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The map label for this gene is rpoD [H]

Identifier: 87200249

GI number: 87200249

Start: 2377635

End: 2379638

Strand: Direct

Name: rpoD [H]

Synonym: Saro_2235

Alternate gene names: 87200249

Gene position: 2377635-2379638 (Clockwise)

Preceding gene: 87200248

Following gene: 87200250

Centisome position: 66.76

GC content: 63.32

Gene sequence:

>2004_bases
ATGGCTTCGAACGACAAGACCGACAGCGGCGATGCTCCGCTGATCGACCTCAACGATGCATCGATCAAGAAGCTGATCGC
CCGCGCCAAGCGGCGCGGCATCATCACCTATGACGAGCTGAACGAGGCCCTGCCCCAGGACCAGATGTCCTCCGAGCAGA
TCGAGGACATCATGGCCGCGATCTCGGAGATGGGCGTCAACATCGTCGAGAGCGATGAAGATGCCGTCGATCCTGAAGAG
CGTGCGCAGGACGACGAACTCGACGAGGCCGAGACGGTCGAGGACCGCCCCGACGTCATCAAGCGCAAGGAAACGGTCGA
GCGCACCGACGACCCGGTCCGCATGTACCTGCGCGAAATGGGCGCGGTGGAACTGCTCAGCCGCGAGGGCGAAATCGCGA
TCGCGAAGCGCATCGAGGCCGGCCGCGACACGATGATCATGGGCCTTTGCGAAAGCCCGATCACCTTCCACGCGATCATC
CAGTGGTCCGAGGCGCTCAACGCCGGGGAAATGCAACTGCGCGAGATCCTCGATCTCGACGCGATGCTTTCCAAGGAGCC
GCAGCCCGAGAACCTCTCCGAGGACGGCGAGGAAGCCGAGCCCGAAATCAGCGAAGCCACCGCCGGTCCCACCTTCAAGG
AGGAAGAGGACATCGAGGAGGAGGAAACCGCTGACGACGAGGACGACGAACTGCGCGAACGCCGCGCGCGTCCGGCCGAG
GAAGAGGAAGAGGACAACACCCTCAGCCTCGCCCAGATGGAAGCCCAGCTCAAGCCTGCGGCGCTGGAGCGTTTCGCGGA
AATCACTTCGCTGTTCCGCCAGTTCGAGAAGATCCAGGCTGAACGCCTCAATGCGCTCGGCATGGGCAACGATTTCCCGG
CCGCGAGGGAAACGCAGTACCAGAAGCTGCGCGAAGACCTGACGGCACAGGTGGAATCGGTCCAGTTCCACGCCTCGAAG
ATCGAATACCTCGTCGACAACCTCTATGCGTTCAACCGCAGGCTGACGACGCTGGGCGGGCAGATGCTGCGCCTCGCCGA
ACGCCACAAAGTGCCGCGCAAGGACTTCCTCGACATGTACGTCGGGCGCGAGCTTGACGATGGCTGGTTGCAGGGCCTTG
CCGGGCGCGACAAGCGCTGGGCGGCGTTCGCGGCCAACGAGGCGACCCCGGTCGAGCGCATCCGTGCCGAGATATCGGAC
ATCGCCTCGGCCACCGGCATGTCGCTGGGCGAATTCCGCCGCATCGTGAACATGGTCCAGAAGGGCGAGCGCGAGGCACG
CATCGCCAAGAAGGAAATGGTCGAGGCCAACCTGCGCCTCGTGATCTCGATTGCCAAGAAGTACACGAACCGCGGCCTGC
AGTTCCTCGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCGGTCGACAAGTTCGAGTACCGCCGCGGCTACAAG
TTCTCGACCTACGCCACGTGGTGGATCAGGCAGGCGATCACGCGCTCGATCGCCGACCAGGCTCGCACGATCCGTATCCC
GGTCCACATGATCGAGACGATCAACAAGCTGGTCCGCACCAGCCGCCAGTTCCTGCACGAGCAGGGCCGCGAGCCAACGC
CCGAGGAAATGGCCGAGCGTCTGTCGATGCCGCTCGAAAAGGTCCGCAAGGTGATGAAGATCGCCAAGGAGCCGATCTCT
CTCGAAACGCCGATCGGTGACGAGGAAGATTCGCATCTGGGCGATTTCATCGAGGACAAGAACGCGATCATCCCGGTGGA
CGCCGCGATCCAGGCGAACCTCAAGGAAACGGTCACCCGCGTTCTTGCCAGCCTCACCCCGCGCGAGGAACGCGTGCTGC
GCATGCGCTTCGGCATCGGCATGAACACCGACCACACGCTCGAGGAAGTCGGCCAGCAGTTCTCGGTCACCCGCGAACGT
ATCCGCCAGATCGAGGCGAAGGCGCTGCGCAAGCTCAAGCACCCGAGCCGCAGCCGCAAGATGCGCTCGTTCCTTGACCA
ATGA

Upstream 100 bases:

>100_bases
GTTTGGGGCAAATGGGCCGTGCTCGTGCTGCGTTATAATTATACGAACGCGCAACCCGGGTCCGCCAAGACCCGGCTCTA
GATGGTGGTACCGGGGTTAA

Downstream 100 bases:

>100_bases
CGTCGCCGCCCCCGGACAGGACAGCCTGATCCGGGGGTATCGGCCCGAAGCCCTGCCGCTTCGCCTGCTGCGCCGCGAAC
TGCGCGACCTGCAGACCCAC

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 667; Mature: 666

Protein sequence:

>667_residues
MASNDKTDSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAAISEMGVNIVESDEDAVDPEE
RAQDDELDEAETVEDRPDVIKRKETVERTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIMGLCESPITFHAII
QWSEALNAGEMQLREILDLDAMLSKEPQPENLSEDGEEAEPEISEATAGPTFKEEEDIEEEETADDEDDELRERRARPAE
EEEEDNTLSLAQMEAQLKPAALERFAEITSLFRQFEKIQAERLNALGMGNDFPAARETQYQKLREDLTAQVESVQFHASK
IEYLVDNLYAFNRRLTTLGGQMLRLAERHKVPRKDFLDMYVGRELDDGWLQGLAGRDKRWAAFAANEATPVERIRAEISD
IASATGMSLGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPIS
LETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER
IRQIEAKALRKLKHPSRSRKMRSFLDQ

Sequences:

>Translated_667_residues
MASNDKTDSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAAISEMGVNIVESDEDAVDPEE
RAQDDELDEAETVEDRPDVIKRKETVERTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIMGLCESPITFHAII
QWSEALNAGEMQLREILDLDAMLSKEPQPENLSEDGEEAEPEISEATAGPTFKEEEDIEEEETADDEDDELRERRARPAE
EEEEDNTLSLAQMEAQLKPAALERFAEITSLFRQFEKIQAERLNALGMGNDFPAARETQYQKLREDLTAQVESVQFHASK
IEYLVDNLYAFNRRLTTLGGQMLRLAERHKVPRKDFLDMYVGRELDDGWLQGLAGRDKRWAAFAANEATPVERIRAEISD
IASATGMSLGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPIS
LETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER
IRQIEAKALRKLKHPSRSRKMRSFLDQ
>Mature_666_residues
ASNDKTDSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAAISEMGVNIVESDEDAVDPEER
AQDDELDEAETVEDRPDVIKRKETVERTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIMGLCESPITFHAIIQ
WSEALNAGEMQLREILDLDAMLSKEPQPENLSEDGEEAEPEISEATAGPTFKEEEDIEEEETADDEDDELRERRARPAEE
EEEDNTLSLAQMEAQLKPAALERFAEITSLFRQFEKIQAERLNALGMGNDFPAARETQYQKLREDLTAQVESVQFHASKI
EYLVDNLYAFNRRLTTLGGQMLRLAERHKVPRKDFLDMYVGRELDDGWLQGLAGRDKRWAAFAANEATPVERIRAEISDI
ASATGMSLGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISL
ETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI
RQIEAKALRKLKHPSRSRKMRSFLDQ

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=385, Percent_Identity=59.7402597402597, Blast_Score=450, Evalue=1e-127,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.6666666666667, Blast_Score=213, Evalue=2e-56,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=27.2727272727273, Blast_Score=82, Evalue=8e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=67, Evalue=4e-12,

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: 76224; Mature: 76093

Theoretical pI: Translated: 4.58; Mature: 4.58

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
3.7 %Met     (Translated Protein)
3.9 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
3.6 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MASNDKTDSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAA
CCCCCCCCCCCCCEEECCHHHHHHHHHHHHHCCCCCHHHHHHHCCCHHCCHHHHHHHHHH
ISEMGVNIVESDEDAVDPEERAQDDELDEAETVEDRPDVIKRKETVERTDDPVRMYLREM
HHHCCCEEEECCCCCCCCHHHCCCCCCCHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHH
GAVELLSREGEIAIAKRIEAGRDTMIMGLCESPITFHAIIQWSEALNAGEMQLREILDLD
HHHHHHHCCCCCHHHHHHHCCCCCEEEEHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHH
AMLSKEPQPENLSEDGEEAEPEISEATAGPTFKEEEDIEEEETADDEDDELRERRARPAE
HHHCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCHHCCCHHHCCCCCHHHHHHHHCCCCC
EEEEDNTLSLAQMEAQLKPAALERFAEITSLFRQFEKIQAERLNALGMGNDFPAARETQY
CCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
QKLREDLTAQVESVQFHASKIEYLVDNLYAFNRRLTTLGGQMLRLAERHKVPRKDFLDMY
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
VGRELDDGWLQGLAGRDKRWAAFAANEATPVERIRAEISDIASATGMSLGEFRRIVNMVQ
HCCCCCHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
KGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCC
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAER
CHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHH
LSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTR
HCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCEEECHHHHHHHHHHHHHH
VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRK
HHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
MRSFLDQ
HHHHHCC
>Mature Secondary Structure 
ASNDKTDSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAA
CCCCCCCCCCCCEEECCHHHHHHHHHHHHHCCCCCHHHHHHHCCCHHCCHHHHHHHHHH
ISEMGVNIVESDEDAVDPEERAQDDELDEAETVEDRPDVIKRKETVERTDDPVRMYLREM
HHHCCCEEEECCCCCCCCHHHCCCCCCCHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHH
GAVELLSREGEIAIAKRIEAGRDTMIMGLCESPITFHAIIQWSEALNAGEMQLREILDLD
HHHHHHHCCCCCHHHHHHHCCCCCEEEEHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHH
AMLSKEPQPENLSEDGEEAEPEISEATAGPTFKEEEDIEEEETADDEDDELRERRARPAE
HHHCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCHHCCCHHHCCCCCHHHHHHHHCCCCC
EEEEDNTLSLAQMEAQLKPAALERFAEITSLFRQFEKIQAERLNALGMGNDFPAARETQY
CCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
QKLREDLTAQVESVQFHASKIEYLVDNLYAFNRRLTTLGGQMLRLAERHKVPRKDFLDMY
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
VGRELDDGWLQGLAGRDKRWAAFAANEATPVERIRAEISDIASATGMSLGEFRRIVNMVQ
HCCCCCHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
KGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCC
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAER
CHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHH
LSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTR
HCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCEEECHHHHHHHHHHHHHH
VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRK
HHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
MRSFLDQ
HHHHHCC

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]