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The map label for this gene is rpoD1 [H]

Identifier: 94311542

GI number: 94311542

Start: 2833754

End: 2836321

Strand: Reverse

Name: rpoD1 [H]

Synonym: Rmet_2606

Alternate gene names: 94311542

Gene position: 2836321-2833754 (Counterclockwise)

Preceding gene: 94311543

Following gene: 94311536

Centisome position: 72.21

GC content: 61.88

Gene sequence:

>2568_bases
ATGGCAAAGGCCAAAGCAACCGAAGGGGTAGCCGTGAAGGCGCCCTCCAAAGCTCCCCAATCAGGGAGCGGCAAGGCGTC
CGTGAAAACAACGGCGGCGAAGACATCGACCGCGTCAGTCAGGACGACATCAGCCCGGTCTGCGCCAGCAAAATCCGCGC
GGAGCGCAACTGCGCCCGCCGGATCCACTTCCGCCAGGAATCGCACATCCGAAAATACAAAGCCCTCGACTTCGGCACGC
GAGAGCGGCAAGAGCGCCAATACAAGCGGCAAGAGCGCCGCTGCACCAGTGAAAGGCAAGAGTATCACCGTGGCGAAACA
GCAGAATACCGAAGTCGAGAGCAAGCGTGCGGCAACGACGGCCGGCACACGGAGTGGAGGCGCCAAGGCAGGCACCACCG
CTACCGCGACGCCCAAGGCCCGTGCCGCGACTCCCGCACCCGTTGCATCCGAGCGTCCCGCCGCTCCGGCCGTCAAGCCG
GAGCCGAAGAAGCGTGGCCGCAAGCCCAAGGCCGAGATGCAGCAAGACGACAGCACCATCGAAGACGTGACTGAAGAGTT
TTACGACAACGACGCGCCGGCTACCCCTGCCGCTGCGCCCAAGACCGAAAAGCAGAAAGCCAAGGACCGCAAGGCCAAGG
AAAAGGCGCTGCTCAAGGAATTTGCCTCGTCGAATCAGGCTGGTAGCGAGGAAGAGCTCGAGATCCGTCGCCAGAAGCTC
AAGGCGCTGATCAAGCTCGGCAAATCGCGTGGCTACCTGACTTATGCGGAAATCAACGATCACCTGCCGGACGACATGGT
CGATTCGGAAACGATCGACACGCTGGTCGCCACGCTGAACGACATCGGTATCGCCGTCTACGAACAGGCGCCGGATGCCG
AGACGCTGCTGCTCAACGACAACGCACCGTCCGCCACGAGCGAGGAAGAGGCCGAGGAAGAAGCCGAAGCCGCCCTGTCG
ACCGTGGACTCCGAATTCGGCCGCACCACCGACCCGGTCCGCATGTACATGCGTGAAATGGGTACCGTGGAACTGCTGAC
GCGCGAAGGCGAAATCGAAATCGCCAAGCGCATCGAAGCGGGCCTGAAGGACATGGTGATGGCGATCTCGGCCTGCCCGG
TCACGATCTCCGAAATCCTGGCCAGCGCCGAGCGCGTGGCGAACGAAGAGATCAAGATCGACGAGTTCGTCGATGGCCTG
ATCGACCCGAACGCAGAGGAAGTCCAGGACAACTCCCCGGCCCAGGCGGTAGCCGCCGATGACGAGGACGAGGATTCGGA
CGAAGACGGCGACGACGGCGAAGAGGAAGACGACGAAAGCGGCGGTGGCGCCGGTGCGTCGGCTCGCCAGCTCGAGGAAC
TGAAGGTTGCCGCGCTGGAAAAATTCCGCGTGATCGCCGAGCAGTTCGACAAGATGCGCCGTGCCTTCGAAAAGGAAGGC
TACAAGTCGAAGCCGTACGTGAAGGCCCAGGAAGCTATCCAGGCCGAACTGATGAGCATTCGCTTCACCGCGCGTAACGT
CGAGCGTCTGTGCGACACGCTGCGTGGCCAGGTGGACGAAGTGCGCAAGCTGGAACGCGCCATCCTGAATATCGTCGTCG
ACAAGTGCGGCATGCCGCGCGCCGACTTCGTGGCCCGTTTCCCGGGCAACGAGACGAACCTGGACTGGATCCAGACCATC
GTGGCCGACAACAAGTCGTACAGCACGATCGTCGAGCGTAACGTGCCGGCCGTGCACGAGCTGCAGCAGAAGCTGATCGA
CCTGCAGTCGCGCGTGGTGCTGCCGCTGAAGGAACTGAAGGACGTCAATCGCAAGATGTCCGAAGGCGAGAAGCGCGCCC
GCGAAGCCAAGCGTGAAATGACCGAGGCCAACCTGCGTCTGGTGATCTCGATCGCGAAGAAGTACACGAACCGCGGCCTG
CAGTTCCTGGATCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCGGTGGACAAGTTCGAATACCGTCGCGGCTACAA
GTTCTCCACGTACGCCACGTGGTGGATTCGCCAGGCCATCACGCGCTCGATCGCCGACCAGGCTCGTACCATCCGTATTC
CGGTTCACATGATCGAAACGATCAACAAGATGAACCGGATCTCGCGCCAGATCCTGCAGGAAACCGGCAACGAGCCGGAT
CCGGCAACGCTGGCTGAGAAGATGGAGATGCCCGAGGACAAGATCCGCAAGATCATGAAGATCGCCAAGGAACCGATCTC
CATGGAAACGCCGATCGGTGACGACGACGATTCGCATCTGGGCGACTTCATCGAAGACACGAACACGCTGGCCCCGGCCG
AGGCTGCGCTGGATGGCTCCATGCGCGACGTGGTCAAGGACGTGCTCGACAGCCTGACGCCGCGCGAAGCCAAGGTGCTG
CGCATGCGTTTCGGCATCGAAATGAGCACCGACCACACGCTCGAGGAAGTCGGCAAGCAGTTCGACGTGACGCGCGAACG
TATCCGCCAGATCGAGGCAAAGGCACTGCGCAAGCTGCGCCACCCGAGCCGCTCCGACAAGCTGAAGAGCTTCCTGGAAG
GCAACTAA

Upstream 100 bases:

>100_bases
AACACAACCTGACAGGAAGCCGGGGGTTGGTGACGTGCTACAATGCCCGGTTTGGATTGCGAAATCTTTCTTCCCATTAC
TGGCGAAAGTGAGCGTGCCA

Downstream 100 bases:

>100_bases
CGCCTTTCAAGGGCCTCTAGCTCATGCCTGGTTAGAGCAGCGGACTCATAATCCGTTGGTGCCGTGTTCGACTCACGGGA
GGCCCACCACTGATGTTGTA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 855; Mature: 854

Protein sequence:

>855_residues
MAKAKATEGVAVKAPSKAPQSGSGKASVKTTAAKTSTASVRTTSARSAPAKSARSATAPAGSTSARNRTSENTKPSTSAR
ESGKSANTSGKSAAAPVKGKSITVAKQQNTEVESKRAATTAGTRSGGAKAGTTATATPKARAATPAPVASERPAAPAVKP
EPKKRGRKPKAEMQQDDSTIEDVTEEFYDNDAPATPAAAPKTEKQKAKDRKAKEKALLKEFASSNQAGSEEELEIRRQKL
KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSATSEEEAEEEAEAALS
TVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILASAERVANEEIKIDEFVDGL
IDPNAEEVQDNSPAQAVAADDEDEDSDEDGDDGEEEDDESGGGAGASARQLEELKVAALEKFRVIAEQFDKMRRAFEKEG
YKSKPYVKAQEAIQAELMSIRFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRADFVARFPGNETNLDWIQTI
VADNKSYSTIVERNVPAVHELQQKLIDLQSRVVLPLKELKDVNRKMSEGEKRAREAKREMTEANLRLVISIAKKYTNRGL
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPD
PATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALDGSMRDVVKDVLDSLTPREAKVL
RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN

Sequences:

>Translated_855_residues
MAKAKATEGVAVKAPSKAPQSGSGKASVKTTAAKTSTASVRTTSARSAPAKSARSATAPAGSTSARNRTSENTKPSTSAR
ESGKSANTSGKSAAAPVKGKSITVAKQQNTEVESKRAATTAGTRSGGAKAGTTATATPKARAATPAPVASERPAAPAVKP
EPKKRGRKPKAEMQQDDSTIEDVTEEFYDNDAPATPAAAPKTEKQKAKDRKAKEKALLKEFASSNQAGSEEELEIRRQKL
KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSATSEEEAEEEAEAALS
TVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILASAERVANEEIKIDEFVDGL
IDPNAEEVQDNSPAQAVAADDEDEDSDEDGDDGEEEDDESGGGAGASARQLEELKVAALEKFRVIAEQFDKMRRAFEKEG
YKSKPYVKAQEAIQAELMSIRFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRADFVARFPGNETNLDWIQTI
VADNKSYSTIVERNVPAVHELQQKLIDLQSRVVLPLKELKDVNRKMSEGEKRAREAKREMTEANLRLVISIAKKYTNRGL
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPD
PATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALDGSMRDVVKDVLDSLTPREAKVL
RMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN
>Mature_854_residues
AKAKATEGVAVKAPSKAPQSGSGKASVKTTAAKTSTASVRTTSARSAPAKSARSATAPAGSTSARNRTSENTKPSTSARE
SGKSANTSGKSAAAPVKGKSITVAKQQNTEVESKRAATTAGTRSGGAKAGTTATATPKARAATPAPVASERPAAPAVKPE
PKKRGRKPKAEMQQDDSTIEDVTEEFYDNDAPATPAAAPKTEKQKAKDRKAKEKALLKEFASSNQAGSEEELEIRRQKLK
ALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSATSEEEAEEEAEAALST
VDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILASAERVANEEIKIDEFVDGLI
DPNAEEVQDNSPAQAVAADDEDEDSDEDGDDGEEEDDESGGGAGASARQLEELKVAALEKFRVIAEQFDKMRRAFEKEGY
KSKPYVKAQEAIQAELMSIRFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRADFVARFPGNETNLDWIQTIV
ADNKSYSTIVERNVPAVHELQQKLIDLQSRVVLPLKELKDVNRKMSEGEKRAREAKREMTEANLRLVISIAKKYTNRGLQ
FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDP
ATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALDGSMRDVVKDVLDSLTPREAKVLR
MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGN

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=618, Percent_Identity=56.7961165048544, Blast_Score=659, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=41.7777777777778, Blast_Score=206, Evalue=6e-54,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=27.5720164609054, Blast_Score=84, Evalue=3e-17,

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: 93860; Mature: 93729

Theoretical pI: Translated: 5.20; Mature: 5.20

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.4 %Cys     (Translated Protein)
2.7 %Met     (Translated Protein)
3.0 %Cys+Met (Translated Protein)
0.4 %Cys     (Mature Protein)
2.6 %Met     (Mature Protein)
2.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKAKATEGVAVKAPSKAPQSGSGKASVKTTAAKTSTASVRTTSARSAPAKSARSATAPA
CCCCCCCCCEEEECCCCCCCCCCCCCCEEEHHHCCCCCCEEECCCCCCCHHHHCCCCCCC
GSTSARNRTSENTKPSTSARESGKSANTSGKSAAAPVKGKSITVAKQQNTEVESKRAATT
CCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHC
AGTRSGGAKAGTTATATPKARAATPAPVASERPAAPAVKPEPKKRGRKPKAEMQQDDSTI
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCHHHHHCCCHH
EDVTEEFYDNDAPATPAAAPKTEKQKAKDRKAKEKALLKEFASSNQAGSEEELEIRRQKL
HHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAVYEQAPDAETLLLND
HHHHHHHCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCEEEEECCCCCCEEEEEC
NAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEA
CCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCEEEEECCCCHHHHHHHHH
GLKDMVMAISACPVTISEILASAERVANEEIKIDEFVDGLIDPNAEEVQDNSPAQAVAAD
HHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHCCCCCCCEEECC
DEDEDSDEDGDDGEEEDDESGGGAGASARQLEELKVAALEKFRVIAEQFDKMRRAFEKEG
CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
YKSKPYVKAQEAIQAELMSIRFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMPR
CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCH
ADFVARFPGNETNLDWIQTIVADNKSYSTIVERNVPAVHELQQKLIDLQSRVVLPLKELK
HHHHEECCCCCCCHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHH
DVNRKMSEGEKRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHH
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPD
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHHHHHCCCCCC
PATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALDGS
HHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHCCH
MRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR
HHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSDKLKSFLEGN
CCCHHHHHHHHHCCC
>Mature Secondary Structure 
AKAKATEGVAVKAPSKAPQSGSGKASVKTTAAKTSTASVRTTSARSAPAKSARSATAPA
CCCCCCCCEEEECCCCCCCCCCCCCCEEEHHHCCCCCCEEECCCCCCCHHHHCCCCCCC
GSTSARNRTSENTKPSTSARESGKSANTSGKSAAAPVKGKSITVAKQQNTEVESKRAATT
CCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHC
AGTRSGGAKAGTTATATPKARAATPAPVASERPAAPAVKPEPKKRGRKPKAEMQQDDSTI
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCHHHHHCCCHH
EDVTEEFYDNDAPATPAAAPKTEKQKAKDRKAKEKALLKEFASSNQAGSEEELEIRRQKL
HHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAVYEQAPDAETLLLND
HHHHHHHCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCEEEEECCCCCCEEEEEC
NAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEA
CCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCEEEEECCCCHHHHHHHHH
GLKDMVMAISACPVTISEILASAERVANEEIKIDEFVDGLIDPNAEEVQDNSPAQAVAAD
HHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHCCCCCCCEEECC
DEDEDSDEDGDDGEEEDDESGGGAGASARQLEELKVAALEKFRVIAEQFDKMRRAFEKEG
CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
YKSKPYVKAQEAIQAELMSIRFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMPR
CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCH
ADFVARFPGNETNLDWIQTIVADNKSYSTIVERNVPAVHELQQKLIDLQSRVVLPLKELK
HHHHEECCCCCCCHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHH
DVNRKMSEGEKRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHH
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPD
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHHHHHCCCCCC
PATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALDGS
HHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHCCH
MRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR
HHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSDKLKSFLEGN
CCCHHHHHHHHHCCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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