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The map label for this gene is rpoD

Identifier: 88195369

GI number: 88195369

Start: 1574498

End: 1575604

Strand: Reverse

Name: rpoD

Synonym: SAOUHSC_01662

Alternate gene names: 88195369

Gene position: 1575604-1574498 (Counterclockwise)

Preceding gene: 88195370

Following gene: 88195368

Centisome position: 55.85

GC content: 33.69

Gene sequence:

>1107_bases
ATGTCTGATAACACAGTTAAAATTAAAAAACAAACAATTGATCCGACATTAACATTAGAAGATGTTAAGAAGCAATTAAT
TGAAAAAGGTAAAAAAGAGGGTCATTTAAGTCATGAAGAAATTGCTGAAAAACTTCAGAATTTTGATATCGACTCTGATC
AAATGGATGATTTCTTTGATCAATTAAATGATAATGATATTTCACTAGTTAATGAAAAAGATAGTTCAGATACTGACGAG
AAACTGAATCCAAGTGATCTTAGTGCCCCTCCAGGTGTTAAAATAAATGACCCAGTTCGTATGTACCTTAAAGAAATTGG
GCGTGTTAACTTATTAAGTGCACAAGAAGAAATCGAATTAGCCAAACGTATTGAACAAGGTGATGAAGTAGCAAAATCAA
GACTTGCAGAAGCGAACTTACGTTTAGTTGTAAGTATTGCTAAAAGATACGTAGGTCGTGGTATGTTATTCCTTGATTTA
ATCCAAGAAGGTAATATGGGTCTTATTAAAGCTGTTGAAAAATTTGACTTTAACAAAGGATTTAAGTTTTCAACATATGC
AACATGGTGGATTAGACAAGCAATCACTCGTGCAATTGCTGACCAAGCACGTACGATTCGTATCCCTGTGCATATGGTAG
AAACAATTAATAAATTAATTCGTGTTCAACGTCAATTATTACAGGACTTAGGTCGAGATCCAGCACCAGAAGAAATTGGT
GAAGAAATGGATTTACCAGCAGAAAAAGTTCGTGAAATTTTAAAAATTGCGCAAGAACCTGTTTCATTAGAAACACCAAT
TGGTGAAGAAGATGATAGTCATTTAGGAGACTTTATTGAGGATCAGGAAGCACAAAGTCCTTCAGATCATGCTGCTTATG
AATTATTAAAAGAGCAATTAGAAGATGTGCTTGATACATTAACTGATAGAGAAGAAAATGTATTACGATTAAGATTTGGT
CTTGATGACGGCAGAACAAGAACACTTGAAGAAGTTGGTAAAGTTTTCGGTGTTACACGTGAACGTATTCGACAAATTGA
AGCAAAAGCACTTAGAAAATTAAGACATCCAAGTCGTAGTAAACGTTTGAAAGACTTTATGGATTAA

Upstream 100 bases:

>100_bases
ATAAAATTAAAAATATGGATGAATTAATTAAGAATTTAGTTTAAAATAGCAATATTGAATAAATTTCGAATGTTCATATT
TAAAATCGGGAGGCCGTTTC

Downstream 100 bases:

>100_bases
TTTATATCAATTTTAATGATTGATACCAAGACATGAATAAGCGCTTATTTATTTTTAGATTAAGATTTAACTTGAGTGAG
GTTGGTACATTGAATAATGT

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 368; Mature: 367

Protein sequence:

>368_residues
MSDNTVKIKKQTIDPTLTLEDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTDE
KLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL
IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIG
EEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFG
LDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD

Sequences:

>Translated_368_residues
MSDNTVKIKKQTIDPTLTLEDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTDE
KLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDL
IQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIG
EEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFG
LDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD
>Mature_367_residues
SDNTVKIKKQTIDPTLTLEDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTDEK
LNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLI
QEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGE
EMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGL
DDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This may be the primary sigma factor of this bacterium

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

Homologues:

Organism=Escherichia coli, GI1789448, Length=238, Percent_Identity=67.2268907563025, Blast_Score=342, Evalue=3e-95,
Organism=Escherichia coli, GI1789098, Length=303, Percent_Identity=41.9141914191419, Blast_Score=241, Evalue=4e-65,
Organism=Escherichia coli, GI1789871, Length=272, Percent_Identity=29.7794117647059, Blast_Score=105, Evalue=4e-24,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=68, Evalue=1e-12,

Paralogues:

None

Copy number: 700 (log & stationary phase) [C]

Swissprot (AC and ID): RPOD_STAA8 (P0A0J0)

Other databases:

- EMBL:   M63177
- EMBL:   CP000253
- PIR:   S34442
- RefSeq:   YP_500173.1
- ProteinModelPortal:   P0A0J0
- SMR:   P0A0J0
- STRING:   P0A0J0
- EnsemblBacteria:   EBSTAT00000028390
- GeneID:   3920074
- GenomeReviews:   CP000253_GR
- KEGG:   sao:SAOUHSC_01662
- eggNOG:   COG0568
- GeneTree:   EBGT00050000024922
- HOGENOM:   HBG745096
- OMA:   GDEEAKQ
- ProtClustDB:   PRK09210
- BioCyc:   SAUR93061:SAOUHSC_01662-MONOMER
- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991
- Gene3D:   G3DSA:1.10.10.10
- PRINTS:   PR00046
- TIGRFAMs:   TIGR02393
- TIGRFAMs:   TIGR02937

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4; SSF88946 Sigma_r2; SSF88659 Sigma_r3_r4

EC number: NA

Molecular weight: Translated: 42171; Mature: 42040

Theoretical pI: Translated: 4.73; Mature: 4.73

Prosite motif: PS00715 SIGMA70_1; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.2 %Met     (Translated Protein)
2.2 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
1.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSDNTVKIKKQTIDPTLTLEDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFD
CCCCCEEEEEECCCCCEEHHHHHHHHHHCCHHCCCCCHHHHHHHHHCCCCCHHHHHHHHH
QLNDNDISLVNEKDSSDTDEKLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIEL
HCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHH
AKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKG
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHCCCCC
FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIG
CCCHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
EEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQL
HHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHH
EDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS
HHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
KRLKDFMD
HHHHHHCC
>Mature Secondary Structure 
SDNTVKIKKQTIDPTLTLEDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFD
CCCCEEEEEECCCCCEEHHHHHHHHHHCCHHCCCCCHHHHHHHHHCCCCCHHHHHHHHH
QLNDNDISLVNEKDSSDTDEKLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIEL
HCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHH
AKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKG
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHCCCCC
FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIG
CCCHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
EEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQL
HHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHH
EDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS
HHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
KRLKDFMD
HHHHHHCC

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: 1923759