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The map label for this gene is rpoD [H]

Identifier: 161870399

GI number: 161870399

Start: 1467470

End: 1469398

Strand: Direct

Name: rpoD [H]

Synonym: NMCC_1446

Alternate gene names: 161870399

Gene position: 1467470-1469398 (Clockwise)

Preceding gene: 161870398

Following gene: 161870400

Centisome position: 68.15

GC content: 51.89

Gene sequence:

>1929_bases
ATGTCCAAAAACCAAAATCACGAAGAATACCAAGACGATGCCCGCCCCCTGACGATTGAGGAACAACGCGCGCGCCTGCG
CCAACTCATCATTATGGGCAAAGAACGCGGCTACATCACCTACTCCGAAATCAACGACGCACTGCCCGACGATATGTCCG
ATGCCGATCAAATCGACAACATCGTCAGTATGATTTCCGGTTTGGGCATCCAAGTTACCGAACACGCCCCCGATGCGGAA
GACATATTGTTAAGCGACAATGCCGCCGTTACCGACGATGATGCCGTCGAAGAAGCCGAGGCCGCCCTTTCCAGCGCAGA
TTCCGAGTTCGGCAGGACGACCGACCCCGTCCGCATGTATATGCGCGAAATGGGACAGGTCGACCTGCTGACCCGCGAAG
ACGAAATCATCATCGCCAAAAAAATCGAAAACGCCCTGAAAAATATGGTTCAGGCCATCTCCGCCTGCCCGGGATCCATT
GCTGAAATCTTAGAACTCATCGAAAAAATCCGCAAAGACGAAATCCGCGTCGACGAAGTCGTAGAAGCCATTATCGACCC
GAATGAAGTATTGCTCAACGAATTGGGCTTGGGGCACTTGGAAACCACAGCGCCCGAGAAACCTTCCAACGACAATTCGG
ACGAAAACGAAGACGACGAAGAATCGGAAGAAGATGCGGATGAAATCTCGGCAGCCAATCTCGCCGAATTGAAACAAAAA
GTCATCGGCCACTTTGCCCAAATCGAAAAAGACTACAAAAAAATGATCGGTCGTTTGGAAAAACACCACAGCCGGCACAA
AGACTATCTCGCCTACCGCGACGCGATTGCCAACAAACTGCTGGAAGTCCGTTTCGCCACCCGGCAAATCGACAGCCTCA
GCAGCAGCCTGCGCGGAAAAGTAGAAAACATCCGCAAACTCGAACGCGAAATCCGCGACATCTGCCTCGACCGCGTCCAT
ATGGAGCGCGACTACTTCATCCAAAACTTCCTGCCCGAAATCACCAATCTGGAATGGATTGAAGAAGAAATCGCCAAAGG
CAGGGTTTGGAGCGACGCGCTCGACCGCTTCCGCCACGCCATCCTCGAAAAACAAACCGAGTTGGCAGATATGGAAAAAG
AAACCCGCATTTCCATCGAAGAGTTGAAAGAAATCAACAAAAATATGGTGTCGAGCGAAAAAGAAACCGCAGCCGCCAAA
CAGGAAATGATTCAGGCAAACTTGCGCCTCGTCATTTCCATTGCCAAAAAATACACCAACCGTGGCTTGCAGTTCCTTGA
TTTGATTCAGGAAGGTAACATCGGCCTGATGAAAGCGGTCGACAAGTTCGAATACCGCCGGGGCTACAAATTCTCCACCT
ACGCAACCTGGTGGATCCGCCAGGCAATCACCCGTTCGATTGCCGATCAGGCGCGTACCATCCGCATTCCGGTACATATG
ATTGAAACCATCAACAAGATGAACCGCATCTCGCGCCAACACCTTCAAGAAACCGGCGAAGAACCCGATTCCGCCAAACT
TGCCGAACTGATGCAGATGCCCGAAGACAAAATCCGCAAAATCATGAAAATCGCCAAAGAGCCGATTTCGATGGAAACCC
CCATCGGCGACGACGACGATTCGCACTTGGGCGACTTCATCGAAGATGCCAACAATGTTGCGCCGGCCGATGCGGCAATG
TACACCAGCCTGCACGAAGTAACCAAAGAAATCCTCGAAAGCCTGACACCGCGTGAGGCAAAAGTCCTGCGTATGCGTTT
CGGCATCGATATGAACACCGACCACACGCTGGAAGAAGTCGGCAGACAGTTTGACGTAACGCGCGAACGCATCCGACAAA
TCGAGGCAAAAGCACTCCGCAAGCTGCGGCATCCGACAAGAAGCGACCGTTTGAGAAGTTTCTTGGACAGCGAAGACAGC
AAGCTGTAA

Upstream 100 bases:

>100_bases
CCCAAAAAGCCTTCAGACGGCATCAGAGTACCCTACTCTGCCACGCCTTCAGGTGCGTCCAAACGCAAACCGTCGGCATC
TTGCCAACAGAAAGCAGACA

Downstream 100 bases:

>100_bases
ACCAAAAAACCGCAGGTTTCAAATACCTGCGGTTTTTTCTTACACAATAAACAACGCTTCCACATATCCCACACTCCTAT
CCCGAGACCTTTGCAAAATC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 642; Mature: 641

Protein sequence:

>642_residues
MSKNQNHEEYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGLGIQVTEHAPDAE
DILLSDNAAVTDDDAVEEAEAALSSADSEFGRTTDPVRMYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSI
AEILELIEKIRKDEIRVDEVVEAIIDPNEVLLNELGLGHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQK
VIGHFAQIEKDYKKMIGRLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGKVENIRKLEREIRDICLDRVH
MERDYFIQNFLPEITNLEWIEEEIAKGRVWSDALDRFRHAILEKQTELADMEKETRISIEELKEINKNMVSSEKETAAAK
QEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
IETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAM
YTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPTRSDRLRSFLDSEDS
KL

Sequences:

>Translated_642_residues
MSKNQNHEEYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGLGIQVTEHAPDAE
DILLSDNAAVTDDDAVEEAEAALSSADSEFGRTTDPVRMYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSI
AEILELIEKIRKDEIRVDEVVEAIIDPNEVLLNELGLGHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQK
VIGHFAQIEKDYKKMIGRLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGKVENIRKLEREIRDICLDRVH
MERDYFIQNFLPEITNLEWIEEEIAKGRVWSDALDRFRHAILEKQTELADMEKETRISIEELKEINKNMVSSEKETAAAK
QEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
IETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAM
YTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPTRSDRLRSFLDSEDS
KL
>Mature_641_residues
SKNQNHEEYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGLGIQVTEHAPDAED
ILLSDNAAVTDDDAVEEAEAALSSADSEFGRTTDPVRMYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIA
EILELIEKIRKDEIRVDEVVEAIIDPNEVLLNELGLGHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQKV
IGHFAQIEKDYKKMIGRLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGKVENIRKLEREIRDICLDRVHM
ERDYFIQNFLPEITNLEWIEEEIAKGRVWSDALDRFRHAILEKQTELADMEKETRISIEELKEINKNMVSSEKETAAAKQ
EMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI
ETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMY
TSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPTRSDRLRSFLDSEDSK
L

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=624, Percent_Identity=53.2051282051282, Blast_Score=603, Evalue=1e-174,
Organism=Escherichia coli, GI1789098, Length=227, Percent_Identity=41.4096916299559, Blast_Score=201, Evalue=1e-52,
Organism=Escherichia coli, GI1789871, Length=240, Percent_Identity=27.5, Blast_Score=81, Evalue=2e-16,

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: 73789; Mature: 73658

Theoretical pI: Translated: 4.63; Mature: 4.63

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
3.6 %Met     (Translated Protein)
3.9 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
3.4 %Met     (Mature Protein)
3.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSKNQNHEEYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDN
CCCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEHHHHCCCCCCCCCCHHHHHH
IVSMISGLGIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSADSEFGRTTDPVRMY
HHHHHHCCCEEEECCCCCHHHEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHH
MREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEV
HHHCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHH
VEAIIDPNEVLLNELGLGHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQK
HHHHHCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
VIGHFAQIEKDYKKMIGRLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VENIRKLEREIRDICLDRVHMERDYFIQNFLPEITNLEWIEEEIAKGRVWSDALDRFRHA
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCHHHHHHHHHHHH
ILEKQTELADMEKETRISIEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTN
HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
CCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHH
IETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDD
HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCCCCCCCC
SHLGDFIEDANNVAPADAAMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEV
HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHH
GRQFDVTRERIRQIEAKALRKLRHPTRSDRLRSFLDSEDSKL
HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCC
>Mature Secondary Structure 
SKNQNHEEYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDN
CCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEHHHHCCCCCCCCCCHHHHHH
IVSMISGLGIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSADSEFGRTTDPVRMY
HHHHHHCCCEEEECCCCCHHHEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHH
MREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEV
HHHCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHH
VEAIIDPNEVLLNELGLGHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQK
HHHHHCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
VIGHFAQIEKDYKKMIGRLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VENIRKLEREIRDICLDRVHMERDYFIQNFLPEITNLEWIEEEIAKGRVWSDALDRFRHA
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCHHHHHHHHHHHH
ILEKQTELADMEKETRISIEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTN
HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
CCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHH
IETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDD
HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCCCCCCCC
SHLGDFIEDANNVAPADAAMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEV
HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHH
GRQFDVTRERIRQIEAKALRKLRHPTRSDRLRSFLDSEDSKL
HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCC

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