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The map label for this gene is rpoD

Identifier: 15835519

GI number: 15835519

Start: 1047111

End: 1048826

Strand: Reverse

Name: rpoD

Synonym: TC0905

Alternate gene names: 15835519

Gene position: 1048826-1047111 (Counterclockwise)

Preceding gene: 15835520

Following gene: 15835518

Centisome position: 97.75

GC content: 41.9

Gene sequence:

>1716_bases
ATGCGCATGGATACGCTAGATAGTCAAGCTGCTGATGCAGCCCAAGAAGAAGAAATCCAAAGAAAGTTAGAAGAGCTAGT
CACTCTTGCTAAGGATCAAGGGTTCATCACGTATGAAGAAATTAATGAAATTCTTCCCCCTTCTTTCGATTCGCCAGAAC
AGATAGATCAAGTTTTAATTTTTCTGGCGGGGATGGACGTTCAAGTCTTAAACCAAGCAGACGTAGAGCGGCAGAAAGAA
AGAAAAAAAGAAGCTAAAGAGCTAGAAGGGTTGGCTAAGCGTTCTGAGGGAACGCCTGATGATCCAGTGCGTATGTATCT
GAAGGAAATGGGTACAGTTCCTCTTCTTACAAGAGAAGAGGAGGTGGAGATTTCTAAAAGGATAGAAAAAGCTCAGGTAC
AAATAGAAAGAATTATTTTACGCTTTCGTTATTCGACTAAAGAAGCGGTTTCTATTGCGCAATACTTAATTAATGGTAAG
GAACGATTTGATAAGATCGTTTCCGAAAAAGAGGTGGAAGATAAGACACATTTTCTTAATCTTTTGCCGAAGTTAATCTC
TTTGCTGAAAGAAGAGGACTCTTACTTAGAAGAGCGGCTTTTGGCTTTGAAAGATCCGGCACTGTCCAAGCAAGATCAAG
CAAAGTTGAACGATGAGCTTGAAAAATGCCGTATTCGAACACAAGCTTATCTGAGATGTTTTCATTGTCGTCACAATGTC
ACGGAAGATTTTGGAGAAGTTGTTTTTAAAGCTTATGACTCGTTCTTACAGTTGGAACAACAAATCAATGATTTAAAGGT
TCGTGCTGAAAGAAATAAGTTTGCTGCAGCAAAACTAGCTGCAGCCCGACGCAAGCTTTACAAACGAGAAGTTGCAGCGG
GACGTACTCTTGAAGAGTTTAAAAAAGATGTGCGGATGTTGCAGCGTTGGATGGATAAAAGCCAGGAAGCAAAGAAAGAG
ATGGTGGAATCCAACTTACGTTTGGTGATCTCTATCGCGAAAAAATATACCAACCGAGGGCTGTCTTTCTTGGATTTGAT
TCAAGAAGGAAATATGGGCTTAATGAAAGCTGTTGAAAAATTTGAGTATCGCCGGGGTTATAAATTTTCAACTTATGCCA
CTTGGTGGATTCGTCAGGCTGTGACGCGAGCTATTGCCGATCAGGCAAGAACCATTCGAATTCCTGTTCATATGATCGAG
ACCATTAATAAGGTGCTTCGTGGAGCCAAGAAATTAATGATGGAAACAGGAAAAGAGCCTACGCCCGAAGAACTCGGAGA
GGAACTAGGTTTCACTCCAGACCGTGTTCGAGAAATTTATAAGATCGCTCAGCATCCGATTTCTTTACAGGCTGAGGTTG
GAGATAGTGGAGAAAGCTCTTTTGGAGATTTCTTGGAAGATACAGCTGTTGAATCTCCGGCAGAGGCAACAGGCTACTCC
ATGTTGAAAGACAAAATGAAGGAAGTGCTAAAAACGCTTACTGATCGCGAACGTTTTGTTTTGATCCATCGGTTTGGCCT
TTTAGATGGCCGTCCCAAAACTTTGGAAGAGGTAGGCTCCGCGTTCAACGTGACACGAGAGCGGATTCGACAAATCGAAG
CCAAAGCTTTGCGAAAAATGCGTCATCCTATCCGTTCCAAACAGCTACGAGCATTCTTGGATTTATTGGAAGAAGAGAAG
ACTGGTTCGGGCAAGATTAAGAGTTATAAGAATTAA

Upstream 100 bases:

>100_bases
TCAGCTGGCTTTTTTATCTAAAAATCCCTAGATTTCTTGTTTTCCTTAAGATAAACTGTCACTTTCTAGGCCGATTTTTC
CTTAGTTTTAATTTGTTAGC

Downstream 100 bases:

>100_bases
GGATTCCTTTTCATAAGGAGTATGCTTGTATCGGTTAGACGTAACGAACTTTCGTGTTTGGGTATCTATAGGGGTCTCAG
AGCAGGAACGCTATCACAAG

Product: RNA polymerase sigma factor

Products: NA

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

Number of amino acids: Translated: 571; Mature: 571

Protein sequence:

>571_residues
MRMDTLDSQAADAAQEEEIQRKLEELVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLIFLAGMDVQVLNQADVERQKE
RKKEAKELEGLAKRSEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGK
ERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDSYLEERLLALKDPALSKQDQAKLNDELEKCRIRTQAYLRCFHCRHNV
TEDFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLAAARRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKE
MVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIE
TINKVLRGAKKLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVESPAEATGYS
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEK
TGSGKIKSYKN

Sequences:

>Translated_571_residues
MRMDTLDSQAADAAQEEEIQRKLEELVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLIFLAGMDVQVLNQADVERQKE
RKKEAKELEGLAKRSEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGK
ERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDSYLEERLLALKDPALSKQDQAKLNDELEKCRIRTQAYLRCFHCRHNV
TEDFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLAAARRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKE
MVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIE
TINKVLRGAKKLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVESPAEATGYS
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEK
TGSGKIKSYKN
>Mature_571_residues
MRMDTLDSQAADAAQEEEIQRKLEELVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLIFLAGMDVQVLNQADVERQKE
RKKEAKELEGLAKRSEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGK
ERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDSYLEERLLALKDPALSKQDQAKLNDELEKCRIRTQAYLRCFHCRHNV
TEDFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLAAARRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKE
MVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIE
TINKVLRGAKKLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVESPAEATGYS
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEK
TGSGKIKSYKN

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=61.1721611721612, Blast_Score=331, Evalue=6e-92,
Organism=Escherichia coli, GI1789098, Length=316, Percent_Identity=37.3417721518987, Blast_Score=207, Evalue=1e-54,
Organism=Escherichia coli, GI1789871, Length=249, Percent_Identity=27.3092369477912, Blast_Score=90, Evalue=5e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.2277227722772, Blast_Score=67, Evalue=2e-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: 66197; Mature: 66197

Theoretical pI: Translated: 8.36; Mature: 8.36

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
MRMDTLDSQAADAAQEEEIQRKLEELVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLI
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEHHHHHHHCCCCCCCHHHHHHHHH
FLAGMDVQVLNQADVERQKERKKEAKELEGLAKRSEGTPDDPVRMYLKEMGTVPLLTREE
HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHH
EVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLN
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH
LLPKLISLLKEEDSYLEERLLALKDPALSKQDQAKLNDELEKCRIRTQAYLRCFHCRHNV
HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
TEDFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLAAARRKLYKREVAAGRTLEEF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
KKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHH
FEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEP
HHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCC
TPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVESPAEATGYS
CHHHHHHHCCCCHHHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHCCCCHHHHHHH
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALRKM
HHHHHHHHHHHHHHCCHHEEHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPIRSKQLRAFLDLLEEEKTGSGKIKSYKN
HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
>Mature Secondary Structure
MRMDTLDSQAADAAQEEEIQRKLEELVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLI
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEHHHHHHHCCCCCCCHHHHHHHHH
FLAGMDVQVLNQADVERQKERKKEAKELEGLAKRSEGTPDDPVRMYLKEMGTVPLLTREE
HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHH
EVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLN
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH
LLPKLISLLKEEDSYLEERLLALKDPALSKQDQAKLNDELEKCRIRTQAYLRCFHCRHNV
HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
TEDFGEVVFKAYDSFLQLEQQINDLKVRAERNKFAAAKLAAARRKLYKREVAAGRTLEEF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
KKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHH
FEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEP
HHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCC
TPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVESPAEATGYS
CHHHHHHHCCCCHHHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHCCCCHHHHHHH
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIRQIEAKALRKM
HHHHHHHHHHHHHHCCHHEEHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPIRSKQLRAFLDLLEEEKTGSGKIKSYKN
HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC

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]