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The map label for this gene is rpoD [H]

Identifier: 119944095

GI number: 119944095

Start: 409447

End: 411300

Strand: Reverse

Name: rpoD [H]

Synonym: Ping_0310

Alternate gene names: 119944095

Gene position: 411300-409447 (Counterclockwise)

Preceding gene: 119944096

Following gene: 119944094

Centisome position: 9.02

GC content: 41.91

Gene sequence:

>1854_bases
ATGGCTCAAACACCTCAATCACAGCTCAAAGAGCTTATTATCAAAGGTAAAGAAAAAGGGTTTTTGACCTACGCAGAAGT
TAATGACCACCTGCCGCAAGATATCGTTGAATCTGAGCAGATTGAAGATATTATTCAAATGATCGGTGACATGGGTATCC
GTGTGGTAGAAACGGCTCCGGATGCTGATGATATGTTGATCGGTGCTGATGATAGCGAAACTCCTGATGAGGACGCGGTA
GAAGCTGCTGCTCAGGTGTTAGCAACGGTTGAATCTGAGATTGGTAGGACAACGGATCCGGTGCGTATGTATATGCGCGA
AATGGGGACGGTTGAACTACTAACACGCGAAGGCGAAATTGTTATCGCTAAACGTATCGAAGAAGGTATCAAAGAGGTAC
AAACTGCTGTTTCTGAATATCCTGCAACAATCTCAGGACTATTAGATAACTGGGACAGCTACGAAGCTGAAGAAATGAAA
TTAACTGATTTAATCAGTGGCTTTGTGGATCCCAATGATGACATGACACAGGCGGTCAGCGCTACGCATATCGGATCTGA
GTTAAGTAAAAAGCAATTAGAAGATGAAGATAAAGCGGATAAAGATGATTCCGATGAAGATGATGAAGAAGAAGGACCTA
AAGGCCCCGATCCTGAAGAAGCGGCTGAAAAATTTGCCGAACTTCGTAAATTAAATCAAGTTGTTGAAGATTCCATCACT
AAAAATGGCCGTGCTCATGCAGAGACACGCGCAGCCATTAATGAGCAGGCAGAGTTTTTCCAACAGTTCAAATTAATCCC
TAAACAATTTGACCGTATGGTAAAAGCAATTCGCTTTGCAATGAACGCTGTTCGTGTACAGGAACGTTTAGCATTAAAGA
TTTGTGTTGAACAATGTAAAATGCCTAAAAAAGAGTTTATTAAGCTGTTTAAAGGCAACGAAACAAATCCTGCGTGGTTA
GAAGTTATTCTTTCAAATGGCACTGATTATGCAACCCGGATCAGTGAATTTGAAGAAGACTTAAGACGCTGTTTAAGAAA
AATGTTAGCAGTGGAAGTACAAAGTGTATTAACCATTACGAATATGAAAGGTATCTCTCGCAACATGAGCATTGGTGAAG
CCAAAGCACGTCGAGCAAAAAAAGAGATGGTAGAAGCAAACTTACGTCTGGTTATCTCTATCGCCAAAAAATATACTAAC
CGTGGCTTACAGTTCCTCGATTTAATTCAGGAAGGTAATATCGGATTAATGAAAGCGGTAGATAAATTTGAATACCGCCG
GGGTTACAAATTTTCAACCTATGCAACTTGGTGGATCCGTCAGGCTATTACCCGCTCGATTGCAGATCAGGCGCGTACTA
TCCGTATTCCGGTACATATGATTGAGACCATTAATAAACTTAACCGTGTCTCTCGCCAAATGTTACAGGAAATGGGCCGT
GAACCACAGCCGGAAGAGCTGGCTGAACGTATGATGATGCCGGAAGATAAAGTCCGTAAGGTATTAAAAATTGCGAAAGA
GCCAATCTCAATGGAAACACCTATTGGTGATGATGAAGACTCTCATTTAGGCGATTTTATTGAAGATACAACGATTGCGC
TGCCAGCTAACTGTGCGACAAGTGAAAGCCTTAAAAATGCAACTAACGATGTATTGGAAGGCTTAACAGCACGTGAAGCG
AAAGTATTGCGTATGCGTTTTGGTATTGACATGAATACCGATCATACTCTTGAAGAAGTTGGGAAGCAGTTTGATGTGAC
ACGTGAGCGTATCCGTCAAATTGAAGCGAAAGCATTGCGCAAACTTCGTCACCCAAGCCGCAGTGAACAACTGCGTAGTT
TCCTGGATGAATAA

Upstream 100 bases:

>100_bases
ACTTCAGAAAATTAGCGTATACTAGATCGCTTGTACTTTTTTTATATAACCCCTATTTGCAATTGATTTTTGATTTGCAA
TCAATTTTTGGACGGTATCT

Downstream 100 bases:

>100_bases
CCTGGATGAATAATTAAGATTAAAATCACACAATCCTGCTTTGGCAGGATTTTTTTATCTAAAAGGTGACAAATAACGAA
TATTATCAAGTGATCTTAAC

Product: RNA polymerase sigma-70 factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 617; Mature: 616

Protein sequence:

>617_residues
MAQTPQSQLKELIIKGKEKGFLTYAEVNDHLPQDIVESEQIEDIIQMIGDMGIRVVETAPDADDMLIGADDSETPDEDAV
EAAAQVLATVESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGIKEVQTAVSEYPATISGLLDNWDSYEAEEMK
LTDLISGFVDPNDDMTQAVSATHIGSELSKKQLEDEDKADKDDSDEDDEEEGPKGPDPEEAAEKFAELRKLNQVVEDSIT
KNGRAHAETRAAINEQAEFFQQFKLIPKQFDRMVKAIRFAMNAVRVQERLALKICVEQCKMPKKEFIKLFKGNETNPAWL
EVILSNGTDYATRISEFEEDLRRCLRKMLAVEVQSVLTITNMKGISRNMSIGEAKARRAKKEMVEANLRLVISIAKKYTN
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGR
EPQPEELAERMMMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIALPANCATSESLKNATNDVLEGLTAREA
KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDE

Sequences:

>Translated_617_residues
MAQTPQSQLKELIIKGKEKGFLTYAEVNDHLPQDIVESEQIEDIIQMIGDMGIRVVETAPDADDMLIGADDSETPDEDAV
EAAAQVLATVESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGIKEVQTAVSEYPATISGLLDNWDSYEAEEMK
LTDLISGFVDPNDDMTQAVSATHIGSELSKKQLEDEDKADKDDSDEDDEEEGPKGPDPEEAAEKFAELRKLNQVVEDSIT
KNGRAHAETRAAINEQAEFFQQFKLIPKQFDRMVKAIRFAMNAVRVQERLALKICVEQCKMPKKEFIKLFKGNETNPAWL
EVILSNGTDYATRISEFEEDLRRCLRKMLAVEVQSVLTITNMKGISRNMSIGEAKARRAKKEMVEANLRLVISIAKKYTN
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGR
EPQPEELAERMMMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIALPANCATSESLKNATNDVLEGLTAREA
KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDE
>Mature_616_residues
AQTPQSQLKELIIKGKEKGFLTYAEVNDHLPQDIVESEQIEDIIQMIGDMGIRVVETAPDADDMLIGADDSETPDEDAVE
AAAQVLATVESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGIKEVQTAVSEYPATISGLLDNWDSYEAEEMKL
TDLISGFVDPNDDMTQAVSATHIGSELSKKQLEDEDKADKDDSDEDDEEEGPKGPDPEEAAEKFAELRKLNQVVEDSITK
NGRAHAETRAAINEQAEFFQQFKLIPKQFDRMVKAIRFAMNAVRVQERLALKICVEQCKMPKKEFIKLFKGNETNPAWLE
VILSNGTDYATRISEFEEDLRRCLRKMLAVEVQSVLTITNMKGISRNMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR
GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGRE
PQPEELAERMMMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIALPANCATSESLKNATNDVLEGLTAREAK
VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDE

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=617, Percent_Identity=71.3128038897893, Blast_Score=861, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=233, Percent_Identity=42.0600858369099, Blast_Score=207, Evalue=1e-54,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.9256198347107, Blast_Score=94, Evalue=3e-20,

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: 70142; Mature: 70011

Theoretical pI: Translated: 4.64; Mature: 4.64

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.6 %Cys     (Translated Protein)
4.2 %Met     (Translated Protein)
4.9 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
4.1 %Met     (Mature Protein)
4.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAQTPQSQLKELIIKGKEKGFLTYAEVNDHLPQDIVESEQIEDIIQMIGDMGIRVVETAP
CCCCCHHHHHHHHHCCCCCCCEEEECHHCCCCHHHHHHHHHHHHHHHHHHCCEEEEECCC
DADDMLIGADDSETPDEDAVEAAAQVLATVESEIGRTTDPVRMYMREMGTVELLTREGEI
CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHEEECCCCE
VIAKRIEEGIKEVQTAVSEYPATISGLLDNWDSYEAEEMKLTDLISGFVDPNDDMTQAVS
EEHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHH
ATHIGSELSKKQLEDEDKADKDDSDEDDEEEGPKGPDPEEAAEKFAELRKLNQVVEDSIT
HHHHHHHHHHHHCCCHHCCCCCCCCCCCHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
KNGRAHAETRAAINEQAEFFQQFKLIPKQFDRMVKAIRFAMNAVRVQERLALKICVEQCK
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
MPKKEFIKLFKGNETNPAWLEVILSNGTDYATRISEFEEDLRRCLRKMLAVEVQSVLTIT
CCHHHHHHHHCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
NMKGISRNMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV
HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHH
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGR
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCC
EPQPEELAERMMMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIALPANCAT
CCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEEECCCCCC
SESLKNATNDVLEGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR
HHHHHHHHHHHHHCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
KLRHPSRSEQLRSFLDE
HHHCCCHHHHHHHHHCC
>Mature Secondary Structure 
AQTPQSQLKELIIKGKEKGFLTYAEVNDHLPQDIVESEQIEDIIQMIGDMGIRVVETAP
CCCCHHHHHHHHHCCCCCCCEEEECHHCCCCHHHHHHHHHHHHHHHHHHCCEEEEECCC
DADDMLIGADDSETPDEDAVEAAAQVLATVESEIGRTTDPVRMYMREMGTVELLTREGEI
CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHEEECCCCE
VIAKRIEEGIKEVQTAVSEYPATISGLLDNWDSYEAEEMKLTDLISGFVDPNDDMTQAVS
EEHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHH
ATHIGSELSKKQLEDEDKADKDDSDEDDEEEGPKGPDPEEAAEKFAELRKLNQVVEDSIT
HHHHHHHHHHHHCCCHHCCCCCCCCCCCHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
KNGRAHAETRAAINEQAEFFQQFKLIPKQFDRMVKAIRFAMNAVRVQERLALKICVEQCK
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
MPKKEFIKLFKGNETNPAWLEVILSNGTDYATRISEFEEDLRRCLRKMLAVEVQSVLTIT
CCHHHHHHHHCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
NMKGISRNMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV
HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHH
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGR
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCC
EPQPEELAERMMMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIALPANCAT
CCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEEECCCCCC
SESLKNATNDVLEGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR
HHHHHHHHHHHHHCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
KLRHPSRSEQLRSFLDE
HHHCCCHHHHHHHHHCC

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: 11677608; 12644504 [H]