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The map label for this gene is rpoD [H]

Identifier: 187929499

GI number: 187929499

Start: 2522339

End: 2524828

Strand: Reverse

Name: rpoD [H]

Synonym: Rpic_2420

Alternate gene names: 187929499

Gene position: 2524828-2522339 (Counterclockwise)

Preceding gene: 187929500

Following gene: 187929498

Centisome position: 64.04

GC content: 62.29

Gene sequence:

>2490_bases
ATGGGGCAGGCAGGATCGACAGGGGTGAAGGCCACTGTGCCGGCAAAGACGGGGAAAACCCAGCCGCGCCAGACCGCCGA
TATCGCCGTCGCCGCCAAGACTGTCAAACCGACAGCGCGCACAAAGGGCGCGATCCAATCTTCAACCTCAGGCAAGGTCT
CGACGTCGATGAGCACGAGCGCCAGACCTGGCGGCACAGCCGCTTCCGTCGCACTCAAGGGCAAGACAACCACCGTGGCG
AAATCGAAAGTTACCGAAGTCGAGAGCAAGCAGACCCCTGCCAGCGCAAGCGCAACCAAGACGGGTACCGCTCGTACCAA
CACCGCAGCCAAGCCAGCCAAGGCGGCCGCGGAAGACACCAAGCGCACCGCCCAGGCAGAGGCCACCCCCACAACTCCTC
CCGCGCCCCGCGCCGAGGCAGCAGCCGAGCCCAAGAAGCGCGGCCGCAAGCCCAAGGCAGAGACGCAGGCAGACGACAGC
AGCACGGACGTGACTGAAGAATTTGACACCCCCGCCGCTCCGGCACCGAAAACCGAAAAGCTGAAGGCCCGTGACCGCAA
GGCCAAGGAAAAAGCCCTGCTCAAGGAATTCGCTGCCTCGCAGCAAGGCGGTTCGGAAGAAGAGCTTGAGGCCCGCCGCC
AGAAGCTCAAGGCGCTGATCAAGCTGGGCAAATCGCGCGGCTACCTGACCTACGCCGAAATCAACGACCACCTCCCCGAC
GACATGGTCGATGTGGAGTCGCTGGAAACGTTGGTTGCCACGCTCAACGACATCGGCGTTGCCGTGTACGAGCAGGCGCC
GGACGCCGAAACGCTGCTCCTGAACGACAACGCACCTTCCGTGACCACGGAAGAGGAAGCTGAAGAAGAAGCTGAAGCCG
CGCTGTCGACGGTTGACTCCGAATTCGGCCGCACGACCGACCCGGTGCGCATGTACATGCGCGAAATGGGCACGGTCGAG
CTGCTGACGCGCGAAGGCGAAATCGTGATCGCCAAGCGCATCGAAGCCGGCCTGAAGGACATGGTCATGGCCATCTCGGC
CTGCCCGGTCACCATCTCCGAAATCCTCGCCATGGGCGAGCGCGTTGCCAACGACGAAGCCAAGATCGACGAGTACATCG
ATGGCTTGATCGATCCGAACGCTGAAGCCGATGCAGCCGCTGCTGCTGAGGAAGAAGAGGAATTCGAGGAAGAGGAAGCC
GAAGAAGAGGGCGACGAAGAGGAAGACGAGGACGATGAAGGTGCCGGCGCTGCCGCAGCTTCGGCCCGTCAACTCGAAGA
GCTCAAGCAGGCTGCGCTGCTCAAGTTTGGTGTGATCGGCGAGCAGTTCGACAAGATGCGCCGTGCGTTCGAGAAGGAAG
GCTACAAGTCCAAGCCTTACGTGAAGGCGCAGGAAGCCATCCAGGCCGAACTGATGACGATCCGCTTCACGGCACGCAAC
GTCGAGCGCCTGTGCGACACGCTGCGCGGCCAGGTGGACGAAGTGCGCAAGCTCGAACGCGCCATCCTGAACATCGTGGT
GGACAAGTGCGGCATGCCGCGCAGCGACTTCGTTGCGCGCTTCCCGGGCAACGAGACCAACCTGAAGTGGATCGAGACCG
TGGTGGCCGACGGCAAGCCGTACAGCACCATCGTCGAGCGCAACGTGCCGGCCGTGCACGAACTGCAGCAAAAGCTGATC
GACCTGCAGGCACGCGTGGTGCTGCCGCTGACCGAGCTGAAGGACGTCAACCGCAAGATGTCGGAAGGCGAGCGCCGCGC
CCGTGAGGCCAAGCGCGAGATGACCGAGGCCAACCTGCGTCTGGTGATCTCGATCGCCAAGAAGTACACGAACCGCGGTC
TGCAGTTCCTCGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCGGTGGACAAGTTCGAATACCGTCGCGGCTAC
AAGTTCTCGACGTACGCCACGTGGTGGATCCGTCAGGCCATTACGCGTTCGATCGCCGATCAGGCGCGCACCATCCGTAT
TCCGGTGCACATGATCGAGACGATCAACAAGATGAACCGCATCTCGCGTCAGATCCTGCAGGAAACCGGCAACGAGCCGG
ATCCGGCAACGCTGGCCGAGAAGATGGAGATGCCGGAAGACAAGATCCGCAAGATCATGAAGATCGCGAAGGAGCCGATC
TCCATGGAAACGCCGATCGGTGACGACGACGACTCCCATCTGGGCGATTTCATCGAGGACACGAACACGCTGGCCCCGGC
CGAAGCGGCGCTGCATGGCTCCATGCGCGGCGTGGTGAAGGACGTGCTCGATTCGCTGACGCCGCGCGAAGCCAAGGTGC
TGCGCATGCGTTTTGGTATCGAGATGAGCACCGACCACACGCTGGAAGAAGTCGGCAAGCAGTTCGACGTGACCCGCGAG
CGTATCCGTCAGATCGAAGCGAAGGCACTGCGCAAGCTGCGCCATCCGAGCCGCTCTGACAAGCTGAAGAGCTTCCTCGA
GGGAAGCTGA

Upstream 100 bases:

>100_bases
TCCTGCTTCTGTTTCTGCCAAGCGATCCTCATCGGCGCGCGGCTCGGGAGGAGGAAAGCCACCAGCGGGAACGGCGAAAG
TCGCAAATGGTCGGATCCAT

Downstream 100 bases:

>100_bases
TCCTGTAGCGAAGCAGGCGATTTTCCGAGTGGGCTCGCGCCCACTTTCAGGTAAAATCCTGCATCGGGCCCGGCCTAAGC
GCCGGGTCTCTTTTTTTCTC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 829; Mature: 828

Protein sequence:

>829_residues
MGQAGSTGVKATVPAKTGKTQPRQTADIAVAAKTVKPTARTKGAIQSSTSGKVSTSMSTSARPGGTAASVALKGKTTTVA
KSKVTEVESKQTPASASATKTGTARTNTAAKPAKAAAEDTKRTAQAEATPTTPPAPRAEAAAEPKKRGRKPKAETQADDS
STDVTEEFDTPAAPAPKTEKLKARDRKAKEKALLKEFAASQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPD
DMVDVESLETLVATLNDIGVAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVE
LLTREGEIVIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDGLIDPNAEADAAAAAEEEEEFEEEEA
EEEGDEEEDEDDEGAGAAAASARQLEELKQAALLKFGVIGEQFDKMRRAFEKEGYKSKPYVKAQEAIQAELMTIRFTARN
VERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRSDFVARFPGNETNLKWIETVVADGKPYSTIVERNVPAVHELQQKLI
DLQARVVLPLTELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPI
SMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRE
RIRQIEAKALRKLRHPSRSDKLKSFLEGS

Sequences:

>Translated_829_residues
MGQAGSTGVKATVPAKTGKTQPRQTADIAVAAKTVKPTARTKGAIQSSTSGKVSTSMSTSARPGGTAASVALKGKTTTVA
KSKVTEVESKQTPASASATKTGTARTNTAAKPAKAAAEDTKRTAQAEATPTTPPAPRAEAAAEPKKRGRKPKAETQADDS
STDVTEEFDTPAAPAPKTEKLKARDRKAKEKALLKEFAASQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPD
DMVDVESLETLVATLNDIGVAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVE
LLTREGEIVIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDGLIDPNAEADAAAAAEEEEEFEEEEA
EEEGDEEEDEDDEGAGAAAASARQLEELKQAALLKFGVIGEQFDKMRRAFEKEGYKSKPYVKAQEAIQAELMTIRFTARN
VERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRSDFVARFPGNETNLKWIETVVADGKPYSTIVERNVPAVHELQQKLI
DLQARVVLPLTELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPI
SMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRE
RIRQIEAKALRKLRHPSRSDKLKSFLEGS
>Mature_828_residues
GQAGSTGVKATVPAKTGKTQPRQTADIAVAAKTVKPTARTKGAIQSSTSGKVSTSMSTSARPGGTAASVALKGKTTTVAK
SKVTEVESKQTPASASATKTGTARTNTAAKPAKAAAEDTKRTAQAEATPTTPPAPRAEAAAEPKKRGRKPKAETQADDSS
TDVTEEFDTPAAPAPKTEKLKARDRKAKEKALLKEFAASQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPDD
MVDVESLETLVATLNDIGVAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVEL
LTREGEIVIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDGLIDPNAEADAAAAAEEEEEFEEEEAE
EEGDEEEDEDDEGAGAAAASARQLEELKQAALLKFGVIGEQFDKMRRAFEKEGYKSKPYVKAQEAIQAELMTIRFTARNV
ERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRSDFVARFPGNETNLKWIETVVADGKPYSTIVERNVPAVHELQQKLID
LQARVVLPLTELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPIS
METPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRER
IRQIEAKALRKLRHPSRSDKLKSFLEGS

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=617, Percent_Identity=56.7260940032415, Blast_Score=656, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=41.3333333333333, Blast_Score=202, Evalue=5e-53,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=27.9835390946502, Blast_Score=87, Evalue=6e-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: 91209; Mature: 91078

Theoretical pI: Translated: 5.04; Mature: 5.04

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.4 %Cys     (Translated Protein)
2.9 %Met     (Translated Protein)
3.3 %Cys+Met (Translated Protein)
0.4 %Cys     (Mature Protein)
2.8 %Met     (Mature Protein)
3.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MGQAGSTGVKATVPAKTGKTQPRQTADIAVAAKTVKPTARTKGAIQSSTSGKVSTSMSTS
CCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHCCCHHHHCCCCCCCCCCCEEECCCCC
ARPGGTAASVALKGKTTTVAKSKVTEVESKQTPASASATKTGTARTNTAAKPAKAAAEDT
CCCCCCEEEEEECCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
KRTAQAEATPTTPPAPRAEAAAEPKKRGRKPKAETQADDSSTDVTEEFDTPAAPAPKTEK
HHHHCCCCCCCCCCCCCCHHCCCHHHCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCHH
LKARDRKAKEKALLKEFAASQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPD
HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCC
DMVDVESLETLVATLNDIGVAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDS
HHHHHHHHHHHHHHHHHHCEEEEECCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHH
EFGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEAGLKDMVMAISACPVTISEILAMGE
HHCCCCHHHHHHHHHCCCEEEEECCCCEEEHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
RVANDEAKIDEYIDGLIDPNAEADAAAAAEEEEEFEEEEAEEEGDEEEDEDDEGAGAAAA
HHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHH
SARQLEELKQAALLKFGVIGEQFDKMRRAFEKEGYKSKPYVKAQEAIQAELMTIRFTARN
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHEEHHHHH
VERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRSDFVARFPGNETNLKWIETVVADGKP
HHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHCEEECCCCCCCHHHHHHHHHCCCC
YSTIVERNVPAVHELQQKLIDLQARVVLPLTELKDVNRKMSEGERRAREAKREMTEANLR
HHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD
HHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
QARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPI
HHHEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCC
SMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGI
CCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCC
EMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS
CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCC
>Mature Secondary Structure 
GQAGSTGVKATVPAKTGKTQPRQTADIAVAAKTVKPTARTKGAIQSSTSGKVSTSMSTS
CCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHCCCHHHHCCCCCCCCCCCEEECCCCC
ARPGGTAASVALKGKTTTVAKSKVTEVESKQTPASASATKTGTARTNTAAKPAKAAAEDT
CCCCCCEEEEEECCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
KRTAQAEATPTTPPAPRAEAAAEPKKRGRKPKAETQADDSSTDVTEEFDTPAAPAPKTEK
HHHHCCCCCCCCCCCCCCHHCCCHHHCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCHH
LKARDRKAKEKALLKEFAASQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPD
HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCC
DMVDVESLETLVATLNDIGVAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDS
HHHHHHHHHHHHHHHHHHCEEEEECCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHH
EFGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEAGLKDMVMAISACPVTISEILAMGE
HHCCCCHHHHHHHHHCCCEEEEECCCCEEEHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
RVANDEAKIDEYIDGLIDPNAEADAAAAAEEEEEFEEEEAEEEGDEEEDEDDEGAGAAAA
HHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHH
SARQLEELKQAALLKFGVIGEQFDKMRRAFEKEGYKSKPYVKAQEAIQAELMTIRFTARN
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHEEHHHHH
VERLCDTLRGQVDEVRKLERAILNIVVDKCGMPRSDFVARFPGNETNLKWIETVVADGKP
HHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHCEEECCCCCCCHHHHHHHHHCCCC
YSTIVERNVPAVHELQQKLIDLQARVVLPLTELKDVNRKMSEGERRAREAKREMTEANLR
HHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD
HHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
QARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPI
HHHEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCC
SMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGI
CCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCC
EMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS
CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCC

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