PF04055

Help to interpret the results

Three outputs have been generated:
General: this result contains the description and frequency of the selected Pfam domains PF04055, 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. 108 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 PF04055
Description Radical SAM superfamily

Occurence in the database

PF04055 is associated with 108 different proteins (see tab "Protein list" and "Profile")
The 108 proteins are classified into 20 different orthogroup(s)
# Orthogroup Locus Start Stop S. Gene Product Organism
0 group_514 FBDBKF_01070 194727 195905 -1 rlmN bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Morganella morganii S1
1 group_615 FBDBKF_01945 76103 77005 1 yhcC TIGR01212 family radical SAM protein Morganella morganii S1
2 group_801 FBDBKF_03765 156950 157978 1 epmB EF-P beta-lysylation protein EpmB Morganella morganii S1
3 group_892 FBDBKF_04660 130950 132290 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Morganella morganii S1
4 group_152 FBDBKF_07125 94259 94999 -1 pflA pyruvate formate lyase 1-activating protein Morganella morganii S1
5 group_2778 FBDBKF_08105 159858 161207 1 Uncharacterized radical SAM domain-containing protein Morganella morganii S1
6 group_1486 FBDBKF_09585 14262 15245 -1 moaA GTP 3',8-cyclase MoaA Morganella morganii S1
7 group_1490 FBDBKF_09620 22535 23572 -1 bioB biotin synthase BioB Morganella morganii S1
8 group_1537 FBDBKF_09970 86693 88132 1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Morganella morganii S1
9 group_1561 FBDBKF_10110 114086 115051 1 lipA lipoyl synthase Morganella morganii S1
10 group_1736 FBDBKF_12115 78508 79878 -1 hemN oxygen-independent coproporphyrinogen III oxidase Morganella morganii S1
11 group_3660 FBDBKF_12555 25973 27346 1 ygiQ Radical SAM superfamily enzyme YgiQ, UPF0313 family Morganella morganii S1
12 group_2899 FBDBKF_12575 29673 31016 -1 ygiQ Radical SAM superfamily enzyme YgiQ, UPF0313 family Morganella morganii S1
13 group_2899 FBDBKF_12580 31013 32323 -1 ygiQ Radical SAM superfamily enzyme YgiQ, UPF0313 family Morganella morganii S1
14 group_2899 FBDBKF_12590 33345 34691 -1 ygiQ Radical SAM superfamily enzyme YgiQ, UPF0313 family Morganella morganii S1
15 group_3660 FBDBKF_12595 34691 36085 -1 ygiQ Radical SAM superfamily enzyme YgiQ, UPF0313 family Morganella morganii S1
16 group_1996 FBDBKF_15025 16180 17310 -1 hemW radical SAM family heme chaperone HemW Morganella morganii S1
17 group_2291 FBDBKF_17610 18316 19443 -1 thiH 2-iminoacetate synthase ThiH Morganella morganii S1
18 group_514 EHELCC_00475 112963 114141 1 rlmN bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Morganella morganii S2
19 group_615 EHELCC_02415 463923 464825 1 yhcC TIGR01212 family radical SAM protein Morganella morganii S2
20 group_152 EHELCC_03845 91187 91927 1 pflA pyruvate formate lyase 1-activating protein Morganella morganii S2
21 group_1486 EHELCC_04385 206227 207210 -1 moaA GTP 3',8-cyclase MoaA Morganella morganii S2
22 group_1490 EHELCC_04420 214500 215537 -1 bioB biotin synthase BioB Morganella morganii S2
23 group_1537 EHELCC_04770 278658 280097 1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Morganella morganii S2
24 group_1561 EHELCC_04910 306051 307016 1 lipA lipoyl synthase Morganella morganii S2
25 group_892 EHELCC_05950 190407 191747 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Morganella morganii S2
26 group_801 EHELCC_06770 89125 90153 -1 epmB EF-P beta-lysylation protein EpmB Morganella morganii S2
27 group_1996 EHELCC_11220 67596 68726 1 hemW radical SAM family heme chaperone HemW Morganella morganii S2
28 group_2778 EHELCC_13935 134052 135401 1 Uncharacterized radical SAM domain-containing protein Morganella morganii S2
29 group_1736 EHELCC_14190 54827 56197 1 hemN oxygen-independent coproporphyrinogen III oxidase Morganella morganii S2
30 group_2291 EHELCC_18095 17692 18819 -1 thiH 2-iminoacetate synthase ThiH Morganella morganii S2
31 group_615 NLDBIP_01045 215311 216213 -1 yhcC TIGR01212 family radical SAM protein Morganella morganii S4
32 group_514 NLDBIP_02985 565995 567173 -1 rlmN bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Morganella morganii S4
33 group_152 NLDBIP_03845 90983 91723 1 pflA pyruvate formate lyase 1-activating protein Morganella morganii S4
34 group_1486 NLDBIP_04385 206023 207006 -1 moaA GTP 3',8-cyclase MoaA Morganella morganii S4
35 group_1490 NLDBIP_04420 214296 215333 -1 bioB biotin synthase BioB Morganella morganii S4
36 group_1537 NLDBIP_04770 278454 279893 1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Morganella morganii S4
37 group_1561 NLDBIP_04910 305847 306812 1 lipA lipoyl synthase Morganella morganii S4
38 group_892 NLDBIP_06270 231472 232812 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Morganella morganii S4
39 group_801 NLDBIP_07095 88998 90026 -1 epmB EF-P beta-lysylation protein EpmB Morganella morganii S4
40 group_1996 NLDBIP_11565 67596 68726 1 hemW radical SAM family heme chaperone HemW Morganella morganii S4
41 group_2778 NLDBIP_14380 154927 156276 1 Uncharacterized radical SAM domain-containing protein Morganella morganii S4
42 group_1736 NLDBIP_15285 58764 60134 1 hemN oxygen-independent coproporphyrinogen III oxidase Morganella morganii S4
43 group_2291 NLDBIP_18055 19918 21045 1 thiH 2-iminoacetate synthase ThiH Morganella morganii S4
44 group_615 LHKJJB_00990 176472 177374 1 yhcC TIGR01212 family radical SAM protein Morganella morganii S3
45 group_892 LHKJJB_03150 208996 210336 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Morganella morganii S3
46 group_514 LHKJJB_04500 173236 174414 -1 rlmN bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Morganella morganii S3
47 group_801 LHKJJB_06630 52744 53772 -1 epmB EF-P beta-lysylation protein EpmB Morganella morganii S3
48 group_2778 LHKJJB_08470 3473 4822 -1 Uncharacterized radical SAM domain-containing protein Morganella morganii S3
49 group_152 LHKJJB_09675 91097 91837 1 pflA pyruvate formate lyase 1-activating protein Morganella morganii S3
50 group_1996 LHKJJB_11425 67596 68726 1 hemW radical SAM family heme chaperone HemW Morganella morganii S3
51 group_1561 LHKJJB_13720 28566 29531 -1 lipA lipoyl synthase Morganella morganii S3
52 group_1537 LHKJJB_13860 55485 56924 -1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Morganella morganii S3
53 group_1490 LHKJJB_14210 120045 121082 1 bioB biotin synthase BioB Morganella morganii S3
54 group_1486 LHKJJB_14245 128372 129355 1 moaA GTP 3',8-cyclase MoaA Morganella morganii S3
55 group_1736 LHKJJB_15325 78508 79878 -1 hemN oxygen-independent coproporphyrinogen III oxidase Morganella morganii S3
56 group_2291 LHKJJB_18250 19918 21045 1 thiH 2-iminoacetate synthase ThiH Morganella morganii S3
57 group_615 HKOGLL_01030 181983 182885 1 yhcC TIGR01212 family radical SAM protein Morganella morganii S5
58 group_514 HKOGLL_02545 113168 114346 1 rlmN bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Morganella morganii S5
59 group_801 HKOGLL_04300 179615 180643 1 epmB EF-P beta-lysylation protein EpmB Morganella morganii S5
60 group_892 HKOGLL_06625 130860 132200 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Morganella morganii S5
61 group_2778 HKOGLL_08020 3473 4822 -1 Uncharacterized radical SAM domain-containing protein Morganella morganii S5
62 group_152 HKOGLL_09300 99215 99955 -1 pflA pyruvate formate lyase 1-activating protein Morganella morganii S5
63 group_1996 HKOGLL_10035 67596 68726 1 hemW radical SAM family heme chaperone HemW Morganella morganii S5
64 group_1486 HKOGLL_12290 15043 16026 -1 moaA GTP 3',8-cyclase MoaA Morganella morganii S5
65 group_1490 HKOGLL_12325 23316 24353 -1 bioB biotin synthase BioB Morganella morganii S5
66 group_1537 HKOGLL_12675 87474 88913 1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Morganella morganii S5
67 group_1561 HKOGLL_12815 114867 115832 1 lipA lipoyl synthase Morganella morganii S5
68 group_1736 HKOGLL_14445 65171 66541 -1 hemN oxygen-independent coproporphyrinogen III oxidase Morganella morganii S5
69 group_2291 HKOGLL_17950 17692 18819 -1 thiH 2-iminoacetate synthase ThiH Morganella morganii S5
70 group_1561 F4V73_RS00225 56394 57359 -1 lipA lipoyl synthase Morganella psychrotolerans
71 group_1537 F4V73_RS00375 84472 85911 -1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Morganella psychrotolerans
72 group_1490 F4V73_RS00720 150021 151058 1 bioB biotin synthase BioB Morganella psychrotolerans
73 group_1486 F4V73_RS00760 159387 160370 1 moaA GTP 3',8-cyclase MoaA Morganella psychrotolerans
74 group_152 F4V73_RS01310 281993 282733 -1 pflA pyruvate formate lyase 1-activating protein Morganella psychrotolerans
75 group_615 F4V73_RS04290 906436 907389 1 TIGR01212 family radical SAM protein Morganella psychrotolerans
76 group_514 F4V73_RS07145 1483159 1484337 -1 bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Morganella psychrotolerans
77 group_3660 F4V73_RS07790 1625894 1627240 1 radical SAM protein Morganella psychrotolerans
78 group_2899 F4V73_RS07810 1629585 1630928 -1 radical SAM protein Morganella psychrotolerans
79 group_2899 F4V73_RS07815 1630925 1632256 -1 radical SAM protein Morganella psychrotolerans
80 group_2899 F4V73_RS07825 1633257 1634603 -1 radical SAM protein Morganella psychrotolerans
81 group_3660 F4V73_RS07830 1634603 1635997 -1 radical SAM protein Morganella psychrotolerans
82 group_892 F4V73_RS09110 1904705 1906045 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Morganella psychrotolerans
83 group_1422 F4V73_RS09995 103694 104161 -1 nrdG anaerobic ribonucleoside-triphosphate reductase-activating protein Morganella psychrotolerans
84 group_801 F4V73_RS11110 360091 361119 -1 epmB EF-P beta-lysylation protein EpmB Morganella psychrotolerans
85 group_1996 F4V73_RS12425 68289 69419 1 hemW radical SAM family heme chaperone HemW Morganella psychrotolerans
86 group_2778 F4V73_RS12895 184787 186136 -1 radical SAM protein Morganella psychrotolerans
87 group_2357 F4V73_RS13925 420429 421100 -1 queE 7-carboxy-7-deazaguanine synthase QueE Morganella psychrotolerans
88 group_1736 F4V73_RS14525 134270 135640 1 hemN oxygen-independent coproporphyrinogen III oxidase Morganella psychrotolerans
89 group_2291 F4V73_RS14990 236951 238081 -1 thiH 2-iminoacetate synthase ThiH Morganella psychrotolerans
90 group_1996 PMI_RS01585 382997 384127 -1 hemW radical SAM family heme chaperone HemW Proteus mirabilis HI4320
91 group_1561 PMI_RS02070 487404 488369 -1 lipA lipoyl synthase Proteus mirabilis HI4320
92 group_1537 PMI_RS02205 514549 515979 -1 miaB tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB Proteus mirabilis HI4320
93 group_1490 PMI_RS02970 655074 656111 1 bioB biotin synthase BioB Proteus mirabilis HI4320
94 group_1486 PMI_RS03005 663808 664788 1 moaA GTP 3',8-cyclase MoaA Proteus mirabilis HI4320
95 group_152 PMI_RS03465 769220 769960 -1 pflA pyruvate formate lyase 1-activating protein Proteus mirabilis HI4320
96 group_615 PMI_RS05285 1154189 1155118 1 TIGR01212 family radical SAM protein Proteus mirabilis HI4320
97 group_514 PMI_RS09120 1985301 1986482 -1 bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN Proteus mirabilis HI4320
98 group_4533 PMI_RS10555 2321495 2322730 1 anaerobic sulfatase maturase Proteus mirabilis HI4320
99 group_2357 PMI_RS11095 2442252 2442923 -1 queE 7-carboxy-7-deazaguanine synthase QueE Proteus mirabilis HI4320
100 group_152 PMI_RS12405 2750872 2751738 1 YjjW family glycine radical enzyme activase Proteus mirabilis HI4320
101 group_801 PMI_RS12515 2775035 2776063 1 epmB EF-P beta-lysylation protein EpmB Proteus mirabilis HI4320
102 group_152 PMI_RS13380 2964242 2965192 -1 cutD choline TMA-lyase-activating enzyme Proteus mirabilis HI4320
103 group_2291 PMI_RS13740 3051023 3052141 1 thiH 2-iminoacetate synthase ThiH Proteus mirabilis HI4320
104 group_1736 PMI_RS14260 3164458 3165831 -1 hemN oxygen-independent coproporphyrinogen III oxidase Proteus mirabilis HI4320
105 group_892 PMI_RS15730 3495155 3496486 -1 rimO 30S ribosomal protein S12 methylthiotransferase RimO Proteus mirabilis HI4320
106 group_4730 PMI_RS17720 3890267 3891655 1 hxsB His-Xaa-Ser system radical SAM maturase HxsB Proteus mirabilis HI4320
107 group_4731 PMI_RS17725 3891648 3892757 1 hxsC His-Xaa-Ser system radical SAM maturase HxsC Proteus mirabilis HI4320