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The map label for this gene is rpoD [H]

Identifier: 17546934

GI number: 17546934

Start: 2399820

End: 2402087

Strand: Reverse

Name: rpoD [H]

Synonym: RSc2215

Alternate gene names: 17546934

Gene position: 2402087-2399820 (Counterclockwise)

Preceding gene: 17546935

Following gene: 17546933

Centisome position: 64.63

GC content: 64.42

Gene sequence:

>2268_bases
GTGGCGAAATCGAAGATCACCGAAGTCGAGAGCAAAGAGTCCGCTGCCAGCGCACGCGCAGCCAAGACCGGTACCGCTCG
TACCAGCACCGCAAAGCCGAACAAGGCCGCGGATGCAGACACCAAGCGCACCGTTCGCGAGGCAGAGGCCATCCCCACCC
CAACTTCTCCTGCACCCCGCGCCGAGGCCGCGGCCGAGCCCAAGAAGCGCGGCCGCAAGCCCCGTGCCGGGGCGCAGGCA
GACGACGAAAGCAGCACGGACGTGACTGAAGAATTTGACGAAGCACCCGCCGCTCCGGCACCCAAATCCGACAAGCAGAA
GGCCCGCGACCGCAAGGCCAAGGAAAAAGCCCTGCTGAAGGAGTTTGCCGCAACGCAGCAAGGCGGGTCGGAAGAAGAGC
TCGAGGCACGCCGCCAGAAGCTCAAGGCGCTGATCAAGCTGGGCAAATCGCGCGGCTACCTGACCTACGCCGAAATCAAC
GACCATCTGCCCGACGACATGGTCGACGCAGAGTCGATGGACACGCTGGTCGCCACGCTCAACGACATCGGCATCGCCGT
GTACGAGCAGGCCCCGGACGCCGAGACCCTGCTGCTTAACGACAACGCGCCTTCCGTGACCACGGAAGAAGAGGCGGAAG
AGGAAGCCGAAGCCGCGCTGTCCACGGTCGACTCCGAATTCGGCCGCACGACCGACCCGGTGCGCATGTACATGCGCGAG
ATGGGCACGGTCGAGCTGCTCACCCGCGAAGGCGAAATCGAGATCGCCAAGCGCATCGAGGCCGGCCTGAAGGACATGGT
CATGGCCATCTCGGCCTGCCCGGTCACCATCTCCGAGATCCTCGCCATGGGCGAGCGCGTGGCCAACGATGAGGCCAAGA
TCGACGAGTACATCGACGGCCTGATCGACCCGAACGCCGACGCCGCCGAAGCCGCGCAGGCCGGCGACGAGGACGAAGAC
TTCGAGGACGAAGACGCCGACGAGAGCGGCGACGAAGAGGAAGACGAGGACGACGACGGCTCGGGCAGCTCGGCCGCATC
CGCGCGCCAGCTCGAAGAGCTCAAGCAGGCCGCGCTGGCGAAGTTCGCCATCATCGGCGACCAGTTCGAGAAGATGCGCC
GCGCCTTCGAGAAGGAAGGCTACAAGTCCAAGCCGTACCTGAAGGCGCAGGAAGCCATCCAGAACGAGCTGATGACGATC
CGCTTCACGGCACGCAATGTCGAGCGCCTGTGCGACACGCTGCGCGGCCAGGTCGACGAGGTGCGCAAGCTCGAGCGCGC
GATCCTGAACATCGTGGTCGACAAGTGCGGCATGTCGCGTGGCGATTTCGTCTCGCGTTTCCCTGGCAACGAAACCAACC
TCGGCTGGATCAACACGGTGGTCGCCGACGGCAAGCCGTACAGCGCCATCGTCGAGCGCAACATCCCGGCCGTGCACGAG
CTGCAGCAGAAGCTGATCGACCTGCAGGCGCGCGTGGTGCTGCCGCTGGCCGAGCTCAAGGACGTCAACAAGAAGATGTC
CGAAGGCGAGCGCCGCGCCCGCGAGGCCAAGCGCGAGATGACCGAGGCCAACCTCCGTCTGGTGATCTCCATTGCCAAGA
AGTACACCAACCGCGGCCTGCAGTTCCTCGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCGGTGGACAAGTTC
GAATACCGCCGCGGCTACAAGTTCTCGACGTACGCCACGTGGTGGATCCGCCAGGCCATCACGCGCTCGATCGCCGACCA
GGCGCGCACCATCCGGATTCCGGTGCACATGATCGAGACGATCAACAAGATGAACCGCATCTCGCGCCAGATCCTGCAGG
AAACCGGCAACGAGCCGGATCCGGCGACGCTGGCCGAGAAGATGGAGATGCCGGAAGACAAGATCCGCAAGATCATGAAG
ATCGCCAAGGAGCCGATCTCCATGGAAACGCCGATCGGTGACGACGACGACTCCCATCTGGGCGACTTCATCGAGGACAC
CAACACGCTGGCACCGGCCGAAGCGGCGCTGCATGGCTCCATGCGCGGCGTGGTGAAGGACGTGCTCGACTCGCTGACGC
CGCGCGAAGCCAAGGTGCTGCGCATGCGCTTCGGCATCGAGATGAGCACGGACCACACGCTGGAAGAGGTCGGCAAGCAG
TTCGACGTGACCCGCGAGCGTATCCGCCAGATCGAAGCGAAGGCGCTGCGCAAACTGCGCCACCCGAGCCGTTCGGACAA
GCTGAAGAGCTTCCTCGAGGGGAGCTGA

Upstream 100 bases:

>100_bases
ATCTTCAACCTCAGGCAAGGTCTCGACGTCGATGAGCACGAGCGCCAGACCTGGCGGCAAAGAAGCCGCTTCCGTCGCAC
TCAAGGGTAAGACAACCACC

Downstream 100 bases:

>100_bases
TCCAGCGCCGGCGTGATGTCTCGAGTGGGCTTGGCCACACTTTCGAGGTAAAATCCCGCCCGAGGCCCGGCCTAACCAGC
CGGGTCTCTTTTTTGCCGGC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 755; Mature: 754

Protein sequence:

>755_residues
MAKSKITEVESKESAASARAAKTGTARTSTAKPNKAADADTKRTVREAEAIPTPTSPAPRAEAAAEPKKRGRKPRAGAQA
DDESSTDVTEEFDEAPAAPAPKSDKQKARDRKAKEKALLKEFAATQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEIN
DHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMRE
MGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDGLIDPNADAAEAAQAGDEDED
FEDEDADESGDEEEDEDDDGSGSSAASARQLEELKQAALAKFAIIGDQFEKMRRAFEKEGYKSKPYLKAQEAIQNELMTI
RFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMSRGDFVSRFPGNETNLGWINTVVADGKPYSAIVERNIPAVHE
LQQKLIDLQARVVLPLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMK
IAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQ
FDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS

Sequences:

>Translated_755_residues
MAKSKITEVESKESAASARAAKTGTARTSTAKPNKAADADTKRTVREAEAIPTPTSPAPRAEAAAEPKKRGRKPRAGAQA
DDESSTDVTEEFDEAPAAPAPKSDKQKARDRKAKEKALLKEFAATQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEIN
DHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMRE
MGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDGLIDPNADAAEAAQAGDEDED
FEDEDADESGDEEEDEDDDGSGSSAASARQLEELKQAALAKFAIIGDQFEKMRRAFEKEGYKSKPYLKAQEAIQNELMTI
RFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMSRGDFVSRFPGNETNLGWINTVVADGKPYSAIVERNIPAVHE
LQQKLIDLQARVVLPLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMK
IAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQ
FDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS
>Mature_754_residues
AKSKITEVESKESAASARAAKTGTARTSTAKPNKAADADTKRTVREAEAIPTPTSPAPRAEAAAEPKKRGRKPRAGAQAD
DESSTDVTEEFDEAPAAPAPKSDKQKARDRKAKEKALLKEFAATQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEIND
HLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREM
GTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDGLIDPNADAAEAAQAGDEDEDF
EDEDADESGDEEEDEDDDGSGSSAASARQLEELKQAALAKFAIIGDQFEKMRRAFEKEGYKSKPYLKAQEAIQNELMTIR
FTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMSRGDFVSRFPGNETNLGWINTVVADGKPYSAIVERNIPAVHEL
QQKLIDLQARVVLPLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKI
AKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQF
DVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS

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=620, Percent_Identity=55.9677419354839, Blast_Score=652, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=41.3333333333333, Blast_Score=202, Evalue=7e-53,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=27.9835390946502, Blast_Score=87, Evalue=4e-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: 83953; Mature: 83822

Theoretical pI: Translated: 4.71; Mature: 4.71

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.4 %Cys     (Translated Protein)
3.2 %Met     (Translated Protein)
3.6 %Cys+Met (Translated Protein)
0.4 %Cys     (Mature Protein)
3.1 %Met     (Mature Protein)
3.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKSKITEVESKESAASARAAKTGTARTSTAKPNKAADADTKRTVREAEAIPTPTSPAPR
CCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCC
AEAAAEPKKRGRKPRAGAQADDESSTDVTEEFDEAPAAPAPKSDKQKARDRKAKEKALLK
CHHCCCHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHH
EFAATQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATL
HHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHCHHHHHHHHHHH
NDIGIAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMRE
HHHCEEEEECCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
MGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDG
CCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHH
LIDPNADAAEAAQAGDEDEDFEDEDADESGDEEEDEDDDGSGSSAASARQLEELKQAALA
HCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
KFAIIGDQFEKMRRAFEKEGYKSKPYLKAQEAIQNELMTIRFTARNVERLCDTLRGQVDE
HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCEEEEEHHHHHHHHHHHHHCCHHH
VRKLERAILNIVVDKCGMSRGDFVSRFPGNETNLGWINTVVADGKPYSAIVERNIPAVHE
HHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCHHHHEEECCCCHHHHHHCCCCHHHH
LQQKLIDLQARVVLPLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHH
INKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHL
HHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHH
GDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQ
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHH
FDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS
HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCC
>Mature Secondary Structure 
AKSKITEVESKESAASARAAKTGTARTSTAKPNKAADADTKRTVREAEAIPTPTSPAPR
CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCC
AEAAAEPKKRGRKPRAGAQADDESSTDVTEEFDEAPAAPAPKSDKQKARDRKAKEKALLK
CHHCCCHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHH
EFAATQQGGSEEELEARRQKLKALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATL
HHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHCHHHHHHHHHHH
NDIGIAVYEQAPDAETLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMRE
HHHCEEEEECCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
MGTVELLTREGEIEIAKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYIDG
CCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHH
LIDPNADAAEAAQAGDEDEDFEDEDADESGDEEEDEDDDGSGSSAASARQLEELKQAALA
HCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
KFAIIGDQFEKMRRAFEKEGYKSKPYLKAQEAIQNELMTIRFTARNVERLCDTLRGQVDE
HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCEEEEEHHHHHHHHHHHHHCCHHH
VRKLERAILNIVVDKCGMSRGDFVSRFPGNETNLGWINTVVADGKPYSAIVERNIPAVHE
HHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCHHHHEEECCCCHHHHHHCCCCHHHH
LQQKLIDLQARVVLPLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHH
INKMNRISRQILQETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHL
HHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHH
GDFIEDTNTLAPAEAALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQ
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHH
FDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEGS
HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCC

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