| Definition | Escherichia coli UTI89 chromosome, complete genome. |
|---|---|
| Accession | NC_007946 |
| Length | 5,065,741 |
Click here to switch to the map view.
The map label for this gene is rpoD [H]
Identifier: 91212497
GI number: 91212497
Start: 3440857
End: 3442698
Strand: Direct
Name: rpoD [H]
Synonym: UTI89_C3505
Alternate gene names: 91212497
Gene position: 3440857-3442698 (Clockwise)
Preceding gene: 91212496
Following gene: 91212500
Centisome position: 67.92
GC content: 53.04
Gene sequence:
>1842_bases ATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCGTGGTAAGGAGCAAGGCTATCTGACCTATGCCGAGGT CAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATCATCCAAATGATCAACGACATGGGCATTC AGGTGATGGAAGAAGCACCGGATGCCGATGATCTGATGCTGGCTGAAAACACCGCGGACGAAGATGCTGCCGAAGCCGCC GCGCAGGTGCTTTCCAGCGTGGAATCTGAAATCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCAC CGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCG TTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTACGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGAT CTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATTTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCA GGAAGATCTGGACGATGACGAAGATGAAGACGAAGAAGATGGTGACGACGATACCGCCGATGATGACAACAGCATCGACC CGGAACTGGCTCGCGAAAAATTTGCGGAACTGCGCGCTCAGTACATTGTAACGCGTGACACCATCAAAGCGAAAGGCCGC AGTCACGCTGCCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGA CTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTGATCATGAAGCTCTGCGTTGAGC AGTGCAAAATGCCGAAGAAAAACTTCATTACCCTGTTTACCGGCAACGAAACCAGCGATACCTGGTTCAACGCGGCAATT GCGATGAACAAGCCGTGGTCGGAAAAACTGCACGATGTCTCTGAAGAAGTGCATCGCGCCCTGCAGAAACTGCAGCAGAT TGAAGAAGAAACCGGCCTGACCATCGAGCAGGTTAAAGATATCAACCGTCGTATGTCCATCGGTGAAGCGAAAGCCCGCC GTGCGAAGAAAGAGATGGTTGAAGCGAACTTGCGTCTGGTTATTTCTATCGCTAAGAAATACACCAACCGTGGCTTGCAG TTCCTTGACCTGATTCAGGAAGGTAACATCGGTCTGATGAAAGCGGTTGATAAATTCGAATACCGCCGTGGTTACAAGTT CTCCACCTACGCAACCTGGTGGATCCGTCAGGCGATCACCCGTTCTATCGCGGATCAGGCGCGCACCATCCGTATTCCGG TGCATATGATTGAGACTATCAACAAGCTCAACCGTATTTCTCGCCAGATGCTGCAAGAGATGGGCCGTGAACCAACGCCG GAAGAACTGGCTGAACGCATGCTGATGCCGGAAGACAAGATCCGCAAAGTGCTGAAGATCGCCAAAGAGCCAATCTCCAT GGAAACGCCGATCGGTGATGATGAAGATTCGCATCTGGGGGATTTCATCGAGGATACCACCCTCGAGCTGCCGCTGGATT CTGCGACCACCGAAAGCCTGCGTGCGGCAACGCACGACGTGCTGGCTGGCCTGACCGCGCGTGAAGCGAAAGTTCTGCGT ATGCGTTTCGGTATCGATATGAACACCGACCACACGCTGGAAGAAGTGGGTAAACAGTTCGACGTTACCCGCGAACGTAT CCGTCAGATCGAAGCGAAGGCGCTGCGCAAACTGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATT AA
Upstream 100 bases:
>100_bases GTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAA ATAAGTGTGGATACCGTCTT
Downstream 100 bases:
>100_bases TCGGTAGGCCGGATCAGGTGTTACGCCGCACCCGGCACTAGTCCCTCCGCACAAACGCCACCTTTTCGGTGGCGTTTTTT ATCGCCCACGCACTACCAGC
Product: RNA polymerase sigma factor RpoD
Products: NA
Alternate protein names: Sigma-70 [H]
Number of amino acids: Translated: 613; Mature: 613
Protein sequence:
>613_residues MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAA AQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSD LITGFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDTADDDNSIDPELAREKFAELRAQYIVTRDTIKAKGR SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAI AMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLR MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
Sequences:
>Translated_613_residues MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAA AQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSD LITGFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDTADDDNSIDPELAREKFAELRAQYIVTRDTIKAKGR SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAI AMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLR MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD >Mature_613_residues MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAA AQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSD LITGFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDTADDDNSIDPELAREKFAELRAQYIVTRDTIKAKGR SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAI AMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLR MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
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=613, Percent_Identity=99.347471451876, Blast_Score=1248, Evalue=0.0, Organism=Escherichia coli, GI1789098, Length=247, Percent_Identity=42.1052631578947, Blast_Score=209, Evalue=6e-55, Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.5123966942149, Blast_Score=89, Evalue=8e-19, Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=65, Evalue=1e-11,
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: 70236; Mature: 70236
Theoretical pI: Translated: 4.43; Mature: 4.43
Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2
Important sites: NA
Signals:
None
Transmembrane regions:
None
Cys/Met content:
0.5 %Cys (Translated Protein) 4.1 %Met (Translated Protein) 4.6 %Cys+Met (Translated Protein) 0.5 %Cys (Mature Protein) 4.1 %Met (Mature Protein) 4.6 %Cys+Met (Mature Protein)
Secondary structure:
>Translated Secondary Structure MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAP CCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHCCHHHHHCCC DADDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA CCCCEEEECCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEECCCCCHHHH KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATH HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH VGSELSQEDLDDDEDEDEEDGDDDTADDDNSIDPELAREKFAELRAQYIVTRDTIKAKGR HHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK CHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC NFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKD CEEEEEECCCCCCHHHHHHEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHH YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP HHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCH EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL HHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCHHHHHH RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH HHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC PSRSEVLRSFLDD CCHHHHHHHHHCC >Mature Secondary Structure MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAP CCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHCCHHHHHCCC DADDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA CCCCEEEECCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEECCCCCHHHH KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATH HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH VGSELSQEDLDDDEDEDEEDGDDDTADDDNSIDPELAREKFAELRAQYIVTRDTIKAKGR HHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK CHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC NFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKD CEEEEEECCCCCCHHHHHHEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHH YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP HHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCH EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL HHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCHHHHHH RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH HHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC PSRSEVLRSFLDD CCHHHHHHHHHCC
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: 11677608; 12644504 [H]