PF04542

Help to interpret the results

Three outputs have been generated:
General: this result contains the description and frequency of the selected Pfam domains PF04542, of which KO pathways and KO modules it is part. Additionally, its occurence in the database is reported.
Proteins list: list of occurences of the Pfam domains within the database. 42 occurences are identified. The table reports the orthogroup, the organism in which each occurrence has been found, and the locus tag enriched by start and stop position, strand, gene name and product.
Clicking on the Ortohgroup name or locus you will be redirected to further info.
Profiles: Phylogenetic tree annotated with
- the presence of the Pfam domain(s) of interest within all the genomes of the database (first column)
- the size of the orthogroup(s) in which the reported Pfam domains has been clustered.
In red the Pfam domains with positive hit(s) in the corresponding genome.
In green the discrepencies between orthogroup clustering and Pfam domains prediction. Green homologs (same orthogroup) are not positive hit(s) for the considered Pfam domains.

Variations within orthogroups may be due to the clustering of multi domain proteins or because of erroneous homolog clustering or Pfam domains prediction.

Description

External link PF04542
Description Sigma-70 region 2

Occurence in the database

PF04542 is associated with 42 different proteins (see tab "Protein list" and "Profile")
The 42 proteins are classified into 6 different orthogroup(s)
# Orthogroup Locus Start Stop S. Gene Product Organism
0 group_444 FBDBKF_00515 86305 87027 -1 fliA DNA-directed RNA polymerase specialized sigma subunit Morganella morganii S1
1 group_565 FBDBKF_01460 290673 291251 -1 rpoE RNA polymerase sigma factor RpoE Morganella morganii S1
2 group_764 FBDBKF_03515 107558 108412 -1 rpoH RNA polymerase sigma factor RpoH Morganella morganii S1
3 group_2282 FBDBKF_17530 40418 42268 1 rpoD RNA polymerase sigma factor RpoD Morganella morganii S1
4 group_2307 FBDBKF_17720 1188 1730 1 rpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 family Morganella morganii S1
5 group_2349 FBDBKF_18965 11096 12088 -1 rpoS RNA polymerase sigma factor RpoS Morganella morganii S1
6 group_565 EHELCC_00085 17617 18195 1 rpoE RNA polymerase sigma factor RpoE Morganella morganii S2
7 group_444 EHELCC_01030 221841 222563 1 fliA DNA-directed RNA polymerase specialized sigma subunit Morganella morganii S2
8 group_764 EHELCC_07020 138691 139545 1 rpoH RNA polymerase sigma factor RpoH Morganella morganii S2
9 group_2307 EHELCC_09745 180620 181162 1 rpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 family Morganella morganii S2
10 group_2282 EHELCC_17425 40418 42268 1 rpoD RNA polymerase sigma factor RpoD Morganella morganii S2
11 group_2349 EHELCC_18710 11096 12088 -1 rpoS RNA polymerase sigma factor RpoS Morganella morganii S2
12 group_444 NLDBIP_02430 457573 458295 -1 fliA DNA-directed RNA polymerase specialized sigma subunit Morganella morganii S4
13 group_565 NLDBIP_03375 661941 662519 -1 rpoE RNA polymerase sigma factor RpoE Morganella morganii S4
14 group_764 NLDBIP_07345 138564 139418 1 rpoH RNA polymerase sigma factor RpoH Morganella morganii S4
15 group_2307 NLDBIP_10125 180620 181162 1 rpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 family Morganella morganii S4
16 group_2282 NLDBIP_17770 528 2378 -1 rpoD RNA polymerase sigma factor RpoD Morganella morganii S4
17 group_2349 NLDBIP_18595 13425 14417 1 rpoS RNA polymerase sigma factor RpoS Morganella morganii S4
18 group_444 LHKJJB_03945 64814 65536 -1 fliA DNA-directed RNA polymerase specialized sigma subunit Morganella morganii S3
19 group_565 LHKJJB_04890 269182 269760 -1 rpoE RNA polymerase sigma factor RpoE Morganella morganii S3
20 group_764 LHKJJB_06880 102310 103164 1 rpoH RNA polymerase sigma factor RpoH Morganella morganii S3
21 group_2307 LHKJJB_07630 36076 36618 -1 rpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 family Morganella morganii S3
22 group_2282 LHKJJB_17690 526 2376 -1 rpoD RNA polymerase sigma factor RpoD Morganella morganii S3
23 group_2349 LHKJJB_18580 11096 12088 -1 rpoS RNA polymerase sigma factor RpoS Morganella morganii S3
24 group_565 HKOGLL_02155 17822 18400 1 rpoE RNA polymerase sigma factor RpoE Morganella morganii S5
25 group_444 HKOGLL_03100 222046 222768 1 fliA DNA-directed RNA polymerase specialized sigma subunit Morganella morganii S5
26 group_764 HKOGLL_04050 130223 131077 -1 rpoH RNA polymerase sigma factor RpoH Morganella morganii S5
27 group_2307 HKOGLL_07180 36076 36618 -1 rpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 family Morganella morganii S5
28 group_2282 HKOGLL_17700 526 2376 -1 rpoD RNA polymerase sigma factor RpoD Morganella morganii S5
29 group_2349 HKOGLL_18315 11096 12088 -1 rpoS RNA polymerase sigma factor RpoS Morganella morganii S5
30 group_565 F4V73_RS01945 425400 425975 1 rpoE RNA polymerase sigma factor RpoE Morganella psychrotolerans
31 group_444 F4V73_RS06525 1362145 1362867 -1 RNA polymerase sigma factor FliA Morganella psychrotolerans
32 group_764 F4V73_RS11385 419291 420145 1 rpoH RNA polymerase sigma factor RpoH Morganella psychrotolerans
33 group_2349 F4V73_RS13875 412519 413520 -1 rpoS RNA polymerase sigma factor RpoS Morganella psychrotolerans
34 group_2307 F4V73_RS15240 33662 34201 -1 RNA polymerase sigma factor Morganella psychrotolerans
35 group_2282 F4V73_RS16710 164268 166163 1 rpoD RNA polymerase sigma factor RpoD Morganella psychrotolerans
36 group_444 PMI_RS07905 1732441 1733163 -1 RNA polymerase sigma factor FliA Proteus mirabilis HI4320
37 group_565 PMI_RS09350 2040616 2041194 -1 rpoE RNA polymerase sigma factor RpoE Proteus mirabilis HI4320
38 group_2349 PMI_RS11015 2425405 2426394 -1 rpoS RNA polymerase sigma factor RpoS Proteus mirabilis HI4320
39 group_2282 PMI_RS11730 2591863 2593719 1 rpoD RNA polymerase sigma factor RpoD Proteus mirabilis HI4320
40 group_764 PMI_RS17955 3946115 3946969 1 rpoH RNA polymerase sigma factor RpoH Proteus mirabilis HI4320
41 group_2307 PMI_RS18450 4051575 4052123 -1 RNA polymerase sigma factor Proteus mirabilis HI4320