Summary: Sensory domain found in PocR
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Sensory domain found in PocR Provide feedback
Anantharaman V, Aravind L;, Bioinformatics. 2005;21:2805-2811.: MEDS and PocR are novel domains with a predicted role in sensing simple hydrocarbon derivatives in prokaryotic signal transduction systems. PUBMED:15814558 EPMC:15814558
Müller FH, Bandeiras TM, Urich T, Teixeira M, Gomes CM, Kletzin A , Mol Microbiol 2004;0:0-0.: Coupling of the Pathway of Sulfur Oxidation to Dioxygen Reduction: Characterization of a Novel Membrane-Bound Thiosulfate:Quinone Oxidoreductase 2 PUBMED:0 EPMC:0
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Gladomain, followed by two consecutive
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This clan contains PAS domains that are found in a wide variety of bacterial signaling proteins.
The clan contains the following 13 members:MEKHLA PAS PAS_10 PAS_11 PAS_2 PAS_3 PAS_4 PAS_5 PAS_6 PAS_7 PAS_8 PAS_9 PocR
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
|Seed source:||COGs (COG4936)|
|Author:||COGs, Finn RD, Sammut SJ, Anantharaman V|
|Number in seed:||71|
|Number in full:||805|
|Average length of the domain:||166.20 aa|
|Average identity of full alignment:||26 %|
|Average coverage of the sequence by the domain:||39.32 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||4|
|Download:||download the raw HMM for this family|
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