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The map label for this gene is rpoD [H]

Identifier: 103486468

GI number: 103486468

Start: 1003132

End: 1005141

Strand: Reverse

Name: rpoD [H]

Synonym: Sala_0979

Alternate gene names: 103486468

Gene position: 1005141-1003132 (Counterclockwise)

Preceding gene: 103486469

Following gene: 103486467

Centisome position: 30.05

GC content: 61.24

Gene sequence:

>2010_bases
ATGGCCACGAAGAACGAAGCCGATACCGACGCCCCGCTGATCGACCTGAACGAGGCCGACGTCAAAAAACTGATCGCGCG
CGGCAAGAAGCGCGGTTACCTGACCTATGACGAGCTCAATGCGGCGCTGCCGCAGGACGAAATGTCGTCCGAGCAGATCG
AGGATATCATGTCGGCCATCTCCGACATGGGCATCAACATCGTCGAAAGCGACGAGGATGTGCAGGAAGAGGCCGAGCAG
GAGGTCGACGACGAGGTCGATGTTTCGGCAGGCACCGGGTCGGTTTCGAACCCCGCGATCGAAAAGAAGAAGGAAACGGT
CGATCGCACCGACGATCCCGTGCGCATGTATCTGCGCGAAATGGGTGCGGTCGAATTGCTGTCCCGCGAGGGTGAAATCG
CGATCGCGAAGCGCATCGAGGCGGGCCGCGACACGATGATCCTCGGGCTTTGCGAAAGCCCGCTGACCTTCAACGCGATC
ATCGAATGGTCGAACGCGCTCAACAATGGCGACATGCAGCTGCGCGAGATCGTCGACCTCGAAGCGATGCTGTCGAAAGA
TCCGGCGCCTGAAAATCTCGACGAGGAAGGCGCCGAGGACGGCGAGATCAGCGAAAAGACCGCCGGCGTCTCGTTCAAGG
ACGAGGATGAGGTCGAGGAAGAGCCTGCCGCCGACGGCGACGACGAGGATGGCGAAGGCACATCGGGCAAGCGTGAAAGC
TTCGACGACGATGACGAGGACAATACGCTGAGCCTCGCCGCGATGGAGGAATTGCTCAAGCCCGACGCGCTTGAGAAGTT
CGCGAACATTACCAAAAGCTTCAAGGCGTTCCAGAAGCTTCAGGAAGCCCGGCTCGAAGCGCTGTCGAGTGGCGAGGAGT
TTCCGGCGGCGTCGGAAAAGAAATATCACAAGCTGCGCGAGGAACTCACCGCACAGGTCGAGAGCGTGCAGTTCCATGGC
ACCAAGATCGAATATCTGGTCGACCAGCTCTACAGCTACAACCGCCGCCTGACCGCGCTCGGCGGCCAGATGCTGCGCCT
TGCCGAGCGTCACAAGGTCCCGCGCAAGTCGTTCCTCGACCATTATGTCGGCCGCGAGCTCGAAGAAAACTGGCTTGAGG
AAGTCGCCGGCATCGACAAGAAATGGGCGGCGTTCGCCGAGAATGAGGCCGCCGCGGTCGATCGCATCCGCGTCGAGATC
AGCGAGATCGCGCAGGCCGCGGGCATGAGCCTGACCGAGTTCCGCCGCGTCGTGAACATGGTGCAGAAGGGCGAGCGCGA
GGCGCGCATCGCCAAGAAGGAAATGGTCGAGGCCAACCTGCGCCTCGTCATTTCGATCGCCAAGAAGTACACGAACCGCG
GGCTGCAGTTCCTCGACCTCATTCAGGAAGGGAACATCGGCCTGATGAAGGCGGTCGACAAGTTCGAATATCGCCGCGGC
TACAAGTTCAGCACCTATGCGACCTGGTGGATCCGCCAGGCGATCACCCGCTCGATCGCCGATCAGGCGCGTACGATCCG
TATCCCCGTCCATATGATCGAGACGATCAACAAGCTGGTGCGCTGCAGCCGCCAGTTCCTCCACGAAAGCGGCCGCGAGC
CGACCCCGGAGGAAATGGCCGAGCGGCTGTCGATGCCGCTCGAAAAGGTCCGCAAGGTGATGAAGATCGCCAAGGAGCCG
ATCAGCCTCGAAACGCCGATCGGCGACGAGGAAGACAGCCACCTCGGCGATTTCATCGAGGACAAGAATGCGGTGATACC
GGTCGATGCCGCGGTGCAGTCGAACCTCAAGGAAACCGTCACCCGCGTCCTTGCATCGCTCACCCCGCGCGAGGAACGCG
TGCTGCGTATGCGCTTCGGCATCGGCATGAACACCGACCATACGCTCGAAGAAGTGGGTCAGCAGTTCAGCGTGACCCGC
GAACGCATCCGCCAGATCGAGGCAAAAGCCCTCCGCAAGCTCAAGCACCCGTCGCGGTCGCGCAAGATGCGGTCGTTCCT
TGACCAGTAG

Upstream 100 bases:

>100_bases
TGCGCGCGATGGACGAGGATCTGACCCGCCGCCTGGCCGCGCTGTCCGACAGCCGCAGCCAGTAACGACCCGTAAATGCC
CCCGCAGGCAAGGAACAAGA

Downstream 100 bases:

>100_bases
GCGCGGCGCCTAACCCGCTGACGACATTCATCGAATTATGACAGCGGTCGGTCTAACCGGCCGCCTTTTTTCACACACAT
CTTGTAGGAGCATTGCCGCC

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 669; Mature: 668

Protein sequence:

>669_residues
MATKNEADTDAPLIDLNEADVKKLIARGKKRGYLTYDELNAALPQDEMSSEQIEDIMSAISDMGINIVESDEDVQEEAEQ
EVDDEVDVSAGTGSVSNPAIEKKKETVDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMILGLCESPLTFNAI
IEWSNALNNGDMQLREIVDLEAMLSKDPAPENLDEEGAEDGEISEKTAGVSFKDEDEVEEEPAADGDDEDGEGTSGKRES
FDDDDEDNTLSLAAMEELLKPDALEKFANITKSFKAFQKLQEARLEALSSGEEFPAASEKKYHKLREELTAQVESVQFHG
TKIEYLVDQLYSYNRRLTALGGQMLRLAERHKVPRKSFLDHYVGRELEENWLEEVAGIDKKWAAFAENEAAAVDRIRVEI
SEIAQAAGMSLTEFRRVVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG
YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLHESGREPTPEEMAERLSMPLEKVRKVMKIAKEP
ISLETPIGDEEDSHLGDFIEDKNAVIPVDAAVQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTR
ERIRQIEAKALRKLKHPSRSRKMRSFLDQ

Sequences:

>Translated_669_residues
MATKNEADTDAPLIDLNEADVKKLIARGKKRGYLTYDELNAALPQDEMSSEQIEDIMSAISDMGINIVESDEDVQEEAEQ
EVDDEVDVSAGTGSVSNPAIEKKKETVDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMILGLCESPLTFNAI
IEWSNALNNGDMQLREIVDLEAMLSKDPAPENLDEEGAEDGEISEKTAGVSFKDEDEVEEEPAADGDDEDGEGTSGKRES
FDDDDEDNTLSLAAMEELLKPDALEKFANITKSFKAFQKLQEARLEALSSGEEFPAASEKKYHKLREELTAQVESVQFHG
TKIEYLVDQLYSYNRRLTALGGQMLRLAERHKVPRKSFLDHYVGRELEENWLEEVAGIDKKWAAFAENEAAAVDRIRVEI
SEIAQAAGMSLTEFRRVVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG
YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLHESGREPTPEEMAERLSMPLEKVRKVMKIAKEP
ISLETPIGDEEDSHLGDFIEDKNAVIPVDAAVQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTR
ERIRQIEAKALRKLKHPSRSRKMRSFLDQ
>Mature_668_residues
ATKNEADTDAPLIDLNEADVKKLIARGKKRGYLTYDELNAALPQDEMSSEQIEDIMSAISDMGINIVESDEDVQEEAEQE
VDDEVDVSAGTGSVSNPAIEKKKETVDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMILGLCESPLTFNAII
EWSNALNNGDMQLREIVDLEAMLSKDPAPENLDEEGAEDGEISEKTAGVSFKDEDEVEEEPAADGDDEDGEGTSGKRESF
DDDDEDNTLSLAAMEELLKPDALEKFANITKSFKAFQKLQEARLEALSSGEEFPAASEKKYHKLREELTAQVESVQFHGT
KIEYLVDQLYSYNRRLTALGGQMLRLAERHKVPRKSFLDHYVGRELEENWLEEVAGIDKKWAAFAENEAAAVDRIRVEIS
EIAQAAGMSLTEFRRVVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLHESGREPTPEEMAERLSMPLEKVRKVMKIAKEPI
SLETPIGDEEDSHLGDFIEDKNAVIPVDAAVQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE
RIRQIEAKALRKLKHPSRSRKMRSFLDQ

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=348, Percent_Identity=62.6436781609195, Blast_Score=444, Evalue=1e-125,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.2222222222222, Blast_Score=213, Evalue=2e-56,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=27.5720164609054, Blast_Score=83, Evalue=6e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.2178217821782, Blast_Score=69, Evalue=1e-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: 75712; Mature: 75581

Theoretical pI: Translated: 4.54; Mature: 4.54

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
3.3 %Met     (Translated Protein)
3.6 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
3.1 %Met     (Mature Protein)
3.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MATKNEADTDAPLIDLNEADVKKLIARGKKRGYLTYDELNAALPQDEMSSEQIEDIMSAI
CCCCCCCCCCCCEEECCHHHHHHHHHCCCCCCCCCHHHHHHCCCCHHCCHHHHHHHHHHH
SDMGINIVESDEDVQEEAEQEVDDEVDVSAGTGSVSNPAIEKKKETVDRTDDPVRMYLRE
HHCCCEEECCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHH
MGAVELLSREGEIAIAKRIEAGRDTMILGLCESPLTFNAIIEWSNALNNGDMQLREIVDL
HHHHHHHHCCCCCHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCHHHHHHHHH
EAMLSKDPAPENLDEEGAEDGEISEKTAGVSFKDEDEVEEEPAADGDDEDGEGTSGKRES
HHHHCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCC
FDDDDEDNTLSLAAMEELLKPDALEKFANITKSFKAFQKLQEARLEALSSGEEFPAASEK
CCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHH
KYHKLREELTAQVESVQFHGTKIEYLVDQLYSYNRRLTALGGQMLRLAERHKVPRKSFLD
HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCHHHHHH
HYVGRELEENWLEEVAGIDKKWAAFAENEAAAVDRIRVEISEIAQAAGMSLTEFRRVVNM
HHHCCHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
VQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG
HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCC
YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLHESGREPTPEEMA
CCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHH
ERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAVIPVDAAVQSNLKETV
HHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCEEECHHHHHHHHHHHH
TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRS
HHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
RKMRSFLDQ
HHHHHHHCC
>Mature Secondary Structure 
ATKNEADTDAPLIDLNEADVKKLIARGKKRGYLTYDELNAALPQDEMSSEQIEDIMSAI
CCCCCCCCCCCEEECCHHHHHHHHHCCCCCCCCCHHHHHHCCCCHHCCHHHHHHHHHHH
SDMGINIVESDEDVQEEAEQEVDDEVDVSAGTGSVSNPAIEKKKETVDRTDDPVRMYLRE
HHCCCEEECCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHH
MGAVELLSREGEIAIAKRIEAGRDTMILGLCESPLTFNAIIEWSNALNNGDMQLREIVDL
HHHHHHHHCCCCCHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCHHHHHHHHH
EAMLSKDPAPENLDEEGAEDGEISEKTAGVSFKDEDEVEEEPAADGDDEDGEGTSGKRES
HHHHCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCC
FDDDDEDNTLSLAAMEELLKPDALEKFANITKSFKAFQKLQEARLEALSSGEEFPAASEK
CCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHH
KYHKLREELTAQVESVQFHGTKIEYLVDQLYSYNRRLTALGGQMLRLAERHKVPRKSFLD
HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCHHHHHH
HYVGRELEENWLEEVAGIDKKWAAFAENEAAAVDRIRVEISEIAQAAGMSLTEFRRVVNM
HHHCCHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
VQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG
HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCC
YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLHESGREPTPEEMA
CCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHH
ERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAVIPVDAAVQSNLKETV
HHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCEEECHHHHHHHHHHHH
TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRS
HHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
RKMRSFLDQ
HHHHHHHCC

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]