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The map label for this gene is rpoD [H]

Identifier: 13472238

GI number: 13472238

Start: 2000084

End: 2002108

Strand: Reverse

Name: rpoD [H]

Synonym: mll2466

Alternate gene names: 13472238

Gene position: 2002108-2000084 (Counterclockwise)

Preceding gene: 13472239

Following gene: 13472237

Centisome position: 28.45

GC content: 63.01

Gene sequence:

>2025_bases
ATGGCGACTAAGGAAAAGGAAGAGGTCGAGACCGAACGCGAAGGCGCCACCGATGGCCCTCTGCTCGACCTTTCCGATGA
TGCTGTCAAGAAGATGATCAAGGCCGCCAAGAAGCGCGGCTATGTCACGATGGACGAGCTGAATTCGGTACTGCCTTCCG
AGGAAGTGACCTCCGAGCAGATCGAGGACACGATGGCGATGCTGTCCGACATGGGCATCAACGTCGTCGAGGATGACGAG
CAGGGCGAAGAGGCCGAGGCTGGCGACACCGCGGCCGACGCCGAGGAAGACGCCAACGAGCTGGCCGAACAGACCGGCAC
GGCGGTCGCCGCCACCACCACCAAGAAAGAGCCGACTGACCGCACCGACGATCCGGTGCGCATGTATCTGCGCGAGATGG
GCTCGGTGGAGCTTCTGTCGCGCGAGGGCGAAATCGCCATTGCCAAGCGCATCGAGGCCGGCCGCGAGACGATGATCGCG
GGCCTATGCGAAAGCCCGCTTACCTTCCAGGCCATCATCATCTGGCGCGACGAGCTCAACGAATCCAAGATCCTGCTGCG
CGAGATCATCGACCTCGAAGCCACCTATGCCGGCCCGGAAGCCAAGCAGGCGCCAGTGGTCGAGCGCATCGAGGAAGCGC
CCAAGGCCGAGGAAAAGCCGCGGCGCGGGCGCGACGATGAAGACGACGTCACCAATGTCGGCGCCGATACGCGCGGCATC
GGGGACGACGACGAGGAAGACGAGGACGAGGCGAGCCTGTCGCTGGCGGCGATGGAAGCCGAACTGCGCCCGCAGGTGAT
GGAGACGCTCGACGTCATCGCCGACACCTACAAGAAGCTGCGCAAGCTGCAGGACCAGCAGGTCGAGAACCGTCTGGCCG
CCGCCGGCACGCTGTCGCCCAGCCAGGACCGCCGGCTGAAGGAGCTGAAGGACCAGCTGATCAAGGCGGTGAAGTCGCTG
TCGCTCAACACGGCGCGCATCGAGGCGCTGGTCGAGCAGCTTTACGACATCAACAAGCGCCTGGTGCAGAACGAGGGCAA
GCTGTTGCGCCTCGCCGAAAGCTATGGCGTGCGCCGCGAGGAGTTCCTGAAGGAATATCAGGGTTCCGAACTCGACCCCA
ACTGGACGCGTGCGATCGGCAACCTGACCTCGCGCGGCTGGAAGGAATTCACCAAGAACGAGAAGGACGCGATCAAGGAC
CTGCGCGCCGAGATTCAGCACCTGGCCACCGAAACGGCGATCTCGATCCTGGAATTCCGCAAGATCGTCAACCAGGTGCA
GAAGGGCGAGCGCGAAGCCGCGATCGCCAAGAAGGAAATGGTCGAGGCCAATCTGCGCCTCGTCATCTCCATCGCCAAGA
AATACACCAATCGCGGCTTGCAGTTCCTCGACCTGATCCAGGAAGGCAATATCGGCCTGATGAAGGCGGTCGATAAGTTC
GAATACCGCCGCGGCTACAAGTTCTCGACCTACGCGACATGGTGGATCCGGCAGGCGATCACGCGTTCGATCGCCGACCA
GGCGCGCACCATCCGCATTCCGGTGCACATGATCGAGACGATCAACAAGATCGTGCGCACCTCGCGCCAGATGCTGCACG
AGATCGGCCGCGAGCCGACGCCGGAAGAACTGGCCGAAAAGCTCGCCATGCCGCTCGAAAAAGTGCGCAAGGTCTTGAAG
ATCGCCAAGGAGCCGATCTCGCTCGAAACGCCGGTCGGCGACGAGGAGGATTCGCATCTGGGCGATTTCATCGAGGACAA
GATGGCGATCCTGCCGATCGACGCGGCGATCCAGGCCAATCTGCGCGAGACCACGACGCGGGTTCTCGCCTCGCTGACGC
CGCGCGAGGAGCGTGTGCTGCGCATGCGCTTCGGCATCGGCATGAACACCGACCACACGCTGGAAGAAGTCGGCCAGCAG
TTCTCGGTCACCCGCGAGCGTATCCGCCAGATCGAAGCCAAGGCGCTGCGCAAGCTCAAGCACCCGAGCAGATCGCGCAA
GCTGCGCAGCTTCCTCGACAGCTGA

Upstream 100 bases:

>100_bases
TGGCCCGGTGAGGCGCGTTTAAAAAACGAGCGTATCCGATTTGACTGGTCCGACAGCTTACGCGGCCCCAAAGCTTGGCC
GCTAGGAGAAGATAAAAATT

Downstream 100 bases:

>100_bases
GACATACCGACAGCAAGACCAACAAGGGCGCCACTGGCGCCCTTTTTCGTTTGTGGCACGCGCTCTTGCGGCTCACTCCC
TTCGGGAGGATACTTTCCAA

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 674; Mature: 673

Protein sequence:

>674_residues
MATKEKEEVETEREGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINVVEDDE
QGEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIA
GLCESPLTFQAIIIWRDELNESKILLREIIDLEATYAGPEAKQAPVVERIEEAPKAEEKPRRGRDDEDDVTNVGADTRGI
GDDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVENRLAAAGTLSPSQDRRLKELKDQLIKAVKSL
SLNTARIEALVEQLYDINKRLVQNEGKLLRLAESYGVRREEFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKD
LRAEIQHLATETAISILEFRKIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLK
IAKEPISLETPVGDEEDSHLGDFIEDKMAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ
FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS

Sequences:

>Translated_674_residues
MATKEKEEVETEREGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINVVEDDE
QGEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIA
GLCESPLTFQAIIIWRDELNESKILLREIIDLEATYAGPEAKQAPVVERIEEAPKAEEKPRRGRDDEDDVTNVGADTRGI
GDDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVENRLAAAGTLSPSQDRRLKELKDQLIKAVKSL
SLNTARIEALVEQLYDINKRLVQNEGKLLRLAESYGVRREEFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKD
LRAEIQHLATETAISILEFRKIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLK
IAKEPISLETPVGDEEDSHLGDFIEDKMAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ
FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS
>Mature_673_residues
ATKEKEEVETEREGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINVVEDDEQ
GEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAG
LCESPLTFQAIIIWRDELNESKILLREIIDLEATYAGPEAKQAPVVERIEEAPKAEEKPRRGRDDEDDVTNVGADTRGIG
DDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVENRLAAAGTLSPSQDRRLKELKDQLIKAVKSLS
LNTARIEALVEQLYDINKRLVQNEGKLLRLAESYGVRREEFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKDL
RAEIQHLATETAISILEFRKIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKI
AKEPISLETPVGDEEDSHLGDFIEDKMAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQF
SVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS

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=648, Percent_Identity=48.1481481481481, Blast_Score=502, Evalue=1e-143,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.6666666666667, Blast_Score=213, Evalue=4e-56,
Organism=Escherichia coli, GI1789871, Length=248, Percent_Identity=28.6290322580645, Blast_Score=82, Evalue=2e-16,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=69, Evalue=8e-13,

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: 76256; Mature: 76125

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:

0.1 %Cys     (Translated Protein)
2.8 %Met     (Translated Protein)
3.0 %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
MATKEKEEVETEREGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQ
CCCCCHHHHHHHHCCCCCCCEECCCHHHHHHHHHHHHHCCCEEHHHHHHHCCCHHHHHHH
IEDTMAMLSDMGINVVEDDEQGEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTD
HHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHCCEEEEECCCCCCCC
RTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELN
CCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCC
ESKILLREIIDLEATYAGPEAKQAPVVERIEEAPKAEEKPRRGRDDEDDVTNVGADTRGI
HHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCHHHHHCCCCCCCC
GDDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVENRLAAAGTLSP
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
SQDRRLKELKDQLIKAVKSLSLNTARIEALVEQLYDINKRLVQNEGKLLRLAESYGVRRE
HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHEEEHHHHCCCHH
EFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKDLRAEIQHLATETAISILEFR
HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
KIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
HHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHH
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPT
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCC
PEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKMAILPIDAAIQAN
HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCHHEEECHHHHHHH
LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK
HHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSRKLRSFLDS
CCHHHHHHHHHHCC
>Mature Secondary Structure 
ATKEKEEVETEREGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQ
CCCCHHHHHHHHCCCCCCCEECCCHHHHHHHHHHHHHCCCEEHHHHHHHCCCHHHHHHH
IEDTMAMLSDMGINVVEDDEQGEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTD
HHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHCCEEEEECCCCCCCC
RTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELN
CCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCC
ESKILLREIIDLEATYAGPEAKQAPVVERIEEAPKAEEKPRRGRDDEDDVTNVGADTRGI
HHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCHHHHHCCCCCCCC
GDDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVENRLAAAGTLSP
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
SQDRRLKELKDQLIKAVKSLSLNTARIEALVEQLYDINKRLVQNEGKLLRLAESYGVRRE
HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHEEEHHHHCCCHH
EFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKDLRAEIQHLATETAISILEFR
HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
KIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
HHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHH
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPT
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCC
PEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKMAILPIDAAIQAN
HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCHHEEECHHHHHHH
LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK
HHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSRKLRSFLDS
CCHHHHHHHHHHCC

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]