Definition | Akkermansia muciniphila ATCC BAA-835, complete genome. |
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Accession | NC_010655 |
Length | 2,664,102 |
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The map label for this gene is rpoD [H]
Identifier: 187736115
GI number: 187736115
Start: 1959219
End: 1961285
Strand: Direct
Name: rpoD [H]
Synonym: Amuc_1626
Alternate gene names: 187736115
Gene position: 1959219-1961285 (Clockwise)
Preceding gene: 187736114
Following gene: 187736116
Centisome position: 73.54
GC content: 55.25
Gene sequence:
>2067_bases ATGTCCAAATCCGGTGACCCATCCCCCTCTTCTCCCAAGAAGACTTCCGCCAACAAAAAAGCTTCTGAATCCAAGGAAAA AATAGCGGCCCGGCCCGCCGCAAAAAATTCCAAAACCGCTCCGAAGGCGGCTCCTGTCAAAAAAAACTCTGCCAAGGCTG CCGCTCCGGCTGCGGAAAAGGCCGCCGCCAAGCCCGTTGCGGAAAAAAAGGCCCCGGCAAAAAAAGCGTCTCCGGCTTCT GCCTCCAAGAAGGCGGCGCCGTCCGCCAAAAAGACTCCGGCAAAGGCGCCTGAAGCTGTCCCTGCCAAGAAAGCTCCAGC CAAGGCTGCGGAGAAGAAGCCGGCTGAGAAGAAGGCCGCCAAACCTGCCGCGAAGGAGGAAACGCCCAAAAAATTAAGCG AAATACTGGAAGAGGAACGCAAGAGGGCTGCCAGCCGCAAGATCACGAATCCGATTGACGCTCCGGAAATTCAGGAAAAA ATCCGTGAACTTATCAAGCTCGCCAAGGAACAGGGGTATCTGACTTTTGACGATATTAATGACTCCCTTCCCAACGACAT TGTCGATCAGCAGGATTACGAGGCCATCATGGACCGCCTGCGCAGCATGGCGTTTGACATCATTGACGCGTCTGATGTGG ACAGCTACACGGACCGCACCCGCATCAGCACGGAAGAAGAGGACGAAGAGGAAAAGCTCGAAGCCAAGATGGACATTCTG GATGATCCCGTCCGCATGTACCTGAAACAAATGGGCCAGGTTTCCCTGCTTACCCGTGAAGAGGAAGTGGCCATTTCCAA GAGAATTGAGGACGCGGAACAGAACGTCCAGCGCTGTGTGCACCGCTTCGGTTTCATCGCGAATGCCTATCTGGACGTAG CCTATCGCCTGCTCGACAATGAGGAACGCTTTGACCGCGTTATCCTTGACAAAAAGATAGACTCCCGTGAGCGCTATATG AAAGGGCTGGCCCAGCTCTGCGCCCAGATACAGCAGACCCATCAGGACGCATCCGGTTCCTTCCGCAAGCTGTACCGCAG CAAGGAGGCGGCCAAGTCCGTCAAGGCCCGCCAGGCCGAATTCGACAAAGTTGCCGGCGCTTTGGTGAAGTTCTTCGGTC GCCTGTATTTCAAGCACAAGGTGATTGAGGATTTCTGTTCCATGATTGACGAGGCCCGCGACCGCGTGCTCCGCATGCAG AAGAAGGTTGCCCTGGAACCGGACAACAAGGAACTCAAGGAACATCTGGCAGAGCTGGAGCTTCGCATGTGGATGACTGC GGATGAGATGGGAGATGCCTACCAGGAACTCCGCAAATGGCTTCGCGAAGCCCGCAGGGCCAAGGATGAAATGGTGGAGG CCAATCTGCGCCTGGTCATTTCCATTGCCAAAAAATATACCAACCGCGGCCTCTCCTTCCTGGATCTGATTCAGGAAGGC AACATGGGCCTGATGAAAGCGGTGGAAAAATTTGAATACCGCCGCGGCTACAAATTCTCCACCTATGCCACCTGGTGGAT TCGCCAGGCCATCACCCGCTCCATTGCAGACCAGGCCCGCACCATCCGCATTCCCGTGCACATGATTGAAACCATCAATA AATTGATGCGCGTGCAAAAGCAGTTGGTGCAGGAGTACGGTAGGGAACCCACTCCGGAAGAAATCGCGGAAGAAATCCAT CTGCCTGTGGAACGCGTGCGTTCCGTTTTGAAAATGGCCCAGCAGCCCATTTCCCTGCAAGCCCCCGTGGGGGATTCCGA CGATACCTCCTTTGGTGACTTTATTGAAGACAAGGCGGCGGAAAATCCCATGGAGGAAGCCTCCTTCTCTTTCCTGAAAG AAAAAATCAAGGATGTTCTGGACACCCTCACGGATCGTGAACGCGAAGTTATTGAACAGCGCTTCGGCCTCCGGGACGGC AGTCCCCGCACTCTGGAGGAAGTGGGCCGCCAGTTCAGCGTCACCCGCGAACGCATTCGCCAGATTGAAGCCAAAGCCCT CCGCAAGCTGCGCCATCCCACGCGCATCAGCAAGATCAAGGGATTCCTGGAAATGACGGAATCCTAA
Upstream 100 bases:
>100_bases AACTTAGTGTTGACTTGAAGCGTTTGCTGGGTACAATGTAGTGCCTCGATACCTCCGGGTATTGATATAATGGTGAATTG TGCCCTCTTCTTTTCAAGAT
Downstream 100 bases:
>100_bases CCGGATTTGCGCCGCATGCCGTGCTACGCTTTGTGGTCATGAAGACTTGCGTAGCTGCGGTATGCAGCATGTTCATGTTA CTGGTTTCCTGTTCCGGCAG
Product: RNA polymerase, sigma 70 subunit, RpoD family
Products: NA
Alternate protein names: Sigma-A; Sigma-66; Sigma-70 [H]
Number of amino acids: Translated: 688; Mature: 687
Protein sequence:
>688_residues MSKSGDPSPSSPKKTSANKKASESKEKIAARPAAKNSKTAPKAAPVKKNSAKAAAPAAEKAAAKPVAEKKAPAKKASPAS ASKKAAPSAKKTPAKAPEAVPAKKAPAKAAEKKPAEKKAAKPAAKEETPKKLSEILEEERKRAASRKITNPIDAPEIQEK IRELIKLAKEQGYLTFDDINDSLPNDIVDQQDYEAIMDRLRSMAFDIIDASDVDSYTDRTRISTEEEDEEEKLEAKMDIL DDPVRMYLKQMGQVSLLTREEEVAISKRIEDAEQNVQRCVHRFGFIANAYLDVAYRLLDNEERFDRVILDKKIDSRERYM KGLAQLCAQIQQTHQDASGSFRKLYRSKEAAKSVKARQAEFDKVAGALVKFFGRLYFKHKVIEDFCSMIDEARDRVLRMQ KKVALEPDNKELKEHLAELELRMWMTADEMGDAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEG NMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPTPEEIAEEIH LPVERVRSVLKMAQQPISLQAPVGDSDDTSFGDFIEDKAAENPMEEASFSFLKEKIKDVLDTLTDREREVIEQRFGLRDG SPRTLEEVGRQFSVTRERIRQIEAKALRKLRHPTRISKIKGFLEMTES
Sequences:
>Translated_688_residues MSKSGDPSPSSPKKTSANKKASESKEKIAARPAAKNSKTAPKAAPVKKNSAKAAAPAAEKAAAKPVAEKKAPAKKASPAS ASKKAAPSAKKTPAKAPEAVPAKKAPAKAAEKKPAEKKAAKPAAKEETPKKLSEILEEERKRAASRKITNPIDAPEIQEK IRELIKLAKEQGYLTFDDINDSLPNDIVDQQDYEAIMDRLRSMAFDIIDASDVDSYTDRTRISTEEEDEEEKLEAKMDIL DDPVRMYLKQMGQVSLLTREEEVAISKRIEDAEQNVQRCVHRFGFIANAYLDVAYRLLDNEERFDRVILDKKIDSRERYM KGLAQLCAQIQQTHQDASGSFRKLYRSKEAAKSVKARQAEFDKVAGALVKFFGRLYFKHKVIEDFCSMIDEARDRVLRMQ KKVALEPDNKELKEHLAELELRMWMTADEMGDAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEG NMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPTPEEIAEEIH LPVERVRSVLKMAQQPISLQAPVGDSDDTSFGDFIEDKAAENPMEEASFSFLKEKIKDVLDTLTDREREVIEQRFGLRDG SPRTLEEVGRQFSVTRERIRQIEAKALRKLRHPTRISKIKGFLEMTES >Mature_687_residues SKSGDPSPSSPKKTSANKKASESKEKIAARPAAKNSKTAPKAAPVKKNSAKAAAPAAEKAAAKPVAEKKAPAKKASPASA SKKAAPSAKKTPAKAPEAVPAKKAPAKAAEKKPAEKKAAKPAAKEETPKKLSEILEEERKRAASRKITNPIDAPEIQEKI RELIKLAKEQGYLTFDDINDSLPNDIVDQQDYEAIMDRLRSMAFDIIDASDVDSYTDRTRISTEEEDEEEKLEAKMDILD DPVRMYLKQMGQVSLLTREEEVAISKRIEDAEQNVQRCVHRFGFIANAYLDVAYRLLDNEERFDRVILDKKIDSRERYMK GLAQLCAQIQQTHQDASGSFRKLYRSKEAAKSVKARQAEFDKVAGALVKFFGRLYFKHKVIEDFCSMIDEARDRVLRMQK KVALEPDNKELKEHLAELELRMWMTADEMGDAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEGN MGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPTPEEIAEEIHL PVERVRSVLKMAQQPISLQAPVGDSDDTSFGDFIEDKAAENPMEEASFSFLKEKIKDVLDTLTDREREVIEQRFGLRDGS PRTLEEVGRQFSVTRERIRQIEAKALRKLRHPTRISKIKGFLEMTES
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=269, Percent_Identity=63.5687732342007, Blast_Score=354, Evalue=9e-99, Organism=Escherichia coli, GI1789098, Length=234, Percent_Identity=43.5897435897436, Blast_Score=215, Evalue=8e-57, Organism=Escherichia coli, GI1789871, Length=239, Percent_Identity=30.5439330543933, Blast_Score=95, Evalue=2e-20, Organism=Escherichia coli, GI1788231, Length=210, Percent_Identity=28.0952380952381, Blast_Score=74, Evalue=3e-14,
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: 78263; Mature: 78132
Theoretical pI: Translated: 9.80; Mature: 9.80
Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2
Important sites: NA
Signals:
None
Transmembrane regions:
None
Cys/Met content:
0.4 %Cys (Translated Protein) 2.9 %Met (Translated Protein) 3.3 %Cys+Met (Translated Protein) 0.4 %Cys (Mature Protein) 2.8 %Met (Mature Protein) 3.2 %Cys+Met (Mature Protein)
Secondary structure:
>Translated Secondary Structure MSKSGDPSPSSPKKTSANKKASESKEKIAARPAAKNSKTAPKAAPVKKNSAKAAAPAAEK CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH AAAKPVAEKKAPAKKASPASASKKAAPSAKKTPAKAPEAVPAKKAPAKAAEKKPAEKKAA HHHCCHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHC KPAAKEETPKKLSEILEEERKRAASRKITNPIDAPEIQEKIRELIKLAKEQGYLTFDDIN CCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCEEECCCC DSLPNDIVDQQDYEAIMDRLRSMAFDIIDASDVDSYTDRTRISTEEEDEEEKLEAKMDIL CCCCCHHCCHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHH DDPVRMYLKQMGQVSLLTREEEVAISKRIEDAEQNVQRCVHRFGFIANAYLDVAYRLLDN CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC EERFDRVILDKKIDSRERYMKGLAQLCAQIQQTHQDASGSFRKLYRSKEAAKSVKARQAE HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH FDKVAGALVKFFGRLYFKHKVIEDFCSMIDEARDRVLRMQKKVALEPDNKELKEHLAELE HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH LRMWMTADEMGDAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEG HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHC NMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQK CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHH QLVQEYGREPTPEEIAEEIHLPVERVRSVLKMAQQPISLQAPVGDSDDTSFGDFIEDKAA HHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCEEECCCCCCCCCCHHHHHHHHHH ENPMEEASFSFLKEKIKDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIR CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH QIEAKALRKLRHPTRISKIKGFLEMTES HHHHHHHHHHHCCHHHHHHHHHHHHHCC >Mature Secondary Structure SKSGDPSPSSPKKTSANKKASESKEKIAARPAAKNSKTAPKAAPVKKNSAKAAAPAAEK CCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH AAAKPVAEKKAPAKKASPASASKKAAPSAKKTPAKAPEAVPAKKAPAKAAEKKPAEKKAA HHHCCHHHHCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHC KPAAKEETPKKLSEILEEERKRAASRKITNPIDAPEIQEKIRELIKLAKEQGYLTFDDIN CCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCEEECCCC DSLPNDIVDQQDYEAIMDRLRSMAFDIIDASDVDSYTDRTRISTEEEDEEEKLEAKMDIL CCCCCHHCCHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHH DDPVRMYLKQMGQVSLLTREEEVAISKRIEDAEQNVQRCVHRFGFIANAYLDVAYRLLDN CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC EERFDRVILDKKIDSRERYMKGLAQLCAQIQQTHQDASGSFRKLYRSKEAAKSVKARQAE HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH FDKVAGALVKFFGRLYFKHKVIEDFCSMIDEARDRVLRMQKKVALEPDNKELKEHLAELE HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH LRMWMTADEMGDAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEG HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHC NMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQK CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHH QLVQEYGREPTPEEIAEEIHLPVERVRSVLKMAQQPISLQAPVGDSDDTSFGDFIEDKAA HHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCEEECCCCCCCCCCHHHHHHHHHH ENPMEEASFSFLKEKIKDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIR CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH QIEAKALRKLRHPTRISKIKGFLEMTES HHHHHHHHHHHCCHHHHHHHHHHHHHCC
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 [H]