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The map label for this gene is rpoD

Identifier: 15836289

GI number: 15836289

Start: 852282

End: 854000

Strand: Direct

Name: rpoD

Synonym: CPj0756

Alternate gene names: 15836289

Gene position: 852282-854000 (Clockwise)

Preceding gene: 15836288

Following gene: 15836290

Centisome position: 69.49

GC content: 39.97

Gene sequence:

>1719_bases
TTGTTCATGAATACACAGAATAGCCAAGCTACAGAAGTTTCATCAGAAGAAGAATCTCAAAAGAAGTTAGAAGAGCTTGT
TGCTCTTGCTAAGGAACAGGGTTTCATCACATACGAAGAAATCAATGAAATTCTTCCTATGTCCTTCGACACTCCGGAGC
AAATTGACCAAGTGTTGATTTTCTTAACTGGAATGGACATTCAAGTTTTGAATCAAATTGATGTTGAAAGGCAGAAAGAG
AAGAAAAAAGAAGCTAAAGAGCTTGAGGGTTTAGCTAGGAGGACTGAAGGGACTCCTGACGATCCTGTTCGGATGTATTT
GAAAGAAATGGGTACAGTACCTCTCCTTACTAGGGAAGAAGAGGTAGAAATTTCTAAGAGAATAGAAAAAGCTCAAGTAC
AGATTGAAAGAATCATTTTACGCTTCCGTTATTCTGCTAAAGAAGCGATTTCTATAGCCCACTATTTGATTAGCGGCAAG
GAACGTTTTGATAAGATTATTTCCGAGAAAGAAGTAGAGGATAAGACTCACTTTCTTAAGTTACTTCCCAAGCTAATTAC
CTTGCTTAAGGAAGAAGATACGTATTTAGAAAACTTATTATTGTCTTTAAAACAGCCTGATTTATCCAAGCAAGAAGCAG
CTAAATTAAATGACAGTTTAGAGAAGTGTCGTATTCGGACGCAAGCCTACTTGCGTTGTTTCCATTGTCGTCATAATGTC
ACTGAAGATTTTGGCGAAGTTGTTTTCAAGGCTTATGATTCTTTCTTACACTTAGAACAGCAAATTAATGATTTGAAAGT
TCGTGCAGAAAGAAATAAGTTTGCTGCTGCAAAGTTGGCAGCAGCTAAGCGTAAGTTGTATAAAAGAGAAGTTGCTGCTG
GAAGGACTTTAGAAGAGTTCAAGAAAGATGTACGTATGTTACAGCGGTGGATGGATAAGAGCCAAGAAGCCAAAAAAGAA
ATGGTGGAGTCCAATTTACGTCTAGTGATTTCTATAGCCAAAAAGTATACCAACCGTGGGCTTTCCTTCTTAGATTTAAT
TCAAGAAGGGAATATGGGCTTGATGAAGGCTGTCGAGAAGTTTGAGTATCGCCGTGGTTATAAGTTCTCGACGTATGCCA
CCTGGTGGATTCGTCAAGCTGTGACTCGTGCTATTGCGGATCAGGCAAGAACGATCCGTATTCCAGTCCATATGATTGAA
ACCATCAATAAAGTTCTTCGTGGAGCGAAGAAATTAATGATGGAAACAGGAAAAGAGCCCACTCCTGAAGAGTTAGCAGA
AGAGTTAGGATTAACTCCTGACCGTGTTCGGGAAATTTATAAGATTGCTCAGCACCCCATCTCTCTACAAGCCGAGGTTG
GAGAGGGTAGTGAAAGTTCCTTTGGGGATTTCTTGGAGGATACTGCCGTAGAGTCTCCCGCAGAGGCTACGGGGTATTCT
ATGCTTAAAGACAAGATGAAAGAGGTCTTAAAGACGCTTACGGATCGTGAGCGATTTGTTTTGATCCATCGTTTTGGCCT
TCTTGATGGCAAACCTAAGACTTTAGAAGAAGTGGGTTCTGCCTTTAATGTTACTCGTGAGCGTATTCGTCAGATTGAAG
CCAAAGCTTTAAGGAAGATGCGTCATCCTATTCGATCGAAACAATTGAGAGCATTCTTAGACTTATTAGAGGAAGAAAAA
ACCGGAACTAGCAAAGTTAAGAGTTTGAAATCCAAATAG

Upstream 100 bases:

>100_bases
CGTCAGCGTATAAGATAAAAATCCCTAGATTTCCTATCTTCCTTTGACTAAACTGTCCTCTAAGGCTAGAAATCCCCTTG
TTTTATTCCAAGTAAGAAAG

Downstream 100 bases:

>100_bases
TCTTTGAGTAAAAGGTTCGTTTTTTATAGCCTTGTATAAAAAATATTGCTCTGGTGATTGCTATAGAACGTTATCAGTTA
ATTATATCCAAGTTTCGTAT

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-A; Sigma-66; Sigma-70

Number of amino acids: Translated: 572; Mature: 572

Protein sequence:

>572_residues
MFMNTQNSQATEVSSEEESQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQIDVERQKE
KKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYLISGK
ERFDKIISEKEVEDKTHFLKLLPKLITLLKEEDTYLENLLLSLKQPDLSKQEAAKLNDSLEKCRIRTQAYLRCFHCRHNV
TEDFGEVVFKAYDSFLHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKE
MVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIE
TINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVESPAEATGYS
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEK
TGTSKVKSLKSK

Sequences:

>Translated_572_residues
MFMNTQNSQATEVSSEEESQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQIDVERQKE
KKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYLISGK
ERFDKIISEKEVEDKTHFLKLLPKLITLLKEEDTYLENLLLSLKQPDLSKQEAAKLNDSLEKCRIRTQAYLRCFHCRHNV
TEDFGEVVFKAYDSFLHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKE
MVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIE
TINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVESPAEATGYS
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEK
TGTSKVKSLKSK
>Mature_572_residues
MFMNTQNSQATEVSSEEESQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQIDVERQKE
KKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYLISGK
ERFDKIISEKEVEDKTHFLKLLPKLITLLKEEDTYLENLLLSLKQPDLSKQEAAKLNDSLEKCRIRTQAYLRCFHCRHNV
TEDFGEVVFKAYDSFLHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKE
MVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIE
TINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVESPAEATGYS
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLLEEEK
TGTSKVKSLKSK

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=273, Percent_Identity=61.1721611721612, Blast_Score=333, Evalue=2e-92,
Organism=Escherichia coli, GI1789098, Length=316, Percent_Identity=38.2911392405063, Blast_Score=212, Evalue=5e-56,
Organism=Escherichia coli, GI1789871, Length=248, Percent_Identity=27.8225806451613, Blast_Score=92, Evalue=7e-20,
Organism=Escherichia coli, GI1788231, Length=199, Percent_Identity=27.1356783919598, Blast_Score=67, Evalue=2e-12,

Paralogues:

None

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

Swissprot (AC and ID): RPOD_CHLPN (Q9Z7F0)

Other databases:

- EMBL:   AE001363
- EMBL:   AE002161
- EMBL:   BA000008
- EMBL:   AE009440
- PIR:   B86585
- PIR:   E72039
- PIR:   E81502
- RefSeq:   NP_224951.1
- RefSeq:   NP_300813.1
- RefSeq:   NP_445653.1
- RefSeq:   NP_877056.1
- ProteinModelPortal:   Q9Z7F0
- SMR:   Q9Z7F0
- GeneID:   1467463
- GeneID:   894915
- GeneID:   919527
- GeneID:   963605
- GenomeReviews:   AE001363_GR
- GenomeReviews:   AE002161_GR
- GenomeReviews:   AE009440_GR
- GenomeReviews:   BA000008_GR
- KEGG:   cpa:CP1116
- KEGG:   cpn:CPn0756
- KEGG:   cpt:CpB0784
- TIGR:   CP_1116
- HOGENOM:   HBG745096
- OMA:   FRYSSKE
- PhylomeDB:   Q9Z7F0
- ProtClustDB:   PRK05901
- BioCyc:   CPNE115711:CP_1116-MONOMER
- BioCyc:   CPNE115713:CPN0756-MONOMER
- BioCyc:   CPNE138677:CPJ0756-MONOMER
- BioCyc:   CPNE182082:CPB0784-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: 66307; Mature: 66307

Theoretical pI: Translated: 9.16; Mature: 9.16

Prosite motif: PS00715 SIGMA70_1; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
3.0 %Met     (Translated Protein)
3.5 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
3.0 %Met     (Mature Protein)
3.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MFMNTQNSQATEVSSEEESQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLI
CCCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHCCCEEHHHHHHHCCCCCCCHHHHHHHHH
FLTGMDIQVLNQIDVERQKEKKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREE
HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHH
EVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYLISGKERFDKIISEKEVEDKTHFLK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH
LLPKLITLLKEEDTYLENLLLSLKQPDLSKQEAAKLNDSLEKCRIRTQAYLRCFHCRHNV
HHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
TEDFGEVVFKAYDSFLHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
KKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHH
FEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEP
HHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCC
TPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVESPAEATGYS
CHHHHHHHHCCCHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHCCCCCHHHHHH
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKM
HHHHHHHHHHHHHHCCHHEEHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPIRSKQLRAFLDLLEEEKTGTSKVKSLKSK
HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCC
>Mature Secondary Structure
MFMNTQNSQATEVSSEEESQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLI
CCCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHCCCEEHHHHHHHCCCCCCCHHHHHHHHH
FLTGMDIQVLNQIDVERQKEKKKEAKELEGLARRTEGTPDDPVRMYLKEMGTVPLLTREE
HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHH
EVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYLISGKERFDKIISEKEVEDKTHFLK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH
LLPKLITLLKEEDTYLENLLLSLKQPDLSKQEAAKLNDSLEKCRIRTQAYLRCFHCRHNV
HHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
TEDFGEVVFKAYDSFLHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
KKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHH
FEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEP
HHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCC
TPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVESPAEATGYS
CHHHHHHHHCCCHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHCCCCCHHHHHH
MLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKM
HHHHHHHHHHHHHHCCHHEEHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPIRSKQLRAFLDLLEEEKTGTSKVKSLKSK
HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCC

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: 10192388; 10684935; 10871362