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The map label for this gene is rpoD [H]

Identifier: 88607510

GI number: 88607510

Start: 603773

End: 605656

Strand: Direct

Name: rpoD [H]

Synonym: APH_0576

Alternate gene names: 88607510

Gene position: 603773-605656 (Clockwise)

Preceding gene: 88607437

Following gene: 88607950

Centisome position: 41.04

GC content: 43.47

Gene sequence:

>1884_bases
TTGCGGGATTCATTGATGGATAAGGAGCTTGTTAGAAGTCTAATAACAAAGGGTATAAAGCAAGGCGGCATAGTTACGTT
TGACGATTTGAATGATGCTCTTTCTGATGATGAGGTAGTAACCTCGGATAGCATAGACGAAACTATATCTATGTTGCAAG
ATTCGGGAATTAGTGTTCTTGAGCAGAGCGATGTGGATGACACAGATGATACTGTTACTGGAGAGAGTGTTGTAAAAGAC
GAAGAGGATGAAGCTAGTATTCGTTCTTGGGATTTTGGTCAGACTGACGATCCAATACGTATGTATTTGTGTGAGATGAG
CTCGGTTGAGCTTTTATCACGTGAAGGAGAGATAGAGATCGCGAAAAGGATCAAGTCAGAAAAGGTCAACATGCTTAGGT
GCATGGTAGAAGCTCCTTTGGTGTTGCGCACGTTTATGTCCTGGCGGGATGATTTGGTAAATCAGCAGGTATTGCTGCGT
GACCTTATTGATCTAGATGCAAATTACAGGTGTGGGTTCCCTCAACCTGGGTTTGGTGAGGGAGATGGTGAAGAATATGG
TGTCGGGCGAGGTGATGTAGTATTGCCTCCAGATGATGGGGATGTAGATCCGGAGTCATCTCTTGATGATGAGGCTGATG
AAGACGATGAATCTTCTCTTGGTAATGCTTCTATATTAGAGATGGAGAGTGCTTTATTGCCGAAAGTTATATCTATTTTG
GATTCCACGATAGAAGCTGCTGAGAAGATCTTGGAGATGAAGAAGAAAAAGCGTGACGGCGGCGAGTACGATGAGAATGC
TTATAATGAACTGCACGACAGCATATGGGAGATGGTTTCTCAGATGAAGCTTAGCGATTCTGCTGTTGCGTCTGTGACTC
AGCAAATATACGCTTTAAGTAAGTCAATAGCGGCGGAGGAGTCCTCTCTTATTTCGTTGGCTGAGAGCTACGGTGTAGAT
AGAAAGAGCTTTTTAGATGCTTATAATAACAATACTATAGCTGAACAAGCGAAAACCTCATTTGAATGGCAAAATCTGCT
AGATAAGGAAGGTGACACCCTATTGGAGATGCAGAACAGGGTGAAGTTATTATCTGGGGAGGATTGTCCTGGAAGTTTCA
AGGCGTTAGTAGCCAAGATTCAGAAGCATGAGCGTACGGCGAACAGAGCTAAGCAGGAGATGATCAAGGCAAATCTTCGG
TTAGTTGTGTCTATAGCGAAGAAGTATTCGAATCGTGGATTGCAATTTCTTGATTTAGTGCAAGAGGGCAATATAGGTTT
GATGAAGGCTGTAGATAAGTTTGATTATAAGCGTGGCTATAAGTTTTCTACGTATGCTACATGGTGGGTGCGTCAGGCGA
TCACGCGGGCGATTGCTGATCAAGCTAGGACTATTAGAATACCTGTGCATATGATTGAGACTGTTAACAAGATCAATCGT
ACGCTGAGGCAGATGCTGCATGAGATTGGTCGGGAGCCAACTTTGGAGGAGCTTTCTGCTAGGCTTAATATAAATGTTGA
GAAGATCCGTAAGGTGATGAAGATCGTCAAAGATCCTGTTAGTCTCGAGAGTCCTATAGGGGATGATGATAGTAGTACCT
TTGGTGATTGTATAGAGGATAAGCGTGCTGTAAAGCCTGAGAATGCCGCGGTGCTTGCTGATTTGCGTGAGATAACTACT
AAGGTACTTTCTACTCTTACACCTAAAGAAGAGAGAATTCTCCGTATGCGTTTTGGAATTGGTAAGAGCGGTAAGGATCA
TACCTTGGAAGAAGTAGGTAGGCTCTTTAATGTTACTCGTGAGAGGATAAGGCAGATAGAGGCAAAGGCTTTGCGAAAGC
TGCGTCATCCAAGTCGTGCTAGGAAATTGCGTGGGTTTTTCTAA

Upstream 100 bases:

>100_bases
GGTTATGGGGTCGTCTTCGGTGTGTGGTTGGTATTTTTTAGGGTCTAACGAGGCAGGTGGCTGGTATTTTCGTCTGGTTA
TATAGTTTAGTTTTTTTCCT

Downstream 100 bases:

>100_bases
AATCGCTGAAAGATTATCAATTTCTGCATGCTGCGTGGTTTTGTGGTGAGGGCATGTGGGGGATTGGTGTTGTTCTCTCT
TGGAATATTGTCTCACGTTT

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 627; Mature: 627

Protein sequence:

>627_residues
MRDSLMDKELVRSLITKGIKQGGIVTFDDLNDALSDDEVVTSDSIDETISMLQDSGISVLEQSDVDDTDDTVTGESVVKD
EEDEASIRSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIKSEKVNMLRCMVEAPLVLRTFMSWRDDLVNQQVLLR
DLIDLDANYRCGFPQPGFGEGDGEEYGVGRGDVVLPPDDGDVDPESSLDDEADEDDESSLGNASILEMESALLPKVISIL
DSTIEAAEKILEMKKKKRDGGEYDENAYNELHDSIWEMVSQMKLSDSAVASVTQQIYALSKSIAAEESSLISLAESYGVD
RKSFLDAYNNNTIAEQAKTSFEWQNLLDKEGDTLLEMQNRVKLLSGEDCPGSFKALVAKIQKHERTANRAKQEMIKANLR
LVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINR
TLRQMLHEIGREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITT
KVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF

Sequences:

>Translated_627_residues
MRDSLMDKELVRSLITKGIKQGGIVTFDDLNDALSDDEVVTSDSIDETISMLQDSGISVLEQSDVDDTDDTVTGESVVKD
EEDEASIRSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIKSEKVNMLRCMVEAPLVLRTFMSWRDDLVNQQVLLR
DLIDLDANYRCGFPQPGFGEGDGEEYGVGRGDVVLPPDDGDVDPESSLDDEADEDDESSLGNASILEMESALLPKVISIL
DSTIEAAEKILEMKKKKRDGGEYDENAYNELHDSIWEMVSQMKLSDSAVASVTQQIYALSKSIAAEESSLISLAESYGVD
RKSFLDAYNNNTIAEQAKTSFEWQNLLDKEGDTLLEMQNRVKLLSGEDCPGSFKALVAKIQKHERTANRAKQEMIKANLR
LVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINR
TLRQMLHEIGREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITT
KVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF
>Mature_627_residues
MRDSLMDKELVRSLITKGIKQGGIVTFDDLNDALSDDEVVTSDSIDETISMLQDSGISVLEQSDVDDTDDTVTGESVVKD
EEDEASIRSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIKSEKVNMLRCMVEAPLVLRTFMSWRDDLVNQQVLLR
DLIDLDANYRCGFPQPGFGEGDGEEYGVGRGDVVLPPDDGDVDPESSLDDEADEDDESSLGNASILEMESALLPKVISIL
DSTIEAAEKILEMKKKKRDGGEYDENAYNELHDSIWEMVSQMKLSDSAVASVTQQIYALSKSIAAEESSLISLAESYGVD
RKSFLDAYNNNTIAEQAKTSFEWQNLLDKEGDTLLEMQNRVKLLSGEDCPGSFKALVAKIQKHERTANRAKQEMIKANLR
LVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINR
TLRQMLHEIGREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITT
KVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF

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=244, Percent_Identity=68.8524590163934, Blast_Score=349, Evalue=3e-97,
Organism=Escherichia coli, GI1789098, Length=226, Percent_Identity=42.4778761061947, Blast_Score=205, Evalue=6e-54,
Organism=Escherichia coli, GI1789871, Length=281, Percent_Identity=27.7580071174377, Blast_Score=87, Evalue=4e-18,
Organism=Escherichia coli, GI1788231, Length=237, Percent_Identity=24.8945147679325, Blast_Score=72, Evalue=1e-13,

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: 70700; Mature: 70700

Theoretical pI: Translated: 4.61; Mature: 4.61

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
3.0 %Met     (Translated Protein)
3.8 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
3.0 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MRDSLMDKELVRSLITKGIKQGGIVTFDDLNDALSDDEVVTSDSIDETISMLQDSGISVL
CCCCHHHHHHHHHHHHHHHHCCCEEEECCCHHHCCCCCEECCCCHHHHHHHHHHCCCHHH
EQSDVDDTDDTVTGESVVKDEEDEASIRSWDFGQTDDPIRMYLCEMSSVELLSREGEIEI
HHCCCCCCCCCCCCHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHH
AKRIKSEKVNMLRCMVEAPLVLRTFMSWRDDLVNQQVLLRDLIDLDANYRCGFPQPGFGE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
GDGEEYGVGRGDVVLPPDDGDVDPESSLDDEADEDDESSLGNASILEMESALLPKVISIL
CCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCHHCCCCCHHHHHHHHHHHHHHHHH
DSTIEAAEKILEMKKKKRDGGEYDENAYNELHDSIWEMVSQMKLSDSAVASVTQQIYALS
HHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KSIAAEESSLISLAESYGVDRKSFLDAYNNNTIAEQAKTSFEWQNLLDKEGDTLLEMQNR
HHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
VKLLSGEDCPGSFKALVAKIQKHERTANRAKQEMIKANLRLVVSIAKKYSNRGLQFLDLV
HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
QEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINR
HCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHH
TLRQMLHEIGREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIED
HHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHH
KRAVKPENAAVLADLREITTKVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTR
HHCCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
ERIRQIEAKALRKLRHPSRARKLRGFF
HHHHHHHHHHHHHHHCHHHHHHHCCCC
>Mature Secondary Structure
MRDSLMDKELVRSLITKGIKQGGIVTFDDLNDALSDDEVVTSDSIDETISMLQDSGISVL
CCCCHHHHHHHHHHHHHHHHCCCEEEECCCHHHCCCCCEECCCCHHHHHHHHHHCCCHHH
EQSDVDDTDDTVTGESVVKDEEDEASIRSWDFGQTDDPIRMYLCEMSSVELLSREGEIEI
HHCCCCCCCCCCCCHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHH
AKRIKSEKVNMLRCMVEAPLVLRTFMSWRDDLVNQQVLLRDLIDLDANYRCGFPQPGFGE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
GDGEEYGVGRGDVVLPPDDGDVDPESSLDDEADEDDESSLGNASILEMESALLPKVISIL
CCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCHHCCCCCHHHHHHHHHHHHHHHHH
DSTIEAAEKILEMKKKKRDGGEYDENAYNELHDSIWEMVSQMKLSDSAVASVTQQIYALS
HHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KSIAAEESSLISLAESYGVDRKSFLDAYNNNTIAEQAKTSFEWQNLLDKEGDTLLEMQNR
HHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
VKLLSGEDCPGSFKALVAKIQKHERTANRAKQEMIKANLRLVVSIAKKYSNRGLQFLDLV
HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
QEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINR
HCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHH
TLRQMLHEIGREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIED
HHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHH
KRAVKPENAAVLADLREITTKVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTR
HHCCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
ERIRQIEAKALRKLRHPSRARKLRGFF
HHHHHHHHHHHHHHHCHHHHHHHCCCC

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: 7543475; 11259647 [H]