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The map label for this gene is rpoD

Identifier: 21672345

GI number: 21672345

Start: 59048

End: 60901

Strand: Reverse

Name: rpoD

Synonym: BUsg052

Alternate gene names: 21672345

Gene position: 60901-59048 (Counterclockwise)

Preceding gene: 21672346

Following gene: 21672337

Centisome position: 9.49

GC content: 31.28

Gene sequence:

>1854_bases
ATGGAGCATAACCCAAAGTCACAACTTAAGCTGCTTGTTACGCATGGTAAGGAGCAAGGGTATTTAACCTATGCCGAAGT
TAATGATCATCTACCAGAAGAAATTATTGATTCTGAACAAATCGATGACATTATTCAGATGATTAATGATATGGGAATTC
AAGTTGTAGAAGAAGCACCCGACGCAGACGATTTAATTTTGAATGAAATAAATACAGATACAGACGAAGATGCAGTGGAA
GCTGCTACACAAGTTTTATCAAGTGTTGAATCTGAATTAGGAAGAACTACTGATCCTGTTCGCATGTACATGCGAGAAAT
GGGAACTGTTGAATTACTAACAAGAGAGGGTGAAATTGATATAGCTAAACGCATTGAAGAAGGCATTAATCAAGTTCAAT
CTTCCGTATCAGAATATCCAGAAGCTATTACTTATCTTTTAGAACAATATGATCGAATTAAAACTGGTCAAATACGATTA
TCTGATATAATAACAGGATTTGTGGATCCAAATGCAGAAGAAATTTTTTCTCATTCTACCTCAGCAATTCACATTGGTTC
TGAAATTTTAGATAATATAACAAATGATAGTAATGAAAACGAAGATGAAAACGAAGATGAAAACGAAGATGAAGATGAAA
ATAGCATTGACCCAGAACTAGCTAATGAAAAATTTAGAGAATTGAGAAAACAATATACTAATACAAGCAATACAATTAAA
AATAAAAATAGAAATCATCAAGATTCATTGTTAGAAATTTATAATCTTTCAGAAATTTTTAAACAATTTAGGTTAGTTCC
AAAACAATTTGATCACTTAGTTAATAACATGCGTAATATGATGAACAGAGTTAGAAAACAAGAAAGAAAAATTATGAAAC
TATGTATTGAAGAATGCAAAATCCCTAAAAAAATTTTCTTAAAAATTTTTTCAGGAAAAGAAACTGATCAAAATTGGTTT
AAAAAAGAACAAAGTTCAAATCAATCTTGGTCTAAAAAATTAGAAGAAATCAAAGAAAAAGTTTTTTCTAGCATGAAAAA
ATTAAAACAAATAGAAAAAGAAACTGGTTTAACAATCGAGCAAGTTAAAGATATTAACAAAAGAATGTCTATTGGAGAAG
CAAAAGCAAAAAGAGCAAAAAAAGAAATGGTCGAAGCTAATTTAAGATTAGTAATTTCTATTGCAAAAAAATATACTAAC
AGAGGACTTCAGTTTTTAGACTTAATTCAAGAAGGTAATATTGGCCTTATGAAAGCAGTAGATAAATTTGAATATCGTCG
AGGATACAAGTTTTCAACTTACGCAACTTGGTGGATCAGACAAGCAATTACTCGTTCTATCGCAGATCAAGCACGAACTA
TTCGAATCCCCGTACACATGATAGAAACGATTAATAAACTTAATCGTATTTCTAGACAAATGCTTCAAGAAATAGGACGT
GAACCAACTCCAGAAGAACTTTCTGAAAAAATGTTAATTCCTGAAGATAAGATTAGAAAAGTTTTAAAAATAGCTAAAGA
ACCAATATCTATGGAAACACCTATTGGAGACGATGATGATTCACATTTAGGTGATTTTATAGAAGATACTACATTAGAAC
TACCTCTTGATTCAGCTACATCTGAAAGTCTAAGATCAGCAACACATGATGTTTTATCAGGTCTTACAGCTCGTGAAGCA
AAGGTACTTCGCATGCGTTTTGGAATTGACATGAATACTGATCATACTTTAGAAGAAGTCGGAAAGCAATTTGATGTAAC
TCGAGAAAGAATAAGACAAATAGAAGCAAAAGCATTAAGAAAACTTCGTCATCCAAGCAGATCAGAGGTACTACGTAGTT
TTTTAGACGATTAG

Upstream 100 bases:

>100_bases
AAAGAATTTTAAATATCAATTAAAAAATAAATTATTATTCATTTATTGACTAAAAAGTCAATTAATATTCATTATATCAA
CAAAATTTGGATATTTTCCT

Downstream 100 bases:

>100_bases
CAATGAAAAAAAGATATATAATATTGTAGAAAATAAAACTTCTGTACCAAAAAAATAGTAATACATACATTATGTTTTTA
AGAAAAAAACAGGAGTTTTA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70

Number of amino acids: Translated: 617; Mature: 617

Protein sequence:

>617_residues
MEHNPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAPDADDLILNEINTDTDEDAVE
AATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRL
SDIITGFVDPNAEEIFSHSTSAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRELRKQYTNTSNTIK
NKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQERKIMKLCIEECKIPKKIFLKIFSGKETDQNWF
KKEQSSNQSWSKKLEEIKEKVFSSMKKLKQIEKETGLTIEQVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTN
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR
EPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSGLTAREA
KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD

Sequences:

>Translated_617_residues
MEHNPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAPDADDLILNEINTDTDEDAVE
AATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRL
SDIITGFVDPNAEEIFSHSTSAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRELRKQYTNTSNTIK
NKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQERKIMKLCIEECKIPKKIFLKIFSGKETDQNWF
KKEQSSNQSWSKKLEEIKEKVFSSMKKLKQIEKETGLTIEQVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTN
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR
EPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSGLTAREA
KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
>Mature_617_residues
MEHNPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAPDADDLILNEINTDTDEDAVE
AATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRL
SDIITGFVDPNAEEIFSHSTSAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRELRKQYTNTSNTIK
NKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQERKIMKLCIEECKIPKKIFLKIFSGKETDQNWF
KKEQSSNQSWSKKLEEIKEKVFSSMKKLKQIEKETGLTIEQVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTN
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR
EPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSGLTAREA
KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD

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=617, Percent_Identity=79.4165316045381, Blast_Score=985, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=247, Percent_Identity=40.8906882591093, Blast_Score=206, Evalue=3e-54,
Organism=Escherichia coli, GI1789871, Length=240, Percent_Identity=27.9166666666667, Blast_Score=89, Evalue=6e-19,
Organism=Escherichia coli, GI1788231, Length=212, Percent_Identity=27.8301886792453, Blast_Score=65, Evalue=1e-11,

Paralogues:

None

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

Swissprot (AC and ID): RPOD_BUCAP (P32001)

Other databases:

- EMBL:   M90644
- EMBL:   AE013218
- PIR:   JC1291
- RefSeq:   NP_660412.1
- ProteinModelPortal:   P32001
- SMR:   P32001
- EnsemblBacteria:   EBBUCT00000000285
- GeneID:   1005868
- GenomeReviews:   AE013218_GR
- KEGG:   bas:BUsg052
- GeneTree:   EBGT00050000007966
- HOGENOM:   HBG745096
- OMA:   HPSRSET
- ProtClustDB:   PRK05658
- BioCyc:   BAPH198804:BUSG052-MONOMER
- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007631
- 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: PF04546 Sigma70_ner; 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: 71471; Mature: 71471

Theoretical pI: Translated: 4.89; Mature: 4.89

Prosite motif: PS00715 SIGMA70_1; PS00716 SIGMA70_2; PS01121 CASPASE_HIS

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
3.2 %Met     (Translated Protein)
3.6 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
3.2 %Met     (Mature Protein)
3.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MEHNPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAP
CCCCCHHHHHHHHCCCCCCCCEEEEHHHHCCCHHHHCHHHHHHHHHHHHHCCCHHHHCCC
DADDLILNEINTDTDEDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEID
CCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHCCCCHH
IAKRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRLSDIITGFVDPNAEEIFSHST
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEHHHHHHHHCCCCHHHHHCCCC
SAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRELRKQYTNTSNTIK
CCEECCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHH
NKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQERKIMKLCIEECK
CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
IPKKIFLKIFSGKETDQNWFKKEQSSNQSWSKKLEEIKEKVFSSMKKLKQIEKETGLTIE
CCHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
QVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV
HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHH
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCC
EPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSAT
CCCHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCEECCCCCCH
SESLRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR
HHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
KLRHPSRSEVLRSFLDD
HHCCCCHHHHHHHHHCC
>Mature Secondary Structure
MEHNPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAP
CCCCCHHHHHHHHCCCCCCCCEEEEHHHHCCCHHHHCHHHHHHHHHHHHHCCCHHHHCCC
DADDLILNEINTDTDEDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEID
CCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHCCCCHH
IAKRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRLSDIITGFVDPNAEEIFSHST
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEHHHHHHHHCCCCHHHHHCCCC
SAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRELRKQYTNTSNTIK
CCEECCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHH
NKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQERKIMKLCIEECK
CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
IPKKIFLKIFSGKETDQNWFKKEQSSNQSWSKKLEEIKEKVFSSMKKLKQIEKETGLTIE
CCHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
QVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV
HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHH
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCC
EPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSAT
CCCHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCEECCCCCCH
SESLRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR
HHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
KLRHPSRSEVLRSFLDD
HHCCCCHHHHHHHHHCC

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: 1398077; 12089438