Rfam search with JAR3D
Rfam families with loops matching IL_26307.2
from JAR3D release 3.98
using CaCoFold secondary structures. Search with Rfam secondary structures.
| Rfam Accession |
Rfam Name | Loop Number, Links to Results |
Motif Group | Motif Group Annotation |
Acceptance Rate |
Mean Cutoff Score |
Full Edit Distance |
Interior Edit Distance |
Rfam clan, if any |
PDB count motif atlas release 3.98 |
PDB count today |
|---|---|---|---|---|---|---|---|---|---|---|---|
| RF00011 | Bacterial RNase P class B | 10 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 61.82 | 14.95 | 3.00 | 1.00 | CL00002 | 4 | 130 |
| RF00061 | Hepatitis C virus internal ribosome entry site | 5 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 97.96 | 88.92 | 3.00 | 0.00 | CL00017 | 0 | 34 |
| RF00061 | Hepatitis C virus internal ribosome entry site | 16 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 99.97 | 1.00 | 0.00 | CL00017 | 0 | 34 |
| RF00168 | Lysine riboswitch aptamer | 4 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 78.72 | 27.07 | 3.00 | 1.00 | 2 | 16 | |
| RF00210 | Aphthovirus internal ribosome entry site (IRES) | 15 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 96.74 | 25.54 | 3.00 | 1.00 | 0 | 3 | |
| RF00230 | T-box leader | 3 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 60.42 | 20.00 | 3.00 | 1.00 | 3 | 12 | |
| RF01122 | Small nucleolar RNA sR39 | 2 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 53.81 | 3.00 | 1.00 | 0 | 0 | |
| RF01407 | STnc560 Hfq binding RNA | 4 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 83.33 | -3.25 | 4.00 | 3.00 | 0 | 0 | |
| RF01460 | Listeria sRNA rliH | 4 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 88.98 | 3.00 | 0.00 | 0 | 0 | |
| RF01703 | Dictyoglomi-1 RNA | 3 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 88.25 | 1.00 | 0.50 | 0 | 0 | |
| RF01703 | Dictyoglomi-1 RNA | 7 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 24.87 | 3.00 | 1.50 | 0 | 0 | |
| RF01703 | Dictyoglomi-1 RNA | 9 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 85.19 | 3.00 | 1.00 | 0 | 0 | |
| RF01703 | Dictyoglomi-1 RNA | 12 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 78.51 | 2.50 | 0.50 | 0 | 0 | |
| RF01714 | Ocean-V RNA | 2 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 92.37 | 2.00 | 0.00 | 0 | 0 | |
| RF01774 | Rickettsia rpsL leader | 2 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 71.43 | 1.57 | 5.00 | 2.00 | 0 | 0 | |
| RF02032 | Giant, ornate, lake- and Lactobacillales-derived (GOLLD) RNA | 14 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 51.43 | 5.01 | 4.00 | 2.00 | 0 | 73 | |
| RF02265 | MAT2A 3'UTR stem loop F | 1 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 80.77 | -5.88 | 5.00 | 3.00 | 0 | 0 | |
| RF02921 | RT-14 RNA | 13 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 83.92 | 46.27 | 3.00 | 1.00 | 0 | 0 | |
| RF02984 | DUF3800-X RNA | 2 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 84.09 | 47.54 | 3.00 | 1.00 | 0 | 0 | |
| RF02997 | HOLDH RNA | 9 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 97.38 | 2.00 | 0.00 | 0 | 0 | |
| RF03019 | RT-16 RNA | 9 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 95.52 | 54.67 | 3.00 | 1.00 | 0 | 0 | |
| RF03020 | RT-17 RNA | 7 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 98.41 | 52.58 | 2.00 | 1.00 | 0 | 0 | |
| RF03021 | RT-18 RNA | 3 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 99.29 | 93.13 | 2.00 | 0.00 | 0 | 0 | |
| RF03022 | RT-10 RNA | 10 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 96.46 | 79.74 | 2.00 | 0.00 | 0 | 9 | |
| RF03046 | Pseudomonadales-1 RNA | 4 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 92.42 | 1.00 | 0.00 | 0 | 0 | |
| RF03072 | raiA RNA | 11 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 81.52 | 47.61 | 2.00 | 1.00 | 0 | 6 | |
| RF03073 | RT-19 RNA | 5 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 57.00 | 1.00 | 1.00 | 0 | 0 | |
| RF03081 | DUF805 RNA | 2 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 89.13 | 48.42 | 3.00 | 0.00 | CL00115 | 0 | 0 |
| RF03087 | ROOL RNA | 35 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 86.21 | 51.60 | 2.00 | 1.00 | 0 | 30 | |
| RF03121 | Alphacoronavirus 3'UTR | 6 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 58.82 | 13.08 | 3.00 | 1.00 | CL00117 | 1 | 1 |
| RF03393 | mir-2849 microRNA precursor family | 2 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 11.34 | 3.00 | 3.00 | 0 | 0 | |
| RF03535 | Staphylococcus aureus small RNA TEG147 | 1 | IL_26307.2 | 7x6 Sarcin-Ricin; G-bulge | 100.00 | 95.63 | 2.00 | 0.00 | 0 | 0 |
Rfam family that a match was found in, links to the family page on Rfam.
Text name for the Rfam family.
The loop in the Rfam family that a match was found for.
The link goes to the JAR3D results page for the Rfam family at that loop.
Note that the loop on this page may not be the best match on the JAR3D results page, and it
might not even be in the top 10.
The motif group that was found in the Rfam family, links to the RNA 3D Motif Atlas page for that motif group.
The common annotation for the motif group, if one is available.
Percentage of input sequences which meet the criteria to match the motif. 80% or above is good.
The mean cutoff score indicates how well the sequences match the motif group. 100 is the best, 0 is right on the cutoff line, negative is outside of the cutoff region.
The median of the minimum edit distance between each input sequence and sequences of each motif from 3D structures.
The median of the minimum edit distance between each input sequence and sequences of each motif from 3D structures, aside from the flanking basepairs.
Rfam clan that the Rfam family belongs to, if any. Links to the clan's page on Rfam.
Number of PDB chains matching the Rfam clan (or Rfam family, for families without a clan) and part of the specified Motif Atlas release.
Number of PDB chains matching the Rfam clan (or Rfam family, for families without a clan) today.