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The map label for this gene is rpoD [H]

Identifier: 29143472

GI number: 29143472

Start: 3219261

End: 3221243

Strand: Direct

Name: rpoD [H]

Synonym: t3131

Alternate gene names: 29143472

Gene position: 3219261-3221243 (Clockwise)

Preceding gene: 29143471

Following gene: 29143475

Centisome position: 67.18

GC content: 52.8

Gene sequence:

>1983_bases
ATGCCGCATATCGTTCGGGAAGCCCCCGACAGCCGCAGTGAGAGGCAGCGGCCAAAATATAAGTATGCCCTCGCTTTAAA
TGTCGACAGCTATACCGTCGACACCAATCAAACGAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGC
TGAAACTTCTTGTCACCCGTGGTAAGGAGCAAGGCTATCTGACCTATGCTGAGGTCAATGACCATCTGCCGGAAGATATC
GTCGATTCAGATCAAATTGAAGATATCATCCAAATGATCAACGACATGGGTATTCAGGTAATGGAAGAAGCGCCTGATGC
CGATGATCTGCTGCTGGCTGAAAATACCACCAGCACCGATGAAGATGCGGAAGAAGCTGCTGCACAAGTTCTGTCCAGTG
TTGAGTCTGAAATCGGTCGTACGACTGACCCGGTACGCATGTATATGCGTGAAATGGGCACTGTTGAACTGTTGACCCGG
GAAGGCGAAATCGACATCGCTAAACGTATCGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCCGAATACCCGGAAGC
CATTACCTATCTGCTGGAACAGTACGATCGCGTTGAGGCTGAAGAGGCTCGTTTGTCCGATCTTATCACCGGCTTTGTCG
ATCCGAACGCGGAAGAAGAGATGGCGCCGACCGCAACTCACGTCGGTTCTGAACTCTCCCAGGAAGACCTGGATGATGAC
GAAGACGAAGATGAAGAAGACGGCGACGATGACGCCGCCGATGACGACAACAGCATTGACCCTGAACTGGCACGCGAAAA
ATTCGCTGAACTGCGCGCGCAATACGTCGTTACGCGCGACACCATCAAAGCGAAAGGCCGCAGCCATGCTGCCGCGCAGG
AAGAGATTCTGAAGCTGTCTGAAGTGTTCAAACAGTTCCGTCTGGTACCGAAGCAATTCGACTATCTGGTCAACAGTATG
CGCGTGATGATGGATCGCGTGCGTACTCAGGAACGTCTGATCATGAAGCTCTGCGTCGAGCAGTGCAAAATGCCGAAGAA
GAACTTTATCACGCTGTTTACCGGTAACGAAACCAGCGAAACCTGGTTCAATGCCGCTATCGCGATGAACAAACCGTGGT
CGGAAAAACTGCACGATGTCGCGGAAGAAGTGCAACGCTGCCTGCAAAAACTGCGGCAGATAGAAGAAGAGACCGGTCTG
ACCATCGAACAGGTGAAAGACATCAACCGTCGCATGTCCATCGGGGAAGCGAAAGCCCGCCGTGCGAAAAAAGAGATGGT
TGAAGCGAACTTGCGTCTGGTTATTTCTATCGCCAAGAAATACACCAACCGAGGTCTGCAGTTCCTCGATCTGATTCAGG
AAGGCAACATCGGTCTGATGAAAGCGGTAGATAAGTTCGAATACCGTCGTGGTTACAAGTTCTCCACCTACGCTACCTGG
TGGATTCGTCAGGCGATCACCCGCTCTATCGCCGACCAGGCGCGCACCATCCGTATTCCGGTGCATATGATTGAGACCAT
CAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGCGAGCCAACGCCGGAAGAGCTGGCTGAACGGA
TGCTGATGCCGGAAGATAAAATTCGTAAGGTGCTGAAAATCGCCAAAGAGCCTATCTCCATGGAAACGCCGATCGGCGAC
GATGAAGATTCGCATCTGGGTGATTTCATCGAGGATACTACCCTCGAGCTGCCGCTGGACTCTGCCACCACCGAGAGCCT
GCGCGCCGCCACTCACGACGTTTTGGCTGGCCTGACCGCTCGTGAAGCGAAAGTCCTGCGTATGCGTTTCGGTATCGATA
TGAACACCGACCACACGCTGGAAGAAGTGGGTAAACAGTTCGACGTTACCCGCGAACGTATCCGTCAGATCGAAGCGAAG
GCGCTGCGTAAACTGCGCCACCCTAGCCGTTCTGAAGTGCTGCGCAGCTTCCTCGACGATTAA

Upstream 100 bases:

>100_bases
TGATCGCTCGCGATCGCACTCACGGTTTAAGCAGCGAAGAACGCCGAGAGCTCTGGACGTTAAACCAGGAGCTGGCCAGA
AAATGAATTTAACGGCTTAA

Downstream 100 bases:

>100_bases
TTCGCCGTACACGTATAAACGCCGCCGCAAGGCGGCGTTTTTTTATCAGGTCATGCGCGAGCGTTCTATTTGGCCTGCAG
AATCTCTACACAACGCGAGT

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 660; Mature: 659

Protein sequence:

>660_residues
MPHIVREAPDSRSERQRPKYKYALALNVDSYTVDTNQTNKCGYRLMEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDI
VDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTR
EGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATHVGSELSQEDLDDD
EDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSM
RVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGL
TIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGD
DEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK
ALRKLRHPSRSEVLRSFLDD

Sequences:

>Translated_660_residues
MPHIVREAPDSRSERQRPKYKYALALNVDSYTVDTNQTNKCGYRLMEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDI
VDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTR
EGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATHVGSELSQEDLDDD
EDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSM
RVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGL
TIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGD
DEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK
ALRKLRHPSRSEVLRSFLDD
>Mature_659_residues
PHIVREAPDSRSERQRPKYKYALALNVDSYTVDTNQTNKCGYRLMEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIV
DSDQIEDIIQMINDMGIQVMEEAPDADDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTRE
GEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATHVGSELSQEDLDDDE
DEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMR
VMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLT
IEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW
IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDD
EDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA
LRKLRHPSRSEVLRSFLDD

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=615, Percent_Identity=97.2357723577236, Blast_Score=1158, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=280, Percent_Identity=40.3571428571429, Blast_Score=209, Evalue=5e-55,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.5123966942149, Blast_Score=89, Evalue=9e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=65, Evalue=1e-11,

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: 75800; Mature: 75668

Theoretical pI: Translated: 4.51; Mature: 4.51

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
3.9 %Met     (Translated Protein)
4.7 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
3.8 %Met     (Mature Protein)
4.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MPHIVREAPDSRSERQRPKYKYALALNVDSYTVDTNQTNKCGYRLMEQNPQSQLKLLVTR
CCCCCCCCCCCHHHHCCCCEEEEEEEECCCEEECCCCCCHHHHHHHHCCHHHHHHHHHHC
GKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAENTTSTD
CCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHCCHHHHHCCCCCCCEEEECCCCCCC
EDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCS
CHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHHH
VAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATHVGSELSQEDLDDD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHCCCCC
EDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHAAAQEEILKLS
CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
EVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSE
HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCH
TWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLTIEQVKDINRRMSIGEAKAR
HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHHHHH
RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHH
WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDK
HHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHH
IRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTA
HHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCHHHHHHHHHHHHHHHCCHH
REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCC
>Mature Secondary Structure 
PHIVREAPDSRSERQRPKYKYALALNVDSYTVDTNQTNKCGYRLMEQNPQSQLKLLVTR
CCCCCCCCCCHHHHCCCCEEEEEEEECCCEEECCCCCCHHHHHHHHCCHHHHHHHHHHC
GKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAENTTSTD
CCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHCCHHHHHCCCCCCCEEEECCCCCCC
EDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCS
CHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHHH
VAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATHVGSELSQEDLDDD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHCCCCC
EDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHAAAQEEILKLS
CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
EVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSE
HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCH
TWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLTIEQVKDINRRMSIGEAKAR
HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHHHHH
RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHH
WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDK
HHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHH
IRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTA
HHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCHHHHHHHHHHHHHHHCCHH
REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 11677608; 12644504 [H]