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The map label for this gene is rpoD

Identifier: 189025724

GI number: 189025724

Start: 529323

End: 531158

Strand: Direct

Name: rpoD

Synonym: TPASS_0493

Alternate gene names: 189025724

Gene position: 529323-531158 (Clockwise)

Preceding gene: 189025723

Following gene: 189025725

Centisome position: 46.45

GC content: 48.97

Gene sequence:

>1836_bases
ATGATGGAGCTGTCACGTACTCCTGCGGTGATGCGCCTGTTAGAATATGCGAGGGAGAAGAAGGCTATAACGCATGATGA
GGTCGAGAACATACTCGCGCACTATGGCGTTGAGACAGAAGAGCTGCTACATGATGTGCTTGATATGCTTGAGCAGGAGA
ATATAAAGGTCTTCTCCTCTGAAGAGGAGGAGCTAGAAGACGAAGTCTTTGCAGGGCTGAAAGGACCTGCCGCGGACGAT
GGCGATGGGTCGTTCCCCCTTTCAACTGAGCGCGTGCGTGATAAGCTGTGCGACAGTAGCCGTGGGGCACGGCAGAACTT
GCTGTCAAACGCGCGGAATATTGCACTTGACGATCCGGTGAAACTCTATCTGCGTGATATCGGCCAAGAAAAGTTGCTCA
CTGCGGAGCAAGAGGTCATGCTTTCAAAGCGGATGGAAGAGGGCGAAGGCATCATAAAGGACATTATTACCCAGTCTGGG
CTCCTTCTTCCTGAGTTTTATCACATTGGGCGCAGTCTTTCTAAAAAAGCTCTTGCGGTTTTGGATCCTGCAGAAAGCGG
ACGTACGAGAAAGGAAATCAGCGAGGAGATGGCCGATCGCCGGCGTCTGAAACAGGCATACGGAGAGGTGCTTCGCTCCT
TGTATCCTGAAATGCGTCATTATATGGCAATGAAAAAGCGGCTGGATGAGCGTGGGGAGCCGGTGACGGTTTTGAGTAGT
GATGAAGAAGTGTGTAAGCAGCGCGACAAGTTGCTTTCCTGTTTACAAAAGGTGGACTTGCAATTAGAGGAGATAGATCG
CTTTTCTCGAAAATTTTTGGACACCGCGCGAAAAATACGGGAATACAAGCGGCGTAAAGATCGCCACGAAAAGCAACTTA
TGATTGCTGACCTGTGTGACATGCGCAAGATTGGGCGTGGTCTGGCCGTGCCCCGTCAGCGTGCAAAGTTGGAAGAGACG
CTTGGTATGTCTGCAGATTGTATTCAAGAGATCTATACACAGATTCAAAAAGTGACACGCAGGCTGCGACGCATCGAGTA
TGACTTTGAAAATACCATCGACGGTATTTTATCCATGGCGCGGGCAATTCACCGGGGTCATGTCATGCTCAAGAAGGCAA
AGGATAAGCTCATTAATGCTAATCTGCGTTTAGTTGTGTCGATTGCAAAGAAGTACACAAACCGTGGATTGCTTTTTTTT
GATCTCGTGCAAGAGGGCAATATTGGGCTGATTAAGGCGGTAGAAAAGTTTGAATATCGCAAGGGATATAAATTTTCCAC
GTATGCGACGTGGTGGATTCGCCAGGCAATTACCCGTTCTATTTCCGATCAGGCGCGCACCATTCGGGTTCCGGTACACA
TGATAGAGCAGATAAATAAAGTGACGCGTGAGTCTCGGCAGTTGTTGCAAAAGTTTGGGCGTGAGCCTTCTGATGAAGAA
ATTGCGCAGCAGCTCTGTTGGACAGTTGAAAAAGTTAAGCAGGTAAAAAGTGTTGCGCGCGAGCCTATCTCTCTTGAAAC
TCCAATTGGAGAGGAGGAGGACTCTTCCTTGGGTGACTTTGTCCCTGACGCTGACGTGGAAAATCCCTCTCGAGTTACAG
AAAGAGTCTTGCTTAAAGAGGAAGTGCGATCTATCCTCTCCGCTCTTCCTGCGAGGGAGCACGAAGTTTTGAGAATGCGT
TTTGGTCTCGATGGAGACTACTCTCAAACGTTGGAAGAGGTCGGTTTGTACTTTGATGTGACGCGTGAGCGTATTCGGCA
GATAGAGGCGAAGGCCCTTAAGCGTTTGCGTCATCCACGACACAGCAGAAGATTGAAGGATTTCCTTGACAGTTAG

Upstream 100 bases:

>100_bases
GGGATGCATCTTCGGGTGAGGAGTGCGGGTCTATGCAGGAGCTTATGATGGAAAAGCAGCGGGTTGATGAGGAGTTAGAA
AGGTTGAAAGGGGTGAGGAA

Downstream 100 bases:

>100_bases
GGGTATGTTATGGTTCCTGCAAATGTTTTCGAGAACTTACGGGCACTGCAGGTGGTGCTTGCGCAGAAGAATCGCTTGGA
AACCGAGATTGCAGAGGCGC

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 611; Mature: 611

Protein sequence:

>611_residues
MMELSRTPAVMRLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSSEEEELEDEVFAGLKGPAADD
GDGSFPLSTERVRDKLCDSSRGARQNLLSNARNIALDDPVKLYLRDIGQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSG
LLLPEFYHIGRSLSKKALAVLDPAESGRTRKEISEEMADRRRLKQAYGEVLRSLYPEMRHYMAMKKRLDERGEPVTVLSS
DEEVCKQRDKLLSCLQKVDLQLEEIDRFSRKFLDTARKIREYKRRKDRHEKQLMIADLCDMRKIGRGLAVPRQRAKLEET
LGMSADCIQEIYTQIQKVTRRLRRIEYDFENTIDGILSMARAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFF
DLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEE
IAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTERVLLKEEVRSILSALPAREHEVLRMR
FGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLRHPRHSRRLKDFLDS

Sequences:

>Translated_611_residues
MMELSRTPAVMRLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSSEEEELEDEVFAGLKGPAADD
GDGSFPLSTERVRDKLCDSSRGARQNLLSNARNIALDDPVKLYLRDIGQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSG
LLLPEFYHIGRSLSKKALAVLDPAESGRTRKEISEEMADRRRLKQAYGEVLRSLYPEMRHYMAMKKRLDERGEPVTVLSS
DEEVCKQRDKLLSCLQKVDLQLEEIDRFSRKFLDTARKIREYKRRKDRHEKQLMIADLCDMRKIGRGLAVPRQRAKLEET
LGMSADCIQEIYTQIQKVTRRLRRIEYDFENTIDGILSMARAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFF
DLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEE
IAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTERVLLKEEVRSILSALPAREHEVLRMR
FGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLRHPRHSRRLKDFLDS
>Mature_611_residues
MMELSRTPAVMRLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSSEEEELEDEVFAGLKGPAADD
GDGSFPLSTERVRDKLCDSSRGARQNLLSNARNIALDDPVKLYLRDIGQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSG
LLLPEFYHIGRSLSKKALAVLDPAESGRTRKEISEEMADRRRLKQAYGEVLRSLYPEMRHYMAMKKRLDERGEPVTVLSS
DEEVCKQRDKLLSCLQKVDLQLEEIDRFSRKFLDTARKIREYKRRKDRHEKQLMIADLCDMRKIGRGLAVPRQRAKLEET
LGMSADCIQEIYTQIQKVTRRLRRIEYDFENTIDGILSMARAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFF
DLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEE
IAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTERVLLKEEVRSILSALPAREHEVLRMR
FGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLRHPRHSRRLKDFLDS

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

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

Homologues:

Organism=Escherichia coli, GI1789448, Length=285, Percent_Identity=57.1929824561403, Blast_Score=333, Evalue=2e-92,
Organism=Escherichia coli, GI1789098, Length=239, Percent_Identity=44.7698744769874, Blast_Score=206, Evalue=3e-54,
Organism=Escherichia coli, GI1789871, Length=259, Percent_Identity=29.3436293436293, Blast_Score=89, Evalue=9e-19,
Organism=Escherichia coli, GI1788231, Length=199, Percent_Identity=29.1457286432161, Blast_Score=68, Evalue=2e-12,

Paralogues:

None

Copy number: 700 (log & stationary phase) [C]

Swissprot (AC and ID): RPOD_TREPA (O83506)

Other databases:

- EMBL:   AE000520
- PIR:   E71318
- RefSeq:   NP_218934.1
- ProteinModelPortal:   O83506
- SMR:   O83506
- GeneID:   2611384
- GenomeReviews:   AE000520_GR
- KEGG:   tpa:TP0493
- NMPDR:   fig|243276.1.peg.493
- TIGR:   TP_0493
- HOGENOM:   HBG745096
- OMA:   ESIIENI
- ProtClustDB:   PRK05658
- BioCyc:   TPAL243276:TP_0493-MONOMER
- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991
- Gene3D:   G3DSA:1.10.10.10
- PRINTS:   PR00046
- TIGRFAMs:   TIGR02393
- TIGRFAMs:   TIGR02937

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4; SSF88946 Sigma_r2; SSF88659 Sigma_r3_r4

EC number: NA

Molecular weight: Translated: 70904; Mature: 70904

Theoretical pI: Translated: 7.89; Mature: 7.89

Prosite motif: PS00715 SIGMA70_1; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.0 %Cys     (Translated Protein)
2.8 %Met     (Translated Protein)
3.8 %Cys+Met (Translated Protein)
1.0 %Cys     (Mature Protein)
2.8 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MMELSRTPAVMRLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSS
CCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCEEECC
EEEELEDEVFAGLKGPAADDGDGSFPLSTERVRDKLCDSSRGARQNLLSNARNIALDDPV
CHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHH
KLYLRDIGQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSGLLLPEFYHIGRSLSKKALAV
HHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
LDPAESGRTRKEISEEMADRRRLKQAYGEVLRSLYPEMRHYMAMKKRLDERGEPVTVLSS
CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECC
DEEVCKQRDKLLSCLQKVDLQLEEIDRFSRKFLDTARKIREYKRRKDRHEKQLMIADLCD
CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
MRKIGRGLAVPRQRAKLEETLGMSADCIQEIYTQIQKVTRRLRRIEYDFENTIDGILSMA
HHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
RAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYR
HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCEEEEEEHHCCCCHHHHHHHHHHHH
KGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEE
CCCCCHHHHHHHHHHHHHHHHHHHHHEEHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
IAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTERVLLKE
HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
EVRSILSALPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLRHPR
HHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
HSRRLKDFLDS
HHHHHHHHHCC
>Mature Secondary Structure
MMELSRTPAVMRLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSS
CCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCEEECC
EEEELEDEVFAGLKGPAADDGDGSFPLSTERVRDKLCDSSRGARQNLLSNARNIALDDPV
CHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHH
KLYLRDIGQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSGLLLPEFYHIGRSLSKKALAV
HHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
LDPAESGRTRKEISEEMADRRRLKQAYGEVLRSLYPEMRHYMAMKKRLDERGEPVTVLSS
CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECC
DEEVCKQRDKLLSCLQKVDLQLEEIDRFSRKFLDTARKIREYKRRKDRHEKQLMIADLCD
CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
MRKIGRGLAVPRQRAKLEETLGMSADCIQEIYTQIQKVTRRLRRIEYDFENTIDGILSMA
HHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
RAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYR
HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCEEEEEEHHCCCCHHHHHHHHHHHH
KGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEE
CCCCCHHHHHHHHHHHHHHHHHHHHHEEHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
IAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTERVLLKE
HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
EVRSILSALPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKRLRHPR
HHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
HSRRLKDFLDS
HHHHHHHHHCC

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: 9665876