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The map label for this gene is rpoD [H]

Identifier: 116514979

GI number: 116514979

Start: 37456

End: 39297

Strand: Reverse

Name: rpoD [H]

Synonym: BCc_034

Alternate gene names: 116514979

Gene position: 39297-37456 (Counterclockwise)

Preceding gene: 116514980

Following gene: 116514974

Centisome position: 9.44

GC content: 24.38

Gene sequence:

>1842_bases
ATGAAAAAAAAACCAAAATCACAATTAAAATTATTAGTCTCTCATGGAAAAGAACAAGGATATTTAACATATTCAGAAGT
ACATGATCATTTACCAAATGATATTGTTGATGCTGATCAAATTAAAAATATTATACAAATGATAAAAGATCTGGGTATTC
AAATAGTAGAAGAAGTTCGTGAAATAGAAGAACTAATAATTAATGAAGCTCCTACTGATACAGATGAAGATACCGTAGAA
GCAGCTACACAAGTTTTGTCTAATGTAGAAACTGAAATTGGTAGAACAACAGATCCGGTAAGAATGTATATGAGAGAAAT
GGGTACTGTAGAATTATTAACAAGAGAAGGAGAAATTGGTATAGCTAAAAGAATAGAAGAAGGAATTAATCAAGTACAGT
CTTCAGTTTCTGAATATCCGACTTCAATTTTGTATTTATTAGAACAATATCATCATGTAAAACTTGGAAATATTAAATTA
TCAGAATTGATTATAGGTTTTATAGATAAAAAAAAGAAGCCTAAAAAAAAAATTTTTACAGAAGAAGTTATAACAAAAAA
ATTATATAATAATAAAAAAAAATCATTAAATGCAGAAAAAAATGAAGATACAATAGATGATTATAATCATATTGATCCAA
TTTTAGCAAAAAAAAAATTTTCACAATTAAAAAAACAATATTACATAACAAATCATATTATACAAAATAAACCAAGAAAT
CATAAAGATTCAATTAATGCTATTCATAAACTATCAAAAATATTCAAACAATTTAGATTAGCTCCAAAACAATTTGATTA
TTTAGTAACAAATATGAGAAATGAGATACATAAAATAACATTACAAGAAAAAAAAATAATGAATTTATGTGTACATACTT
GTAAAATACCTAAAAAAAAATTTTTGAAATTTTTTAAAAAACACAAAAAAAATTATAAAAATTTTTATTCTGTTATAAAA
AAAAAAAAATCATGGTTATATAAATTAAAATTTATTAAAAAAGAAATTATAAAAAGAATAAAAAAATTATTAATAATAGA
AAAAAAAACAAAATTAAAAATCACACAAATTAAAGATATAAATAAACGTATCATATTAGGAGAAGAAAAAGCAAAACGAG
CAAAAAAAGAAATGGTGGAAGCAAACTTAAGACTAGTTATATCTATTGCAAAAAAATATACAAATAGAGGATTACAATTT
TTAGATTTAATTCAAGAAGGAAATATTGGATTAATGAAAGCAGTAGATAAATTTGAATATAGAAGAGGATATAAATTTTC
TACCTATGCAACATGGTGGATACGACAAGCTATTACTCGATCTATTGCTGATCAGGCTAGAACAATACGTATTCCAGTAC
ATATGATTGAAACAATTAATAAATTAAATAGAATTTCTAGACAAATGTTACAAGAAATCGGGCGGGAACCTACTCCTGAA
GAATTATCAGAAAAAATGTTAATTTCTGAAGAAAAAATAAGAAAAGTATTAAAAATAGCAAAAGAACCTATATCTATGGA
AACTCCAATAGGAGAAGATGATGATACACATTTAGGTGATTTTATTGAAGATACAAATTTAGAACTACCATTAGAATCTG
CAACTTCAGAAAGTTTAAAAACAATAACAAATGATGTATTATCAGGTTTAACAGATAGAGAAGCAAAAGTACTTCGAATG
AGATTCGGAATCGATATGAATACTGATCATACATTAGAAGAGGTAGGTAGACAATTTGATGTTACACGAGAAAGAATACG
ACAAATAGAAGCCAAAGCTTTAAGAAAACTTCGACATCCTAGTCGATCAGAAATTTTAAAAAGTTTTTTAGATAATTCGT
AA

Upstream 100 bases:

>100_bases
TATACATATTATAATTTTTAATAAAATTACTTTTATAATTTTAAATAAATGTATATCATAATTTATAAAATAGATTAAAT
AATAAAATGGATATTATCTT

Downstream 100 bases:

>100_bases
AAATAAAATAAAAATTAAAAAACATATCAAAATATATAAATTCTTACAAAAATATTTAATAAAAAAAAATTTTAATACAA
ATAAAACCTTAATATGAAAA

Product: RNA polymerase major s factor

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 613; Mature: 613

Protein sequence:

>613_residues
MKKKPKSQLKLLVSHGKEQGYLTYSEVHDHLPNDIVDADQIKNIIQMIKDLGIQIVEEVREIEELIINEAPTDTDEDTVE
AATQVLSNVETEIGRTTDPVRMYMREMGTVELLTREGEIGIAKRIEEGINQVQSSVSEYPTSILYLLEQYHHVKLGNIKL
SELIIGFIDKKKKPKKKIFTEEVITKKLYNNKKKSLNAEKNEDTIDDYNHIDPILAKKKFSQLKKQYYITNHIIQNKPRN
HKDSINAIHKLSKIFKQFRLAPKQFDYLVTNMRNEIHKITLQEKKIMNLCVHTCKIPKKKFLKFFKKHKKNYKNFYSVIK
KKKSWLYKLKFIKKEIIKRIKKLLIIEKKTKLKITQIKDINKRIILGEEKAKRAKKEMVEANLRLVISIAKKYTNRGLQF
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPE
ELSEKMLISEEKIRKVLKIAKEPISMETPIGEDDDTHLGDFIEDTNLELPLESATSESLKTITNDVLSGLTDREAKVLRM
RFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDNS

Sequences:

>Translated_613_residues
MKKKPKSQLKLLVSHGKEQGYLTYSEVHDHLPNDIVDADQIKNIIQMIKDLGIQIVEEVREIEELIINEAPTDTDEDTVE
AATQVLSNVETEIGRTTDPVRMYMREMGTVELLTREGEIGIAKRIEEGINQVQSSVSEYPTSILYLLEQYHHVKLGNIKL
SELIIGFIDKKKKPKKKIFTEEVITKKLYNNKKKSLNAEKNEDTIDDYNHIDPILAKKKFSQLKKQYYITNHIIQNKPRN
HKDSINAIHKLSKIFKQFRLAPKQFDYLVTNMRNEIHKITLQEKKIMNLCVHTCKIPKKKFLKFFKKHKKNYKNFYSVIK
KKKSWLYKLKFIKKEIIKRIKKLLIIEKKTKLKITQIKDINKRIILGEEKAKRAKKEMVEANLRLVISIAKKYTNRGLQF
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPE
ELSEKMLISEEKIRKVLKIAKEPISMETPIGEDDDTHLGDFIEDTNLELPLESATSESLKTITNDVLSGLTDREAKVLRM
RFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDNS
>Mature_613_residues
MKKKPKSQLKLLVSHGKEQGYLTYSEVHDHLPNDIVDADQIKNIIQMIKDLGIQIVEEVREIEELIINEAPTDTDEDTVE
AATQVLSNVETEIGRTTDPVRMYMREMGTVELLTREGEIGIAKRIEEGINQVQSSVSEYPTSILYLLEQYHHVKLGNIKL
SELIIGFIDKKKKPKKKIFTEEVITKKLYNNKKKSLNAEKNEDTIDDYNHIDPILAKKKFSQLKKQYYITNHIIQNKPRN
HKDSINAIHKLSKIFKQFRLAPKQFDYLVTNMRNEIHKITLQEKKIMNLCVHTCKIPKKKFLKFFKKHKKNYKNFYSVIK
KKKSWLYKLKFIKKEIIKRIKKLLIIEKKTKLKITQIKDINKRIILGEEKAKRAKKEMVEANLRLVISIAKKYTNRGLQF
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPE
ELSEKMLISEEKIRKVLKIAKEPISMETPIGEDDDTHLGDFIEDTNLELPLESATSESLKTITNDVLSGLTDREAKVLRM
RFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDNS

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=616, Percent_Identity=66.8831168831169, Blast_Score=817, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=226, Percent_Identity=41.1504424778761, Blast_Score=196, Evalue=3e-51,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=27.8008298755187, Blast_Score=94, Evalue=2e-20,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=66, Evalue=7e-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:   IPR007631
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF04546 Sigma70_ner; PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 71820; Mature: 71820

Theoretical pI: Translated: 10.24; Mature: 10.24

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
2.4 %Met     (Translated Protein)
2.8 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
2.4 %Met     (Mature Protein)
2.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKKKPKSQLKLLVSHGKEQGYLTYSEVHDHLPNDIVDADQIKNIIQMIKDLGIQIVEEVR
CCCCCHHHHHHHHHCCCCCCCEEHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
EIEELIINEAPTDTDEDTVEAATQVLSNVETEIGRTTDPVRMYMREMGTVELLTREGEIG
HHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHEECCCCCCH
IAKRIEEGINQVQSSVSEYPTSILYLLEQYHHVKLGNIKLSELIIGFIDKKKKPKKKIFT
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEECCEEHHHHHHHHHHCCCCCHHHHHH
EEVITKKLYNNKKKSLNAEKNEDTIDDYNHIDPILAKKKFSQLKKQYYITNHIIQNKPRN
HHHHHHHHHCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
HKDSINAIHKLSKIFKQFRLAPKQFDYLVTNMRNEIHKITLQEKKIMNLCVHTCKIPKKK
CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
FLKFFKKHKKNYKNFYSVIKKKKSWLYKLKFIKKEIIKRIKKLLIIEKKTKLKITQIKDI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEHHHHHHC
NKRIILGEEKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY
CCCEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHH
RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPE
HCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
ELSEKMLISEEKIRKVLKIAKEPISMETPIGEDDDTHLGDFIEDTNLELPLESATSESLK
HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHH
TITNDVLSGLTDREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHP
HHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
SRSEILKSFLDNS
CHHHHHHHHHCCC
>Mature Secondary Structure
MKKKPKSQLKLLVSHGKEQGYLTYSEVHDHLPNDIVDADQIKNIIQMIKDLGIQIVEEVR
CCCCCHHHHHHHHHCCCCCCCEEHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
EIEELIINEAPTDTDEDTVEAATQVLSNVETEIGRTTDPVRMYMREMGTVELLTREGEIG
HHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHEECCCCCCH
IAKRIEEGINQVQSSVSEYPTSILYLLEQYHHVKLGNIKLSELIIGFIDKKKKPKKKIFT
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEECCEEHHHHHHHHHHCCCCCHHHHHH
EEVITKKLYNNKKKSLNAEKNEDTIDDYNHIDPILAKKKFSQLKKQYYITNHIIQNKPRN
HHHHHHHHHCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
HKDSINAIHKLSKIFKQFRLAPKQFDYLVTNMRNEIHKITLQEKKIMNLCVHTCKIPKKK
CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
FLKFFKKHKKNYKNFYSVIKKKKSWLYKLKFIKKEIIKRIKKLLIIEKKTKLKITQIKDI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEHHHHHHC
NKRIILGEEKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY
CCCEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHH
RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPE
HCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
ELSEKMLISEEKIRKVLKIAKEPISMETPIGEDDDTHLGDFIEDTNLELPLESATSESLK
HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHH
TITNDVLSGLTDREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHP
HHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
SRSEILKSFLDNS
CHHHHHHHHHCCC

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: 1398077; 12089438 [H]