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The map label for this gene is rpoD [H]

Identifier: 86751238

GI number: 86751238

Start: 4703578

End: 4705722

Strand: Reverse

Name: rpoD [H]

Synonym: RPB_4131

Alternate gene names: 86751238

Gene position: 4705722-4703578 (Counterclockwise)

Preceding gene: 86751239

Following gene: 86751237

Centisome position: 88.26

GC content: 64.06

Gene sequence:

>2145_bases
ATGGCCAGCAAGGCGAAGACGGTTCAGTTGAAAGACAAGGAAAAGGACGACAAGGCCGACGCGCCGGAGAAGGACTCCGC
CGACGCTCCCTCGCCGTTGCTCGACCTGTCGGACGCGGCCGTCAAGAAGATGATCAAGCAGGCCAAGAAGCGCGGCTTCG
TGACCTTCGATCAGCTCAACGAAGTGCTGCCGTCCGACACCACGTCGCCGGAGCAGATCGAGGACATCATGTCGATGCTC
TCCGACATGGGCATCAACGTGTCCGAGGCGGAAGAGAGCGACAGCGAGGACGAGGACGCCAAGGACGAGGCCGAGGAAGA
GCCCGATAACGACCTCGTCGAGGTCACCCAGAAGGCCGTCACCGAGACCAAGAAGTCCGAGCCCGGCGAGCGCACCGACG
ATCCCGTCCGGATGTATCTGCGCGAGATGGGCACCGTCGAGCTGCTGTCGCGCGAGGGCGAAATCGCCATCGCCAAGCGG
ATCGAGGCCGGCCGCGAGGCGATGATCGCCGGACTCTGCGAAAGCCCGCTGACCTTCCAGGCGATCATCATCTGGCGCGA
CGAGCTCAACGAAGGCAAGATCTTCCTTCGCGACATCATCGATCTCGAAGCCACCTATGCGGGCCCCGACGCCAAGGCCA
ACATGAACCCTGCGATGGCCGAGGGCGCCGGCGAGGAAGCCAGCGCCGAAGGCGAGGCCGACGCCGGAGCGCCCGCGCAT
GTCGCGCCGCCCGCCGCGCCGCCGACGGCGACGCCGTTCCGTCCCGCGCAGCAGCGCTCGGCGCCCGCCGCGGCCCCGGC
CGCCGGCGAGGGCGGCGGTGAAGGCGCCGCCGAAGGCGACATGGACGACGACGAGTTCGAGAACCAGATGTCGCTCGCCG
CCATCGAGGCCGAACTCAAGCCGAAGGTGGTCGAGACCTTCGACAAGATCGCCGACAACTACAAGAAGCTGCGCAAGCTG
CAAGAGCAGGACATCGCCAACCAGCTCGAAAGCGCGTCGCAGGGGCCGTCGCTGTCGCCCTCGCAGGAGCGCAAATACAA
GAAGCTCAAGGACGAAATCATCGTCGAGGTGAAGTCGCTGCGGCTCAATCAGGCGCGTATCGACTCACTGGTCGAGCAGC
TCTACGACATCAACAAGAAGCTGGTGTCGTTCGAAGGCCGGCTGCTGCGCCTCGGCGACAGCCACGGCGTGGCGCGCGAG
GACTTCCTGCGCAACTATCAGGGCTCCGAGCTCGATCCGCGCTGGCTCAACCGCGTCTCGAAACTCTCCGCCAAGGGCTG
GAAGAACTTCGTCCATTTCGAGAAGGACCGGATCCGCGAGCTGCGCCAGGAAATCCAGTCGATGGCCGCGCTCACCGGGC
TCGAGATCGGCGAATTCCGCAAGATCGTGCATTCGGTGCAGAAGGGCGAGCGCGAAGCCCGCCAGGCCAAGAAGGAAATG
GTCGAGGCCAACCTGCGTCTGGTGATCTCGATTGCCAAGAAATACACCAACCGCGGCCTGCAGTTCCTCGATCTCATTCA
GGAAGGCAATATCGGCCTGATGAAGGCGGTCGACAAATTCGAATATCGCCGCGGCTACAAATTCTCCACCTATGCGACGT
GGTGGATCCGGCAGGCGATCACGCGTTCGATCGCCGACCAGGCCCGCACCATCCGCATTCCGGTGCACATGATCGAGACG
ATCAACAAGATCGTGCGCACCTCGCGGCAGATGCTCAACGAGATCGGCCGCGAGCCGACCCCGGAAGAGCTCGCCGAGAA
GCTCGGCATGCCGCTGGAGAAGGTCCGCAAGGTCCTCAAGATCGCCAAGGAGCCGCTGTCGCTCGAAACCCCGGTGGGTG
ACGAAGAGGACAGCCATCTCGGCGACTTCATCGAGGACAAGAACGCGGTGCTGCCGATCGACGCCGCGATCCAGTCGAAC
CTGCGCGAAACCACGACGCGCGTGCTCGCCTCGCTCACCCCGCGCGAAGAACGCGTGCTGCGCATGCGCTTCGGCATCGG
CATGAACACCGACCACACGCTGGAAGAAGTCGGCCAGCAGTTCTCGGTCACCCGCGAACGCATCCGCCAGATCGAAGCCA
AGGCGCTGCGCAAGTTGAAGCATCCGAGCCGGTCAAGGAAGCTGCGGAGCTTCTTGGACAACTGA

Upstream 100 bases:

>100_bases
AGCGCCGCCCTTTGCGTGTCTCACCCGGCAAGGCGAATTTTAAGGCGAGTTTTTGACGGCGCGGCGACGCGATCGTCATG
CGCGCGTTCAGGAGCAGTGA

Downstream 100 bases:

>100_bases
GACGATCAACCAGCGTCGTCATTGCCGGGCTTGACCCGGCAATCCATCACTCTTCAGGATGGATGCCCGGATCGAGTCCG
GGCCTGCCGCCGGCAAGCGA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-A; Major vegetative sigma factor [H]

Number of amino acids: Translated: 714; Mature: 713

Protein sequence:

>714_residues
MASKAKTVQLKDKEKDDKADAPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSML
SDMGINVSEAEESDSEDEDAKDEAEEEPDNDLVEVTQKAVTETKKSEPGERTDDPVRMYLREMGTVELLSREGEIAIAKR
IEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPDAKANMNPAMAEGAGEEASAEGEADAGAPAH
VAPPAAPPTATPFRPAQQRSAPAAAPAAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKL
QEQDIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFEGRLLRLGDSHGVARE
DFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHFEKDRIRELRQEIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEM
VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
INKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSN
LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN

Sequences:

>Translated_714_residues
MASKAKTVQLKDKEKDDKADAPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSML
SDMGINVSEAEESDSEDEDAKDEAEEEPDNDLVEVTQKAVTETKKSEPGERTDDPVRMYLREMGTVELLSREGEIAIAKR
IEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPDAKANMNPAMAEGAGEEASAEGEADAGAPAH
VAPPAAPPTATPFRPAQQRSAPAAAPAAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKL
QEQDIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFEGRLLRLGDSHGVARE
DFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHFEKDRIRELRQEIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEM
VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
INKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSN
LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN
>Mature_713_residues
ASKAKTVQLKDKEKDDKADAPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLS
DMGINVSEAEESDSEDEDAKDEAEEEPDNDLVEVTQKAVTETKKSEPGERTDDPVRMYLREMGTVELLSREGEIAIAKRI
EAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPDAKANMNPAMAEGAGEEASAEGEADAGAPAHV
APPAAPPTATPFRPAQQRSAPAAAPAAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKLQ
EQDIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFEGRLLRLGDSHGVARED
FLRNYQGSELDPRWLNRVSKLSAKGWKNFVHFEKDRIRELRQEIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEMV
EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI
NKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSNL
RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN

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=402, Percent_Identity=58.4577114427861, Blast_Score=445, Evalue=1e-126,
Organism=Escherichia coli, GI1789098, Length=246, Percent_Identity=39.8373983739837, Blast_Score=211, Evalue=1e-55,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=27.6859504132231, Blast_Score=88, Evalue=2e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=73, Evalue=6e-14,

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: 80014; Mature: 79882

Theoretical pI: Translated: 4.98; Mature: 4.98

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
2.8 %Met     (Translated Protein)
2.9 %Cys+Met (Translated Protein)
0.1 %Cys     (Mature Protein)
2.7 %Met     (Mature Protein)
2.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MASKAKTVQLKDKEKDDKADAPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLN
CCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHH
EVLPSDTTSPEQIEDIMSMLSDMGINVSEAEESDSEDEDAKDEAEEEPDNDLVEVTQKAV
HHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHCCCCHHHHHHHHHHH
TETKKSEPGERTDDPVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQ
HHHHCCCCCCCCCHHHHHHHHHHCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEE
AIIIWRDELNEGKIFLRDIIDLEATYAGPDAKANMNPAMAEGAGEEASAEGEADAGAPAH
EEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCC
VAPPAAPPTATPFRPAQQRSAPAAAPAAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELK
CCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHC
PKVVETFDKIADNYKKLRKLQEQDIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHH
RLNQARIDSLVEQLYDINKKLVSFEGRLLRLGDSHGVAREDFLRNYQGSELDPRWLNRVS
HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHCCCCCCCCHHHHHHHH
KLSAKGWKNFVHFEKDRIRELRQEIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEM
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI
HHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
TRSIADQARTIRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLK
HHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHH
IAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVL
HHHCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHCCCHHHHHH
RMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN
HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCC
>Mature Secondary Structure 
ASKAKTVQLKDKEKDDKADAPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLN
CCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHH
EVLPSDTTSPEQIEDIMSMLSDMGINVSEAEESDSEDEDAKDEAEEEPDNDLVEVTQKAV
HHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHCCCCHHHHHHHHHHH
TETKKSEPGERTDDPVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQ
HHHHCCCCCCCCCHHHHHHHHHHCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEE
AIIIWRDELNEGKIFLRDIIDLEATYAGPDAKANMNPAMAEGAGEEASAEGEADAGAPAH
EEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCC
VAPPAAPPTATPFRPAQQRSAPAAAPAAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELK
CCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHC
PKVVETFDKIADNYKKLRKLQEQDIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHH
RLNQARIDSLVEQLYDINKKLVSFEGRLLRLGDSHGVAREDFLRNYQGSELDPRWLNRVS
HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHCCCCCCCCHHHHHHHH
KLSAKGWKNFVHFEKDRIRELRQEIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEM
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI
HHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
TRSIADQARTIRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLK
HHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHH
IAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVL
HHHCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHCCCHHHHHH
RMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN
HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCC

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: 8491721; 11743193; 11743194 [H]