Summary: Positive regulator of sigma(E), RseC/MucC
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Positive regulator of sigma(E), RseC/MucC Provide feedback
This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) [1]. In Pseudomonas aeruginosa, de-repression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonisation in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium [2]. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains an ApbE domain PF02424 which is itself involved in thiamine biosynthesis.
Literature references
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Missiakas D, Mayer MP, Lemaire M, Georgopoulos C, Raina S; , Mol Microbiol 1997;24:355-371.: Modulation of the Escherichia coli sigmaE (RpoE) heat-shock transcription-factor activity by the RseA, RseB and RseC proteins. PUBMED:9159522 EPMC:9159522
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Beck BJ, Connolly LE, De Las Penas A, Downs DM; , J Bacteriol 1997;179:6504-6508.: Evidence that rseC, a gene in the rpoE cluster, has a role in thiamine synthesis in Salmonella typhimurium. PUBMED:9335303 EPMC:9335303
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Schmehl M, Jahn A, Meyer zu Vilsendorf A, Hennecke S, Masepohl B, Schuppler M, Marxer M, Oelze J, Klipp W; , Mol Gen Genet 1993;241:602-615.: Identification of a new class of nitrogen fixation genes in Rhodobacter capsulatus: a putative membrane complex involved in electron transport to nitrogenase. PUBMED:8264535 EPMC:8264535
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Domain organisation
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Seed (178) |
Full (1353) |
Representative proteomes | UniProt (6654) |
NCBI (7862) |
Meta (80) |
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RP15 (260) |
RP35 (709) |
RP55 (1347) |
RP75 (2264) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
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Seed (178) |
Full (1353) |
Representative proteomes | UniProt (6654) |
NCBI (7862) |
Meta (80) |
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RP15 (260) |
RP35 (709) |
RP55 (1347) |
RP75 (2264) |
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Raw Stockholm | |||||||||
Gzipped |
You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.
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Trees
This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.
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Curation and family details
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Curation
Seed source: | COG3086 |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Mifsud W |
Number in seed: | 178 |
Number in full: | 1353 |
Average length of the domain: | 129.80 aa |
Average identity of full alignment: | 21 % |
Average coverage of the sequence by the domain: | 87.51 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 130 | ||||||||||||
Family (HMM) version: | 13 | ||||||||||||
Download: | download the raw HMM for this family |
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