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The map label for this gene is rpoD [H]

Identifier: 114330327

GI number: 114330327

Start: 307440

End: 309689

Strand: Direct

Name: rpoD [H]

Synonym: Neut_0300

Alternate gene names: 114330327

Gene position: 307440-309689 (Clockwise)

Preceding gene: 114330326

Following gene: 114330329

Centisome position: 11.55

GC content: 44.09

Gene sequence:

>2250_bases
ATGGCAAAAGTAAAGGTGTCAGAATCAGCTAAAAAAAATACGGTTACATCACAAAAAACGACTGAAACAAAAAGTAAAAA
AACGCCTATTACAGTCCACGATGATGAGATTGAAGTGGTAGTTAAGGGTGCTGGCGATATTTCTGTGGCTAAATCAGGGG
GTGCATCTGTTAAAAAGAAGGCGATCACCAGGAAAAAATCTGTCAAGGGAACGAAGTCCAGCGGTGATCTAGCTGCCTCG
CCCGGACAGGATGTGGTGATGCCTGAAACAGGAGTGGAAGAGTCGAAACTCGTTGATGATATTTCTGAAAAAAACAAAGT
GAGCAAAAAAGATAAAAGCCTTCTTTCAGAGAAGCAGGTTATTGAATTGAGCAGGAGCTCCGTATCTATATCATCGGGCG
ATGATGTTGAATTACGCAGAATGCGTTTGAAGAAATTAATTATGCAGGGTAAGGAACGCGGTTATCTGACTTACTCTGAG
ATTAACGACCATTTGCCAGATGATATGTTGGATGCTGATCAAATTGAAAGCATTATCAGCATGATCAATGACATGGGTAT
TTCGGTACACGATGAAGCGCCTGATGCAGAAGCTTTGCTGATGTCGGATACAGCGACGGCGGTGGCTGACGAGGATGTGG
CTGAAGAAACGGAAGCGGCACTTTCTAGTGTGGATTCAGAGTTTGGACGTACTACAGATCCAGTGCGGATGTATATGCGT
GAAATGGGTTCGGTAGGGTTGTTGACGCGAGAAAGTGAAATAGAAATCGCCAAGCGTATCGAAGATGGTTTAAGACATAT
GATCCAGGCAATTTCTGCCTGTCCGACGATTATAGAAAACATACTTGGGCTGGCTGCAGATGTGGAAAGCGGCCAGTTGC
GTGCAGACGAGCTGGTCGATGGTTTCTTGGATGACGATACAGAGGAAATCATAGGCAAGGGAATGCCTGAAGAATCACTG
GATCAGGACTTTGATTCGGATGAAACTGAAGAAGAGCAAATCGCTTCGGCCAATGCCGATATGCTGAAGATGAAAAATGA
GGTGCTGGAGCGTTTTGCTATGATACGCCAAACCTATGATGATATGAAAAAAATCATTGATAAAAAGGGTGGTGGGCGCC
AAGACAAGAAATATAAGCAGCTGCAGGAAAAAATTTCTGCCGAACTGATGGCAATGCGCTTCTCGGCCAAGATGGTTGAA
AGATTGTGTGATACACAGCGTGCTATTGTGAATGATATTCGCAGCTGCGAACGCAAAATTGCTGAATTGTGTGTCGTGCG
GGCAAAAATGCCACGAAATCATTTTATTAAGGCATTTCCAGGTAACGAAACAAATATTGACTGGATCAACTCGGAAGTGG
ATGCAAATCAGCCTTACAGCCAATCTCTTGAGCACTATCGCCCGGCTGTTATGGAGCAGCAGCAAAAGATGCTTACTCTT
CAGGAACAGGCTGGTATTCCTATCAAGGAATTGAAGGAAATTAATCGTCGTATGACGACGGGTGAAGCCAAAGCACGAAG
TGCAAAGCGCGAAATGACAGAGGCTAATTTGCGGTTAGTTATATCAATTGCCAAGAAATACACTAATCGCGGATTGCAGT
TCCTTGATCTGATACAGGAAGGTAATATCGGATTGATGAAGGCAGTTGATAAATTCGAATATCGACGTGGATACAAGTTT
TCAACGTATGCGACATGGTGGATCCGTCAGGCGATTACACGCTCTATCGCAGATCAGGCACGTACTATTCGTATCCCAGT
GCACATGATAGAAACTATCAACAAGATGAATCGTATCTCCCGTCAGATTCTGCAGGAAACCGGACAAGAGCCAGAACCTG
CAGTACTTGCAGAAAAAATGGAGATGACTGAGGAAAAAATCAGAAAAATCCTTAAGATATCAAAAGAACCAATTTCAATG
GAAACACCTATTGGTGATGATGAGGATTCTCACTTGGGAGATTTTATTGAAGATGTCTCTACCATGGAGCCGGCCGATGC
TGCGATTTATGCAGGATTGCGTACTGTCACAAAAGATGTACTGGACTCTTTAACGCCTCGGGAAGCAAAGGTTTTACGCA
TGCGTTTCGGTATTGAAATGAATACAGATCATACTCTAGAAGAGGTAGGAAGGCAGTTTGATGTGACGCGTGAACGAATT
CGCCAGATCGAGGCAAAAGCGCTGCGAAAATTAAGGCATCCTGCCCGATCTGACCGATTACGCAGCTTCCTGGATAGTGG
AAATTCCTGA

Upstream 100 bases:

>100_bases
ATAAGCGATACTTTTGTTCATCTATTAAAAGCGCGTCAGAAATTTGATATAATTAAAAGCTTTCGGTTTGTTTCGTCTTT
AGTCTTAATAGGTGCTCTGC

Downstream 100 bases:

>100_bases
TACTATATTAATCAAATTGAAAAAAGAAGCTGTCAAAAACTTCTGTCATCAGGGTCTGTAGCTCAGTTGGTTAGAGCAGG
GGACTCATAATCCCTTGGTC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 749; Mature: 748

Protein sequence:

>749_residues
MAKVKVSESAKKNTVTSQKTTETKSKKTPITVHDDEIEVVVKGAGDISVAKSGGASVKKKAITRKKSVKGTKSSGDLAAS
PGQDVVMPETGVEESKLVDDISEKNKVSKKDKSLLSEKQVIELSRSSVSISSGDDVELRRMRLKKLIMQGKERGYLTYSE
INDHLPDDMLDADQIESIISMINDMGISVHDEAPDAEALLMSDTATAVADEDVAEETEAALSSVDSEFGRTTDPVRMYMR
EMGSVGLLTRESEIEIAKRIEDGLRHMIQAISACPTIIENILGLAADVESGQLRADELVDGFLDDDTEEIIGKGMPEESL
DQDFDSDETEEEQIASANADMLKMKNEVLERFAMIRQTYDDMKKIIDKKGGGRQDKKYKQLQEKISAELMAMRFSAKMVE
RLCDTQRAIVNDIRSCERKIAELCVVRAKMPRNHFIKAFPGNETNIDWINSEVDANQPYSQSLEHYRPAVMEQQQKMLTL
QEQAGIPIKELKEINRRMTTGEAKARSAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGQEPEPAVLAEKMEMTEEKIRKILKISKEPISM
ETPIGDDEDSHLGDFIEDVSTMEPADAAIYAGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERI
RQIEAKALRKLRHPARSDRLRSFLDSGNS

Sequences:

>Translated_749_residues
MAKVKVSESAKKNTVTSQKTTETKSKKTPITVHDDEIEVVVKGAGDISVAKSGGASVKKKAITRKKSVKGTKSSGDLAAS
PGQDVVMPETGVEESKLVDDISEKNKVSKKDKSLLSEKQVIELSRSSVSISSGDDVELRRMRLKKLIMQGKERGYLTYSE
INDHLPDDMLDADQIESIISMINDMGISVHDEAPDAEALLMSDTATAVADEDVAEETEAALSSVDSEFGRTTDPVRMYMR
EMGSVGLLTRESEIEIAKRIEDGLRHMIQAISACPTIIENILGLAADVESGQLRADELVDGFLDDDTEEIIGKGMPEESL
DQDFDSDETEEEQIASANADMLKMKNEVLERFAMIRQTYDDMKKIIDKKGGGRQDKKYKQLQEKISAELMAMRFSAKMVE
RLCDTQRAIVNDIRSCERKIAELCVVRAKMPRNHFIKAFPGNETNIDWINSEVDANQPYSQSLEHYRPAVMEQQQKMLTL
QEQAGIPIKELKEINRRMTTGEAKARSAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGQEPEPAVLAEKMEMTEEKIRKILKISKEPISM
ETPIGDDEDSHLGDFIEDVSTMEPADAAIYAGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERI
RQIEAKALRKLRHPARSDRLRSFLDSGNS
>Mature_748_residues
AKVKVSESAKKNTVTSQKTTETKSKKTPITVHDDEIEVVVKGAGDISVAKSGGASVKKKAITRKKSVKGTKSSGDLAASP
GQDVVMPETGVEESKLVDDISEKNKVSKKDKSLLSEKQVIELSRSSVSISSGDDVELRRMRLKKLIMQGKERGYLTYSEI
NDHLPDDMLDADQIESIISMINDMGISVHDEAPDAEALLMSDTATAVADEDVAEETEAALSSVDSEFGRTTDPVRMYMRE
MGSVGLLTRESEIEIAKRIEDGLRHMIQAISACPTIIENILGLAADVESGQLRADELVDGFLDDDTEEIIGKGMPEESLD
QDFDSDETEEEQIASANADMLKMKNEVLERFAMIRQTYDDMKKIIDKKGGGRQDKKYKQLQEKISAELMAMRFSAKMVER
LCDTQRAIVNDIRSCERKIAELCVVRAKMPRNHFIKAFPGNETNIDWINSEVDANQPYSQSLEHYRPAVMEQQQKMLTLQ
EQAGIPIKELKEINRRMTTGEAKARSAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS
TYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGQEPEPAVLAEKMEMTEEKIRKILKISKEPISME
TPIGDDEDSHLGDFIEDVSTMEPADAAIYAGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERIR
QIEAKALRKLRHPARSDRLRSFLDSGNS

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=57.7741407528642, Blast_Score=670, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=237, Percent_Identity=40.9282700421941, Blast_Score=195, Evalue=9e-51,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=28.2157676348548, Blast_Score=85, Evalue=2e-17,

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: 84327; Mature: 84196

Theoretical pI: Translated: 5.19; Mature: 5.19

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
4.5 %Met     (Translated Protein)
5.1 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
4.4 %Met     (Mature Protein)
4.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKVKVSESAKKNTVTSQKTTETKSKKTPITVHDDEIEVVVKGAGDISVAKSGGASVKKK
CCCCCCCCCHHHHCCCCCHHHHHHCCCCCEEEECCCEEEEEECCCCEEEECCCCCHHHHH
AITRKKSVKGTKSSGDLAASPGQDVVMPETGVEESKLVDDISEKNKVSKKDKSLLSEKQV
HHHHHHHCCCCCCCCCCCCCCCCCEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
IELSRSSVSISSGDDVELRRMRLKKLIMQGKERGYLTYSEINDHLPDDMLDADQIESIIS
HHHHHCCEECCCCCCHHHHHHHHHHHHHCCCCCCCEEHHHHHCCCCCCCCCHHHHHHHHH
MINDMGISVHDEAPDAEALLMSDTATAVADEDVAEETEAALSSVDSEFGRTTDPVRMYMR
HHHHCCCEECCCCCCCHHEEECCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
EMGSVGLLTRESEIEIAKRIEDGLRHMIQAISACPTIIENILGLAADVESGQLRADELVD
HHCCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
GFLDDDTEEIIGKGMPEESLDQDFDSDETEEEQIASANADMLKMKNEVLERFAMIRQTYD
HHCCCCHHHHHCCCCCHHHHHCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
DMKKIIDKKGGGRQDKKYKQLQEKISAELMAMRFSAKMVERLCDTQRAIVNDIRSCERKI
HHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
AELCVVRAKMPRNHFIKAFPGNETNIDWINSEVDANQPYSQSLEHYRPAVMEQQQKMLTL
HHHHHHHHHCCCCCEEEECCCCCCCCCEECCCCCCCCCHHHHHHHHCHHHHHHHHHHHHH
QEQAGIPIKELKEINRRMTTGEAKARSAKREMTEANLRLVISIAKKYTNRGLQFLDLIQE
HHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHC
GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRIS
CCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHH
RQILQETGQEPEPAVLAEKMEMTEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDVS
HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHH
TMEPADAAIYAGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERI
CCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
RQIEAKALRKLRHPARSDRLRSFLDSGNS
HHHHHHHHHHHHCCHHHHHHHHHHHCCCC
>Mature Secondary Structure 
AKVKVSESAKKNTVTSQKTTETKSKKTPITVHDDEIEVVVKGAGDISVAKSGGASVKKK
CCCCCCCCHHHHCCCCCHHHHHHCCCCCEEEECCCEEEEEECCCCEEEECCCCCHHHHH
AITRKKSVKGTKSSGDLAASPGQDVVMPETGVEESKLVDDISEKNKVSKKDKSLLSEKQV
HHHHHHHCCCCCCCCCCCCCCCCCEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
IELSRSSVSISSGDDVELRRMRLKKLIMQGKERGYLTYSEINDHLPDDMLDADQIESIIS
HHHHHCCEECCCCCCHHHHHHHHHHHHHCCCCCCCEEHHHHHCCCCCCCCCHHHHHHHHH
MINDMGISVHDEAPDAEALLMSDTATAVADEDVAEETEAALSSVDSEFGRTTDPVRMYMR
HHHHCCCEECCCCCCCHHEEECCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
EMGSVGLLTRESEIEIAKRIEDGLRHMIQAISACPTIIENILGLAADVESGQLRADELVD
HHCCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
GFLDDDTEEIIGKGMPEESLDQDFDSDETEEEQIASANADMLKMKNEVLERFAMIRQTYD
HHCCCCHHHHHCCCCCHHHHHCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
DMKKIIDKKGGGRQDKKYKQLQEKISAELMAMRFSAKMVERLCDTQRAIVNDIRSCERKI
HHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
AELCVVRAKMPRNHFIKAFPGNETNIDWINSEVDANQPYSQSLEHYRPAVMEQQQKMLTL
HHHHHHHHHCCCCCEEEECCCCCCCCCEECCCCCCCCCHHHHHHHHCHHHHHHHHHHHHH
QEQAGIPIKELKEINRRMTTGEAKARSAKREMTEANLRLVISIAKKYTNRGLQFLDLIQE
HHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHC
GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRIS
CCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHH
RQILQETGQEPEPAVLAEKMEMTEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDVS
HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHH
TMEPADAAIYAGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERI
CCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
RQIEAKALRKLRHPARSDRLRSFLDSGNS
HHHHHHHHHHHHCCHHHHHHHHHHHCCCC

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: NA