGACTTCCTAGAAGATACCGGAGTGGAGTCTCCAGCAGAGGCCACCGGCTATTCTATGCTG
AAAGATAAGATGAAAGAGGTTTTAAAAACCCTTACAGATCGTGAGCGCTTTGTTTTGATTCATCGTTTTGGTCTTTTAGA
TGGAAAGCCTAAAACTCTTGAGGAGGTTGGTTCAGCGTTTAACGTGACTCGAGAGCGTATTCGTCAGATTGAAGCTAAGG
CTTTAAGGAAGATGCGACATCCGATTCGTTCCAAACAGCTGCGAGCCTTCCTTGATCTTTTGGAAGAGGAAAAAACGGGC
TCTGGTAAAGCAAAAAATATCAGAGGCAAGTAA

Upstream 100 bases:

>100_bases
GCATATTAAAAATCCCTAGATTTCCTATCTTTCTTTGGCTAAACTGTTACCCAAAGGCTAGGGCCCTATTATTTTGTTGC
AACCCAATAATTACATGCTC

Downstream 100 bases:

>100_bases
CTAAACTTATTTTATAACTTTTAGGTGTTACCGCAGAACAGTATCAGTTAATTATACAAGATTTTCGTGTGTGGGTGCGT
CTTGGAAGCACTCCAGAAGA

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-A; Sigma-66; Sigma-70 [H]

Number of amino acids: Translated: 570; Mature: 570

Protein sequence:

>570_residues
MNTQNGQATEAAHEEEAQKKLEELVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLAGMDIQVLNQADVERQKERK
KEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSSKEAISIAQYLINGKER
FDKIISEKEVEDKAHFIKLLPKLITLLKEEDAYLESLLLALKQNNLSKQEAAKLSDDLEKCRIRTQAYLRCLHCRHNVTE
DFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMV
ESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETI
NKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSML
KDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEKTG
SGKAKNIRGK

Sequences:

>Translated_570_residues
MNTQNGQATEAAHEEEAQKKLEELVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLAGMDIQVLNQADVERQKERK
KEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSSKEAISIAQYLINGKER
FDKIISEKEVEDKAHFIKLLPKLITLLKEEDAYLESLLLALKQNNLSKQEAAKLSDDLEKCRIRTQAYLRCLHCRHNVTE
DFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMV
ESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETI
NKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSML
KDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEKTG
SGKAKNIRGK
>Mature_570_residues
MNTQNGQATEAAHEEEAQKKLEELVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLAGMDIQVLNQADVERQKERK
KEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSSKEAISIAQYLINGKER
FDKIISEKEVEDKAHFIKLLPKLITLLKEEDAYLESLLLALKQNNLSKQEAAKLSDDLEKCRIRTQAYLRCLHCRHNVTE
DFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMV
ESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETI
NKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSML
KDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEKTG
SGKAKNIRGK

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=273, Percent_Identity=60.8058608058608, Blast_Score=330, Evalue=1e-91,
Organism=Escherichia coli, GI1789098, Length=317, Percent_Identity=38.1703470031546, Blast_Score=210, Evalue=2e-55,
Organism=Escherichia coli, GI1789871, Length=246, Percent_Identity=28.0487804878049, Blast_Score=92, Evalue=7e-20,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.2277227722772, Blast_Score=67, Evalue=3e-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: 65832; Mature: 65832

Theoretical pI: Translated: 9.02; Mature: 9.02

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
2.8 %Met     (Translated Protein)
3.3 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.8 %Met     (Mature Protein)
3.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MNTQNGQATEAAHEEEAQKKLEELVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFL
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEHHHHHHHCCCCCCCHHHHHHHHHHH
AGMDIQVLNQADVERQKERKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEV
HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHHHH
EISKRIEKAQVQIERIILRFRYSSKEAISIAQYLINGKERFDKIISEKEVEDKAHFIKLL
HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH
PKLITLLKEEDAYLESLLLALKQNNLSKQEAAKLSDDLEKCRIRTQAYLRCLHCRHNVTE
HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
DFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHH
YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP
HHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCH
EELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSML
HHHHHHHCCCHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHCCCCCCHHHHHHHHH
KDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRH
HHHHHHHHHHHHCCHHEEHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
PIRSKQLRAFLDLLEEEKTGSGKAKNIRGK
HHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
>Mature Secondary Structure
MNTQNGQATEAAHEEEAQKKLEELVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFL
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEHHHHHHHCCCCCCCHHHHHHHHHHH
AGMDIQVLNQADVERQKERKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEV
HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHHHH
EISKRIEKAQVQIERIILRFRYSSKEAISIAQYLINGKERFDKIISEKEVEDKAHFIKLL
HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH
PKLITLLKEEDAYLESLLLALKQNNLSKQEAAKLSDDLEKCRIRTQAYLRCLHCRHNVTE
HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
DFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHH
YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP
HHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCH
EELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSML
HHHHHHHCCCHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHCCCCCCHHHHHHHHH
KDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRH
HHHHHHHHHHHHCCHHEEHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
PIRSKQLRAFLDLLEEEKTGSGKAKNIRGK
HHHHHHHHHHHHHHHHHCCCCCCCCCCCCC

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: 10192388; 10684935; 10871362 [H]