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The map label for this gene is rpoD [H]

Identifier: 120610093

GI number: 120610093

Start: 1541468

End: 1543813

Strand: Reverse

Name: rpoD [H]

Synonym: Aave_1406

Alternate gene names: 120610093

Gene position: 1543813-1541468 (Counterclockwise)

Preceding gene: 120610094

Following gene: 120610092

Centisome position: 28.84

GC content: 65.47

Gene sequence:

>2346_bases
ATGCCCGCTCAAAAGTCCGCGAAGTCGCCCAAGTCCGCCCCCGATACCGCCGCGAAGGCCGCCTCCACCTCGAAAACCGC
GACCCAGGCCGCTCCTGCCGCAAAGAAAGCTCCATCCGTGCCCGTGAACAAGTCCGCCGACAAGCCCGAAGCCTCCGAAG
AAACCACCGCCAAGAAGGCGAGCCGCGCGAAGGCCGCGGCCCCTGCGGCGGCCGATGACGACGAGACGCCCAAGAAGCGC
CCCGGCCGCCCGGCCAAGGCAGCCACCGCCGCCGCCGGCAAGGCCCCCGCCAAGCGCGGCCGCAAGCCCAAGGCCGCCGA
GGACGATTCCGCGGGCGACGACGCCGACCTGTCGGACATCGAATCCGAACTCGAGGGCGAGGTCGAGGCCGAGCCGGCCG
AGGCGGCGCCCACCGCCGAGAAGGTCAAGCCCCTGCGCATGAAGATCAGCAAGGCGAAGGAACGCGCCTTGATGAAGGAA
TTCGGCCTGGACGACACCGTCCTGTCCGAGGAAGACCTGGCCAAGCGCCGCTCGCGCCTGAAGGCCCTGATCACGCTGGG
CAAGACCCGTGGCTACCTGACCCAGGTCGAGATCTCCGACCACCTGCCCGACAAGCTGGTCGATGCCGAGACCATGGAAG
TCGTGGTCACCATGCTCAACGACATGGGCGTGGCCGTGTACGAGCAGACGCCCGATGCCGAGACGCTGTTCCAGAACAAC
GTCACCCCCACCGCCACCACCGTCGAGGAAGCCGAGGAAGAAGCCGAGGCCGCCCTCTCCACCGTGGACAGCGAATTCGG
CCGCACCACCGACCCGGTCCGCATGTACATGCGCGAGATGGGCACGGTGGAACTGCTCACCCGCGAGGGCGAGATCGAGA
TCGCCAAGCGCATCGAAGGCGGCCTGCAGGCCATGATGGAAGCCATCAGCGCATCGCCCGCCACCATCGCCGAGATCCTG
GCGATGGGCGAGGAGATCCGCGAGGGCAAGGTCGTCATCTCCACCATCGTGGACGGCTTCTCCAACCCCAACGAGGCCGA
CGACTACGTGGCCGAGGAAGACTTCGACGAATTCGACGAAGAGGACGACGACGACGGCAAGGGCGGCTCCAAGGCCCTGA
CCAAGAAGCTGGAAGAGCTCAAGAACGAAGCGCTGCGCCGGTTCGACAACCTGCGCGGGCTCTTCGAGAAGATGCACAAG
ATCTACGACAAGGAAGGCTACGGCACGCCGGCCTACATGAAGGCCCAGCACGCCATCTCGGCCGAACTGATGACCATCCG
CTTCACGGCCAAGACCATCGAGAAGCTGTGCGACATGGTCCGCGCCCAGGTGGACGACGTGCGCAAGAAGGAGCGCGAGC
TGCGCCGCATCATCGTGGACAAGTGCGGCATGCCGCAGGAAACCTTCATCAAGGACTTCCCGCCCAACCTGCTGAACCTG
CAGTGGGTCGAGAAGCAGGCCGCCGCCGGCAAGCCCTGGAGCGCCGTGCTCGCGCGCAACATCCCGCCGGTGCAGGAGCT
GCAGCAGCGCCTGATGGACCTGCAGTCCCGCGTGGTGGTGCCGCTGTCCGAGCTCAAGGACATCAACAAGCGCATGAACG
AGGGCGAGTCGGCCTCGCGCGACGCGAAGAAGGAAATGATCGAGGCCAACCTGCGCCTCGTGATCTCCATCGCCAAGAAG
TACACCAACCGCGGCCTGCAGTTCCTCGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCGGTGGACAAGTTCGA
ATACCGCCGCGGCTACAAGTTCTCGACGTACGCCACGTGGTGGATCCGCCAGGCCATCACGCGCTCGATCGCCGACCAGG
CGCGCACCATCCGGATCCCGGTGCACATGATCGAGACGATCAACAAGATGAACCGCATCAGCCGCCAGCACCTGCAGGAG
TTCGGCTTCGAGCCCGATGCGTCCATCCTGGCCGCGAAGATGGAGATCCCCGAGGACAAGATCCGCAAGATCATGAAGAT
CGCCAAGGAGCCGATCTCCATGGAAACGCCGATCGGCGACGACGACGACAGCCACCTGGGCGACTTCATCGAGGACGGTG
CCAACACCGCCCCGATCGACGCCGCCATGCAGGCCGGCCTGCGCGACGTGGTCAAGGACATCCTGGACGGCCTCACGCCG
CGCGAAGCCAAGGTGCTGCGCATGCGCTTCGGCATCGAGATGTCCACCGACCACACGCTGGAAGAAGTCGGCAAGCAGTT
CGACGTGACCCGCGAGCGCATCCGCCAGATCGAGGCCAAGGCGCTGCGCAAGCTCAAGCACCCGAGCCGCAGCGACAAGC
TGCGCAGCTTCATCGATTCGCTCTGA

Upstream 100 bases:

>100_bases
CCTCGAACCGCGGAGGCACCGCCTTCGCCCAGCCACCCGCGCCGGGAACCGACGCGCTTGCGTTTTCTTTGTGTGTCCGT
TTTTGAATCTGAGGTCGTCC

Downstream 100 bases:

>100_bases
GCCGCGCCGCACGGGCCGTCCTGCCCGGCGGCCCCGCCTTCCCGAAAGCCCCGTGCCCACCCGGCCGGGGCTTTTTTCAT
GGGCCAGCCCGCCTCATGCA

Product: RpoD family RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 781; Mature: 780

Protein sequence:

>781_residues
MPAQKSAKSPKSAPDTAAKAASTSKTATQAAPAAKKAPSVPVNKSADKPEASEETTAKKASRAKAAAPAAADDDETPKKR
PGRPAKAATAAAGKAPAKRGRKPKAAEDDSAGDDADLSDIESELEGEVEAEPAEAAPTAEKVKPLRMKISKAKERALMKE
FGLDDTVLSEEDLAKRRSRLKALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNN
VTPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEGGLQAMMEAISASPATIAEIL
AMGEEIREGKVVISTIVDGFSNPNEADDYVAEEDFDEFDEEDDDDGKGGSKALTKKLEELKNEALRRFDNLRGLFEKMHK
IYDKEGYGTPAYMKAQHAISAELMTIRFTAKTIEKLCDMVRAQVDDVRKKERELRRIIVDKCGMPQETFIKDFPPNLLNL
QWVEKQAAAGKPWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASRDAKKEMIEANLRLVISIAKK
YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQE
FGFEPDASILAAKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTP
REAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFIDSL

Sequences:

>Translated_781_residues
MPAQKSAKSPKSAPDTAAKAASTSKTATQAAPAAKKAPSVPVNKSADKPEASEETTAKKASRAKAAAPAAADDDETPKKR
PGRPAKAATAAAGKAPAKRGRKPKAAEDDSAGDDADLSDIESELEGEVEAEPAEAAPTAEKVKPLRMKISKAKERALMKE
FGLDDTVLSEEDLAKRRSRLKALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNN
VTPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEGGLQAMMEAISASPATIAEIL
AMGEEIREGKVVISTIVDGFSNPNEADDYVAEEDFDEFDEEDDDDGKGGSKALTKKLEELKNEALRRFDNLRGLFEKMHK
IYDKEGYGTPAYMKAQHAISAELMTIRFTAKTIEKLCDMVRAQVDDVRKKERELRRIIVDKCGMPQETFIKDFPPNLLNL
QWVEKQAAAGKPWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASRDAKKEMIEANLRLVISIAKK
YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQE
FGFEPDASILAAKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTP
REAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFIDSL
>Mature_780_residues
PAQKSAKSPKSAPDTAAKAASTSKTATQAAPAAKKAPSVPVNKSADKPEASEETTAKKASRAKAAAPAAADDDETPKKRP
GRPAKAATAAAGKAPAKRGRKPKAAEDDSAGDDADLSDIESELEGEVEAEPAEAAPTAEKVKPLRMKISKAKERALMKEF
GLDDTVLSEEDLAKRRSRLKALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNNV
TPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEGGLQAMMEAISASPATIAEILA
MGEEIREGKVVISTIVDGFSNPNEADDYVAEEDFDEFDEEDDDDGKGGSKALTKKLEELKNEALRRFDNLRGLFEKMHKI
YDKEGYGTPAYMKAQHAISAELMTIRFTAKTIEKLCDMVRAQVDDVRKKERELRRIIVDKCGMPQETFIKDFPPNLLNLQ
WVEKQAAAGKPWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASRDAKKEMIEANLRLVISIAKKY
TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEF
GFEPDASILAAKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTPR
EAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFIDSL

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=611, Percent_Identity=53.3551554828151, Blast_Score=608, Evalue=1e-175,
Organism=Escherichia coli, GI1789098, Length=237, Percent_Identity=40.9282700421941, Blast_Score=201, Evalue=2e-52,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.099173553719, Blast_Score=89, Evalue=1e-18,

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: 86704; Mature: 86572

Theoretical pI: Translated: 5.17; Mature: 5.17

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2 ; PS00867 CPSASE_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
3.7 %Met     (Translated Protein)
4.0 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
3.6 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MPAQKSAKSPKSAPDTAAKAASTSKTATQAAPAAKKAPSVPVNKSADKPEASEETTAKKA
CCCCCCCCCCCCCCHHHHHHHCCHHHHHHHCCCHHCCCCCCCCCCCCCCCCCHHHHHHHH
SRAKAAAPAAADDDETPKKRPGRPAKAATAAAGKAPAKRGRKPKAAEDDSAGDDADLSDI
HHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCHHCCCCCCCCCCCCCCCCCCHHHH
ESELEGEVEAEPAEAAPTAEKVKPLRMKISKAKERALMKEFGLDDTVLSEEDLAKRRSRL
HHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHCCHHHHHHHHHHH
KALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNN
HHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHCCEEEEECCCCHHHHHHCC
VTPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEG
CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHH
GLQAMMEAISASPATIAEILAMGEEIREGKVVISTIVDGFSNPNEADDYVAEEDFDEFDE
HHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCCCCHHHHHHHCCHHHCCC
EDDDDGKGGSKALTKKLEELKNEALRRFDNLRGLFEKMHKIYDKEGYGTPAYMKAQHAIS
CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
AELMTIRFTAKTIEKLCDMVRAQVDDVRKKERELRRIIVDKCGMPQETFIKDFPPNLLNL
HHHHEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCH
QWVEKQAAAGKPWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASR
HHHHHHHCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCHHH
DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHH
WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDK
HHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHH
IRKIMKIAKEPISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTP
HHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
REAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFIDS
CHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHC
L
C
>Mature Secondary Structure 
PAQKSAKSPKSAPDTAAKAASTSKTATQAAPAAKKAPSVPVNKSADKPEASEETTAKKA
CCCCCCCCCCCCCHHHHHHHCCHHHHHHHCCCHHCCCCCCCCCCCCCCCCCHHHHHHHH
SRAKAAAPAAADDDETPKKRPGRPAKAATAAAGKAPAKRGRKPKAAEDDSAGDDADLSDI
HHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCHHCCCCCCCCCCCCCCCCCCHHHH
ESELEGEVEAEPAEAAPTAEKVKPLRMKISKAKERALMKEFGLDDTVLSEEDLAKRRSRL
HHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHCCHHHHHHHHHHH
KALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNN
HHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHCCEEEEECCCCHHHHHHCC
VTPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEG
CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHH
GLQAMMEAISASPATIAEILAMGEEIREGKVVISTIVDGFSNPNEADDYVAEEDFDEFDE
HHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCCCCHHHHHHHCCHHHCCC
EDDDDGKGGSKALTKKLEELKNEALRRFDNLRGLFEKMHKIYDKEGYGTPAYMKAQHAIS
CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
AELMTIRFTAKTIEKLCDMVRAQVDDVRKKERELRRIIVDKCGMPQETFIKDFPPNLLNL
HHHHEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCH
QWVEKQAAAGKPWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASR
HHHHHHHCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCHHH
DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHH
WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDK
HHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHH
IRKIMKIAKEPISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTP
HHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
REAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFIDS
CHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHC
L
C

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: NA