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The map label for this gene is rpoD [H]

Identifier: 150397423

GI number: 150397423

Start: 2299716

End: 2301770

Strand: Reverse

Name: rpoD [H]

Synonym: Smed_2223

Alternate gene names: 150397423

Gene position: 2301770-2299716 (Counterclockwise)

Preceding gene: 150397424

Following gene: 150397422

Centisome position: 60.86

GC content: 60.49

Gene sequence:

>2055_bases
ATGGCAACAAAAGTCAAAGAAAACGAAGAAGCCGACGTTGAACGTGAAGGTGCGCCGGACGGTCCGCTTCTCGATCTTTC
CGACGACGCTGTCAAGAAGATGATCAAGGCCGCCAAGAAGCGCGGCTATGTGACGATGGACGAGCTAAACTCCGTTCTGC
CTTCCGAGGAAGTGACTTCCGAGCAGATCGAGGACACGATGTCCATGCTTTCCGACATGGGCATCAACGTCATCGAAGAC
GAAGAAGCCGAGGAAGCTGGTGGCAGTGACGACGATGACAGCAGCGACGATGCTGAAAGCGAAGGCGGCGAACTCGCGCC
TGCCAGCGGCACCGCGCTTGCGACCAGCAAGAAAAAAGAGCCGACCGACCGTACCGACGATCCCGTGCGCATGTATCTGC
GCGAGATGGGCTCGGTCGAGCTATTGTCGCGCGAAGGCGAAATCGCCATTGCCAAGCGCATCGAGGCTGGCCGTGAAACG
ATGATCGCCGGGCTCTGTGAGAGCCCGCTTACTTTCCAGGCGTTGATTATCTGGCGCGACGAATTGAACGAAGGCCAGAC
GCTGCTGCGCGAGATCATCGATCTCGAGACGACCTATTCCGGCCCGGAAGCCAAGGCTGCTCCGCAGTTTCAGAGCCCGG
AAAAGATCGAAGCCGACCGCAAGGCGGCAGAAGAGAAGGAAAAGGTCCGCAAGACTCGCGCTGCGGCCAACGACGACGAC
ATCACCAATGTCGGCGGCGAAGGCCAGCCCGCCGAGGAAGAGGAGGACGACGACGACGAGTCGAACCTCTCGCTCGCCGC
GATGGAAGCGGAACTGCGCCCGCAGGTGATGGAGACGCTGGACGTCATCGCCGAGACTTACAAGAAGCTCCGCAAGCTGC
AGGACCAGCAGGTCGAGGCGCGCCTTGCCGCGACCGGAACTCTGTCGCCGGCACAGGAGCGCCGCTATAAGGAACTGAAG
GACGAGCTGATCAAGGCGGTGAAGTCGCTGTCGCTCAACCAGAACCGCATCGACGCTCTGGTCGAGCAGCTTTACGACAT
CTCCAAGCGCCTGACGCAGAACGAGGGCAGGCTGCTGCGCCTGGCCGAATCCTATGGTGTCAAGCGCGAGGCTTTCCTGG
AGCAGTATTCCGGCGCCGAGCTCGATCCGAACTGGATGAAGTCGATCAGCAATCTCGCGGGCAAAGGCTGGAAGGAGTTT
GCCAGGGCGGAGAACCAGACGATCCGCGACATCCGCCAGGAGATCCAGAATCTCGCGACGGAGACCGGCATTTCCATCGC
CGAATTCCGCCGCATCGTGTCCATGGTGCAGAAGGGCGAGCGCGAAGCACGCATTGCCAAGAAGGAAATGGTCGAGGCAA
ACCTCCGTCTCGTGATTTCGATCGCCAAGAAGTACACGAACCGCGGGCTTCAGTTCCTCGATCTCATCCAGGAAGGCAAT
ATCGGCCTCATGAAGGCGGTTGACAAATTCGAATACCGCCGCGGCTACAAGTTCTCGACCTATGCGACCTGGTGGATCCG
ACAGGCGATCACCCGTTCGATCGCCGACCAGGCCCGCACGATCCGCATCCCGGTGCACATGATCGAGACGATCAACAAGA
TCGTCCGTACCTCGCGCCAGATGCTTCACGAGATCGGCCGCGAGCCGACGCCGGAGGAACTGGCGGAAAAGCTCGCAATG
CCGCTCGAGAAGGTGCGCAAGGTTCTGAAGATCGCCAAAGAGCCGATCTCGCTCGAAACCCCCGTTGGCGACGAGGAAGA
TTCGCATCTCGGCGATTTCATCGAGGACAAGAATGCGCTGCTGCCGATCGACGCGGCCATTCAGGCGAACCTCAGAGAGA
CGACGACTCGCGTGCTCGCCTCGCTCACGCCGAGAGAGGAGCGTGTGCTGCGCATGCGTTTCGGCATCGGCATGAACACC
GACCACACGCTGGAAGAAGTCGGCCAGCAGTTCTCGGTCACCCGCGAACGCATCCGGCAGATCGAAGCCAAGGCGCTGCG
CAAGCTCAAGCATCCGAGCCGCTCGCGCAAGCTGCGCTCGTTCCTGGACAGCTGA

Upstream 100 bases:

>100_bases
AGGGGAAATAATCGGTGGCGGGTACGCGGCGTGCCCGGACCTCCGAGTGGCATTGATTACCGGGCGCCGGCCGGTTGCGA
CAAGGAAAGCGACGAATTAA

Downstream 100 bases:

>100_bases
TCCCAGGAAGTTTCATGATGACGAAGCCGGGCCTAGCGCCCGGCTTTTTCATTTCCGCTCTACTCGATTTCCCGGCGCGA
AACCGTACGCCGATTTCCTC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-A; Major vegetative sigma factor [H]

Number of amino acids: Translated: 684; Mature: 683

Protein sequence:

>684_residues
MATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMSMLSDMGINVIED
EEAEEAGGSDDDDSSDDAESEGGELAPASGTALATSKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRET
MIAGLCESPLTFQALIIWRDELNEGQTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKVRKTRAAANDDD
ITNVGGEGQPAEEEEDDDDESNLSLAAMEAELRPQVMETLDVIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELK
DELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLRLAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEF
ARAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAM
PLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT
DHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS

Sequences:

>Translated_684_residues
MATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMSMLSDMGINVIED
EEAEEAGGSDDDDSSDDAESEGGELAPASGTALATSKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRET
MIAGLCESPLTFQALIIWRDELNEGQTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKVRKTRAAANDDD
ITNVGGEGQPAEEEEDDDDESNLSLAAMEAELRPQVMETLDVIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELK
DELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLRLAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEF
ARAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAM
PLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT
DHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS
>Mature_683_residues
ATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMSMLSDMGINVIEDE
EAEEAGGSDDDDSSDDAESEGGELAPASGTALATSKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETM
IAGLCESPLTFQALIIWRDELNEGQTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKVRKTRAAANDDDI
TNVGGEGQPAEEEEDDDDESNLSLAAMEAELRPQVMETLDVIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELKD
ELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLRLAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEFA
RAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI
GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP
LEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD
HTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS

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=391, Percent_Identity=59.3350383631714, Blast_Score=448, Evalue=1e-127,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.6666666666667, Blast_Score=213, Evalue=4e-56,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=27.3858921161826, Blast_Score=84, Evalue=4e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=69, Evalue=1e-12,

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: 77151; Mature: 77020

Theoretical pI: Translated: 4.71; Mature: 4.71

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
2.9 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
0.1 %Cys     (Mature Protein)
2.8 %Met     (Mature Protein)
2.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS
CCCCCCCCCCCCCCCCCCCCCCEECCCHHHHHHHHHHHHHCCCEEHHHHHHHCCCHHHHH
EQIEDTMSMLSDMGINVIEDEEAEEAGGSDDDDSSDDAESEGGELAPASGTALATSKKKE
HHHHHHHHHHHHCCCCEECCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCC
PTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRD
CCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHEEEHH
ELNEGQTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKVRKTRAAANDDD
HCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC
ITNVGGEGQPAEEEEDDDDESNLSLAAMEAELRPQVMETLDVIAETYKKLRKLQDQQVEA
CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RLAATGTLSPAQERRYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLR
HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCEEE
LAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEFARAENQTIRDIRQEIQNLAT
EHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHH
ETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
HHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCC
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQ
CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHH
MLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNAL
HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCE
LPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ
ECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH
IEAKALRKLKHPSRSRKLRSFLDS
HHHHHHHHHHCCHHHHHHHHHHCC
>Mature Secondary Structure 
ATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS
CCCCCCCCCCCCCCCCCCCCCEECCCHHHHHHHHHHHHHCCCEEHHHHHHHCCCHHHHH
EQIEDTMSMLSDMGINVIEDEEAEEAGGSDDDDSSDDAESEGGELAPASGTALATSKKKE
HHHHHHHHHHHHCCCCEECCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCC
PTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRD
CCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHEEEHH
ELNEGQTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKVRKTRAAANDDD
HCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC
ITNVGGEGQPAEEEEDDDDESNLSLAAMEAELRPQVMETLDVIAETYKKLRKLQDQQVEA
CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RLAATGTLSPAQERRYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLR
HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCEEE
LAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEFARAENQTIRDIRQEIQNLAT
EHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHCCHHHHHHHHHHHHHHH
ETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
HHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCC
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQ
CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHH
MLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNAL
HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCE
LPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ
ECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH
IEAKALRKLKHPSRSRKLRSFLDS
HHHHHHHHHHCCHHHHHHHHHHCC

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: 8491721; 11743193; 11743194 [H]