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The map label for this gene is rpoD [H]

Identifier: 66047868

GI number: 66047868

Start: 5502219

End: 5504069

Strand: Direct

Name: rpoD [H]

Synonym: Psyr_4641

Alternate gene names: 66047868

Gene position: 5502219-5504069 (Clockwise)

Preceding gene: 66047867

Following gene: 66047869

Centisome position: 90.29

GC content: 57.16

Gene sequence:

>1851_bases
ATGTCCGGAAAAGCGCAACAGCAATCTCGTATCAAAGAGTTGATCACCCTGGGTCGTGAGCAGAAGTATCTGACTTACGC
AGAGGTCAACGACCACTTGCCCGAGGATATTTCAGATCCCGAGCAGGTGGAAGACATCATCCGCATGATCAACGACATGG
GGATCCCGGTACACGAGAGTGCTCCGGATGCGGACGCCTTGATGCTGGCCGACGCCGATACCGACGAGGCAGCCGCAGAA
GAAGCGGCTGCAGCGTTGGCAGCGGTCGAGACCGACATCGGTCGTACCACCGATCCTGTTCGTATGTACATGCGGGAAAT
GGGCACCGTTGAACTTCTGACCCGTGAAGGCGAAATCGAAATCGCCAAACGTATCGAAGAAGGCATCCGTGAAGTGATGG
GCGCAATTGCGCACTTCCCAGGCACGGTTGACCACATTCTCTCCGAATACACACGCGTCACCAGTGAAGGCGGTCGCCTT
TCCGATGTCCTGAGCGGCTATATCGACCCGGACGACGGCATTGCGCCGCCTGCCGAAGTCCCGCCGCCTGTCGACCCCAA
AGCCGTCAAGGCCGAAGGTGCCGATGACGACGAGGAAGAGTCGGCAGACGCCAGCGACGAAGAAGACGAAGTCGAGAGCG
GTCCTGATCCGGTCATCGCCCAGCAGCGCTTCGGTGCGGTTTCCGATCAAATGGAAATCACCCGCAAGGCCCTGAAGAAA
TTTGGTCGCGACGACAAGCACGCCATTGCCGAAATGGTTGCACTGGCCGAACTGTTCATGCCGATCAAACTGGTTCCAAA
ACAGTTTGAAGGTCTGGTAGAGCGTGTACGCGGTGCCCTCGAGCGTCTTCGCGCCCAGGAACGCGCCATCATGCAGCTGT
GTGTACGTGATGCACGTATGCCGCGCGCCGATTTCCTGCGCCAGTTCCCGGGCAACGAAGTCGACGAAAGCTGGACTGAC
GCACTGGCCAAGGGCAAGAGCAAATACGCCGAAGCCATCGGTCGCCTGCAGCCTGACATCCAGCGTTGCCAGCAGAAGCT
GTCTGCACTGGAAGAAGAGACTGGCCTGAAAATCGCCGAGATCAAGGACATCAACCGTCGCATGTCGATCGGTGAGGCCA
AGGCCCGCCGCGCGAAGAAAGAGATGGTTGAAGCGAACTTGCGTCTGGTGATCTCCATCGCCAAGAAGTACACCAACCGT
GGTCTGCAATTCCTCGATCTGATCCAGGAAGGCAACATCGGCTTGATGAAGGCTGTGGACAAGTTCGAATACCGTCGTGG
CTACAAGTTCTCGACTTATGCCACCTGGTGGATCCGTCAGGCGATCACTCGCTCGATTGCCGACCAGGCACGCACCATTC
GTATTCCGGTGCACATGATCGAGACGATCAACAAGCTCAACCGTATTTCCCGGCAGATGTTGCAGGAAATGGGTCGCGAA
CCGACCCCGGAAGAGCTGGGCGAACGCATGGAAATGCCTGAGGATAAAATCCGCAAGGTATTGAAGATCGCAAAAGAGCC
GATCTCCATGGAAACCCCGATCGGTGACGACGAAGATTCGCACTTGGGTGACTTCATCGAAGACTCGACCATGCAGTCGC
CAATCGATGTCGCCACTGTTGAAAGCCTCAAAGAAGCAACACGCGAAGTGCTGTCGGGCCTTACCGCCCGTGAAGCCAAG
GTTCTGCGCATGCGCTTCGGCATCGACATGAATACCGACCACACGCTTGAAGAGGTTGGTAAGCAGTTTGACGTGACCCG
CGAGCGGATTCGTCAGATCGAAGCCAAGGCACTGCGCAAGCTGCGTCACCCGACAAGAAGCGAGCACCTGCGCTCGTTCC
TCGACGAGTAA

Upstream 100 bases:

>100_bases
CCCGCACAAACCCCGACCTCAACTGGCGCGTGAGGTCATAGCTCGGGTATAATCCTCGGCTTGTTTTTTGCCCGCCAAGA
CCTTCAGTGGATAGGGTGTT

Downstream 100 bases:

>100_bases
TCGCACCCGCGAGTCAACAAAACCCCTGGCATGCCGGGGGTTTTGCGTTTCCGGGCAGAAGAAAATTCAAAATTTGCAGG
CCCAGTTGTCAATTCACCGA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 616; Mature: 615

Protein sequence:

>616_residues
MSGKAQQQSRIKELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLADADTDEAAAE
EAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGIREVMGAIAHFPGTVDHILSEYTRVTSEGGRL
SDVLSGYIDPDDGIAPPAEVPPPVDPKAVKAEGADDDEEESADASDEEDEVESGPDPVIAQQRFGAVSDQMEITRKALKK
FGRDDKHAIAEMVALAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTD
ALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR
GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE
PTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAK
VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLDE

Sequences:

>Translated_616_residues
MSGKAQQQSRIKELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLADADTDEAAAE
EAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGIREVMGAIAHFPGTVDHILSEYTRVTSEGGRL
SDVLSGYIDPDDGIAPPAEVPPPVDPKAVKAEGADDDEEESADASDEEDEVESGPDPVIAQQRFGAVSDQMEITRKALKK
FGRDDKHAIAEMVALAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTD
ALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR
GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE
PTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAK
VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLDE
>Mature_615_residues
SGKAQQQSRIKELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLADADTDEAAAEE
AAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGIREVMGAIAHFPGTVDHILSEYTRVTSEGGRLS
DVLSGYIDPDDGIAPPAEVPPPVDPKAVKAEGADDDEEESADASDEEDEVESGPDPVIAQQRFGAVSDQMEITRKALKKF
GRDDKHAIAEMVALAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDA
LAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP
TPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKV
LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLDE

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=611, Percent_Identity=66.7757774140753, Blast_Score=799, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=245, Percent_Identity=41.6326530612245, Blast_Score=211, Evalue=8e-56,
Organism=Escherichia coli, GI1789871, Length=244, Percent_Identity=27.8688524590164, Blast_Score=88, Evalue=2e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=26.7326732673267, Blast_Score=64, Evalue=2e-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: 69487; Mature: 69356

Theoretical pI: Translated: 4.72; Mature: 4.72

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
4.1 %Met     (Translated Protein)
4.4 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
3.9 %Met     (Mature Protein)
4.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSGKAQQQSRIKELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHES
CCCCHHHHHHHHHHHHHCCCCCEEEHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCCC
APDADALMLADADTDEAAAEEAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIE
CCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHCCCHHH
IAKRIEEGIREVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVLSGYIDPDDGIAPPAEV
HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCCCCCCCC
PPPVDPKAVKAEGADDDEEESADASDEEDEVESGPDPVIAQQRFGAVSDQMEITRKALKK
CCCCCCCCEECCCCCCCCHHCCCCCCCHHHHHCCCCCCHHHHHHCCHHHHHHHHHHHHHH
FGRDDKHAIAEMVALAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARM
HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
PRADFLRQFPGNEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAE
CHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHH
IKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHH
KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE
HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCC
PTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATV
CCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCHHHHH
ESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK
HHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
LRHPTRSEHLRSFLDE
HHCCCHHHHHHHHHCC
>Mature Secondary Structure 
SGKAQQQSRIKELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHES
CCCHHHHHHHHHHHHHCCCCCEEEHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCCC
APDADALMLADADTDEAAAEEAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIE
CCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHCCCHHH
IAKRIEEGIREVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVLSGYIDPDDGIAPPAEV
HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCCCCCCCC
PPPVDPKAVKAEGADDDEEESADASDEEDEVESGPDPVIAQQRFGAVSDQMEITRKALKK
CCCCCCCCEECCCCCCCCHHCCCCCCCHHHHHCCCCCCHHHHHHCCHHHHHHHHHHHHHH
FGRDDKHAIAEMVALAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARM
HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
PRADFLRQFPGNEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAE
CHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHH
IKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHH
KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE
HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCC
PTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATV
CCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCHHHHH
ESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK
HHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
LRHPTRSEHLRSFLDE
HHCCCHHHHHHHHHCC

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: 7665535 [H]