Click here to switch to the map view.

The map label for this gene is rpoD

Identifier: 226224055

GI number: 226224055

Start: 1470175

End: 1471299

Strand: Reverse

Name: rpoD

Synonym: Lm4b_01464

Alternate gene names: 226224055

Gene position: 1471299-1470175 (Counterclockwise)

Preceding gene: 226224056

Following gene: 226224054

Centisome position: 50.51

GC content: 40.44

Gene sequence:

>1125_bases
ATGAGTGATAAAACAAAAAACACAAAACCAGTTGCTGAACTAAGTGTTGAGCAAGTAAAAGAAGCCCTGATAGAAGAAGG
TAAGAAAAAGGGGATTTTAACTTATGCAAAAATCGCTGCCAGATTAGCTCCATTCACTTTGGATTCCGATCAAATGGATG
AGTATTTAGAACATGTTGGTGAAGCAGGAATTGAAGTTTCTGACGATGCAGATGATGAGGATCCGGATGAAACAGAACTA
GTAAAAGAAGAAACCGAATCCTTTGATTTAACAGATATGAGTGTACCACCAGGCGTAAAAATTAATGACCCTGTTCGCAT
GTATCTGAAAGAAATTGGTCGAGTAGACTTACTTACAGCGGATGAAGAAATTGCCTTAGCAAAACGTATCGAAGCTGGCG
ACATTGAAGCCAAAGGACGTCTTGCAGAAGCCAACCTGCGCCTTGTTGTAAGTATTGCAAAACGTTATGTTGGTCGCGGT
ATGTTATTCCTTGATTTAATTCAAGAAGGTAACATGGGACTAATGAAAGCCGTTGAGAAATTCGACTTCAATAAAGGATT
TAAATTCAGTACTTATGCAACGTGGTGGATTCGTCAAGCGATAACCCGTGCGATTGCGGACCAAGCAAGAACTATCCGTA
TTCCGGTGCATATGGTTGAAACAATCAACAAACTAATCCGTGTACAACGTTCCTTATTGCAAGACTTAGGTCGTGATCCT
TCACCAGAAGAAATTGGTGAAGAAATGGACTTACCAACTGAAAAAGTTCGGGAAATCCTTAAAATCGCACAAGAGCCAGT
TTCCCTTGAAACACCAATTGGTGAAGAAGACGATTCACATCTAGGCGATTTTATCGAAGACCAAGATGCAACTTCACCGT
CCGATCACGCAGCATACGAATTACTAAAAGAACAATTAGAAGATGTGCTTGATACATTAACTGACCGTGAAGAAAATGTA
CTTCGCTTACGTTTTGGTCTAGATGATGGTCGTACGCGCACTTTAGAAGAAGTTGGTCGTGTATTTGGTGTAACTCGTGA
ACGGATTCGTCAAATTGAAGCCAAAGCTTTACGTAAATTACGTCATCCGAGCCGCAGCAAACAACTAAAAGACTTCCTGG
AATAA

Upstream 100 bases:

>100_bases
GATTAATAACGTTTTAAAACCGCTAAATGATGGTATTATTACCTAAGAGAAGCCTTTTAATAAGGTTAGCGGCATTTTGG
AAGGAGGAATACAGGCAGTT

Downstream 100 bases:

>100_bases
AGCACAACCGGGCAGGAGGACAAACCGTTCTCCTGCCTTTTTAATGAAAATGAAAGTAGGGAACCAAATGAACGAAGAGC
AATTATCGAAGCGACTCGAA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-43 [H]

Number of amino acids: Translated: 374; Mature: 373

Protein sequence:

>374_residues
MSDKTKNTKPVAELSVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETEL
VKEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRG
MLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDP
SPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENV
LRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE

Sequences:

>Translated_374_residues
MSDKTKNTKPVAELSVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETEL
VKEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRG
MLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDP
SPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENV
LRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE
>Mature_373_residues
SDKTKNTKPVAELSVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELV
KEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGM
LFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPS
PEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVL
RLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE

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=65.983606557377, Blast_Score=338, Evalue=3e-94,
Organism=Escherichia coli, GI1789098, Length=312, Percent_Identity=42.3076923076923, Blast_Score=248, Evalue=5e-67,
Organism=Escherichia coli, GI1789871, Length=272, Percent_Identity=30.8823529411765, Blast_Score=115, Evalue=5e-27,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.2178217821782, Blast_Score=65, Evalue=8e-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:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 42420; Mature: 42288

Theoretical pI: Translated: 4.49; Mature: 4.49

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.4 %Met     (Translated Protein)
2.4 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.1 %Met     (Mature Protein)
2.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSDKTKNTKPVAELSVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVG
CCCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHH
EAGIEVSDDADDEDPDETELVKEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTA
HCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEC
DEEIALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEK
CHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHH
FDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDP
HCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHCCCC
SPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYE
CHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCHHHHHH
LLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKL
HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPSRSKQLKDFLE
HCCCHHHHHHHHHC
>Mature Secondary Structure 
SDKTKNTKPVAELSVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVG
CCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHH
EAGIEVSDDADDEDPDETELVKEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTA
HCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEC
DEEIALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEK
CHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHH
FDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDP
HCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHCCCC
SPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYE
CHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCHHHHHH
LLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKL
HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPSRSKQLKDFLE
HCCCHHHHHHHHHC

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: 11679669 [H]