Motif Atlas Releases 1.6 and 1.7
Changes in PDB files used for clustering
Release 1.6 has 204 PDB files, release 1.7 has 204 PDB files, 204 of them are identical.
No equivalence class representatives have been replaced.
No new PDB files have been added.
No equivalence class representatives have been obsoleted.
Help Every Motif Atlas release is based on a representative set of PDB files. When comparing two releases, it's important to know how the input data changed.
Representative sets are quite stable in time, but PDB files from the older releases can be replaced by newer PDB files or removed from the set altogether if the structure is obsoleted by PDB without replacement.
PDB files from the newer release either replace representatives in the existing equivalence classes or come from new equivalence classes.
Redistribution of motif instances
Loading the Sankey diagram...
Changes in motif groups
Release 1.6 has 272 motif groups, release 1.7 has 272 motif groups, 272 of them are identical.
0 motif groups were updated, 0 groups are present only in release 1.6, 0 groups are only in release 1.7.
Help The Sankey diagram shows redistribution of motif instances (loops) between two releases. The rectangles represent the motif groups and are colored as follows:
Added motif groups: green
Removed motif groups: grey
Updated motif groups: orange
Added motif instances: green
Removed motif instances: grey
Hover over the links connecting the motif groups to see which motif instances were exchanged.
Identical motif groups
| # | Motif id | Instances | Description |
|---|---|---|---|
| 1 | IL_97217.7 | 243 | 1-3 bulged nucleotides, same chain | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 2 | IL_47174.8 | 205 | cWW AG or water inserted cWW Y-Y. |
| 3 | IL_39199.4 | 53 | Hoogsteen-edge Platform, Single bulged base |
| 4 | IL_41766.4 | 49 | Tandem cWW pairs (Not AU or GC) |
| 5 | IL_56465.3 | 46 | Single, unpaired intercalated base, consensus A |
| 6 | IL_44540.4 | 43 | Sugar-edge, 1-base platform, consensus tHS |
| 7 | IL_87904.5 | 31 | Triple sheared (tSH-tHS-tHS) no inserted bases |
| 8 | IL_82444.1 | 29 | cWH basepair with syn base | cWW AG or water inserted cWW Y-Y. | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif |
| 9 | IL_13959.4 | 26 | Double Sheared (tSH-tHS) |
| 10 | IL_65553.7 | 22 | Kink-turn |
| 11 | IL_93424.4 | 21 | tSH-inserted-tHW |
| 12 | IL_73276.4 | 21 | C-loop |
| 13 | IL_28947.1 | 21 | 23S H91 IL | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 14 | IL_55938.4 | 18 | LSU Helix 89 (H89) IL2. cSH Platform. |
| 15 | IL_92027.3 | 17 | 16S h21 S8 binding site |
| 16 | IL_24982.5 | 16 | SSU helix 20 (h20) IL. Prokaryal 5S Loop E Sub-motif |
| 17 | IL_94430.5 | 16 | 16S h32-h33-h34 3WJ |
| 18 | IL_85647.3 | 16 | Sarcin-ricin parent motif with 15 Nts |
| 19 | IL_92109.2 | 15 | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 20 | IL_49493.4 | 13 | Sarcin-ricin Parent Motif - bacterial LSU H95 IL |
| 21 | IL_31555.4 | 13 | Tandem sheared with inserted, unpaired purine. |
| 22 | IL_46648.4 | 11 | 23S H91 IL | Single-Base Intercalation Site |
| 23 | IL_37104.2 | 11 | Single sheared with bulged bases | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) |
| 24 | IL_43124.2 | 11 | 23S H73 ILa : Part of larger Motif | Single sheared with bulged bases |
| 25 | IL_24546.4 | 10 | 23S H41 IL and 16S h18 IL : Has large bulge on one side |
| 26 | IL_58291.4 | 10 | Recurrent Sub-motif found in junctions |
| 27 | IL_17212.1 | 10 | cWW AG or UU | cWH basepair with syn base | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif |
| 28 | IL_02809.3 | 9 | REV element IL with syn G | Tandem cWW pairs (Not AU or GC) |
| 29 | IL_92114.3 | 9 | GAAA loop receptor "platform" motif |
| 30 | IL_47444.3 | 9 | SRP Loop E-like motif |
| 31 | IL_90459.3 | 9 | cWW AG or UU |
| 32 | IL_92321.4 | 7 | Triple sheared (tSH-tHS-tHS) with cWW Wobble base flanking motif |
| 33 | IL_73000.2 | 7 | cHS-cWS |
| 34 | IL_83451.3 | 7 | cHS-cWS triple and Wobble. SSU Helix 44 (h44) IL1. |
| 35 | IL_77263.2 | 6 | Kink-turn from U4 |
| 36 | IL_39585.1 | 6 | Double-sheared with two unpaired, stacked As. LSU Helix 68 IL4. |
| 37 | IL_97057.3 | 6 | |
| 38 | IL_25380.1 | 6 | LSU Helix 89 (H89) IL2 |
| 39 | IL_53635.3 | 6 | LSU Helix 32 (H32) IL |
| 40 | IL_70237.3 | 6 | |
| 41 | IL_13069.3 | 6 | LSU 3WJ H32-H33-H35A |
| 42 | IL_90133.3 | 6 | |
| 43 | IL_72158.3 | 6 | LSU Helix 62 (H62) IL |
| 44 | IL_08926.3 | 6 | 23S H91 IL |
| 45 | IL_25230.3 | 6 | Bacterial 5S rRNA Loop E |
| 46 | IL_79083.3 | 5 | |
| 47 | IL_44067.4 | 5 | Quadruple sheared (tSH-tHS-tHS-tHS). LSU Helix 2 (H2). |
| 48 | IL_02359.3 | 5 | |
| 49 | IL_86357.3 | 5 | LSU Helix 61 IL2 |
| 50 | IL_05684.1 | 5 | tHS tHH bulge with S-turn | Double S-turn motif |
| 51 | IL_25300.1 | 5 | 16S h19 IL and 23S H41 IL |
| 52 | IL_71288.1 | 5 | Leadzyme Motif. LSU H101 IL2. SSU Decoding site. |
| 53 | IL_28572.2 | 4 | 16S h18 kink-turn like motif |
| 54 | IL_95652.3 | 4 | SSU Helix 27 (h27) IL Sarcin-Ricin motif |
| 55 | IL_21333.2 | 4 | tSH-tHW-bulge |
| 56 | IL_42251.1 | 4 | |
| 57 | IL_38807.3 | 4 | |
| 58 | IL_31663.1 | 4 | 23S H73 ILa : Part of larger Motif |
| 59 | IL_47758.2 | 4 | REV element IL with syn G | Tandem cWW pairs (Not AU or GC) |
| 60 | IL_31066.3 | 4 | SSU Helix 44 (h44) extension |
| 61 | IL_34363.2 | 4 | Kink-turn from 23S H42 |
| 62 | IL_45262.4 | 4 | |
| 63 | IL_09530.1 | 4 | Double S-turn motif |
| 64 | IL_15709.1 | 4 | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) | 16S h34 ILa : Part of larger motif | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) |
| 65 | IL_01080.1 | 4 | |
| 66 | IL_39526.4 | 4 | |
| 67 | IL_93568.2 | 4 | Triple Sheared (tSH-tHS-tHS) with wobble cWW. |
| 68 | IL_22732.1 | 4 | tSH-inserted-tHS |
| 69 | IL_39980.1 | 4 | |
| 70 | IL_94403.3 | 4 | LSU H77 |
| 71 | IL_98591.3 | 4 | |
| 72 | IL_82188.2 | 4 | LSU H68 IL from H.m. |
| 73 | IL_62499.7 | 3 | |
| 74 | IL_80494.2 | 3 | LSU H58 IL2 H.m. |
| 75 | IL_75447.1 | 3 | |
| 76 | IL_89028.6 | 3 | Part of Helix 71 (H71) junction in 23S rRNA E.c. H.m. and Tetrahymena | Part of H71 junction in 23S rRNA from T.th. |
| 77 | IL_06180.1 | 3 | tHS tHH bulge with S-turn |
| 78 | IL_35043.1 | 3 | cWW AG or UU | cWH basepair with syn base | cWH basepair with syn base |
| 79 | IL_37053.1 | 3 | Kink-turn from 23S H58 |
| 80 | IL_82563.1 | 3 | Thi-box riboswitch T-loop |
| 81 | IL_87065.1 | 3 | 23S H91 IL | Single-Base Intercalation Site |
| 82 | IL_34628.2 | 3 | Kink-turn |
| 83 | IL_30840.2 | 3 | |
| 84 | IL_80348.1 | 3 | 23S H91 IL |
| 85 | IL_33484.1 | 3 | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 86 | IL_16166.4 | 3 | 23S H91 IL |
| 87 | IL_25271.2 | 3 | SSU Helix 8 (h8) IL E.c. and Yeast |
| 88 | IL_74876.2 | 3 | Double-sheared with two unpaired, stacked As. LSU Helix 68 IL4. |
| 89 | IL_98421.4 | 3 | SSU Helix 12 (h12) IL |
| 90 | IL_52173.1 | 3 | |
| 91 | IL_06211.1 | 3 | |
| 92 | IL_07300.2 | 3 | |
| 93 | IL_58586.2 | 3 | |
| 94 | IL_79955.2 | 3 | SSU Helix (23) h23 IL1 |
| 95 | IL_95150.4 | 3 | |
| 96 | IL_05723.1 | 3 | |
| 97 | IL_43946.1 | 3 | |
| 98 | IL_09520.2 | 3 | Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW |
| 99 | IL_48918.2 | 3 | Kink-turn variant |
| 100 | IL_16415.2 | 3 | SSU Helix 23 (h23) Kink-turn T. thermophilus |
| 101 | IL_78744.1 | 2 | Quadruple Sheared (tSH-tSH-tHS-tHS) |
| 102 | IL_11751.1 | 2 | |
| 103 | IL_65137.1 | 2 | Kink-turn like motif in Group I Intron |
| 104 | IL_19898.1 | 2 | |
| 105 | IL_90057.1 | 2 | |
| 106 | IL_30381.1 | 2 | tHS tHH bulge with S-turn |
| 107 | IL_23414.1 | 2 | |
| 108 | IL_90735.1 | 2 | |
| 109 | IL_40892.1 | 2 | |
| 110 | IL_33964.1 | 2 | |
| 111 | IL_96206.1 | 2 | |
| 112 | IL_00998.1 | 2 | |
| 113 | IL_31707.1 | 2 | Vitamin B12 aptamer |
| 114 | IL_97833.1 | 2 | |
| 115 | IL_46435.1 | 2 | |
| 116 | IL_09587.1 | 2 | |
| 117 | IL_67887.1 | 2 | |
| 118 | IL_39355.1 | 2 | SSU Helix 12 (h12) IL | LSU Eukaryal Helix 96 (H96) IL1 |
| 119 | IL_76095.3 | 2 | Motif from Hairpin Ribozyme |
| 120 | IL_98566.1 | 2 | |
| 121 | IL_46034.1 | 2 | |
| 122 | IL_85015.1 | 2 | 23S H73 ILa : Part of larger Motif | Single sheared with bulged bases | Single sheared with bulged bases | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) |
| 123 | IL_12211.1 | 2 | |
| 124 | IL_21495.1 | 2 | |
| 125 | IL_37406.1 | 2 | |
| 126 | IL_21639.1 | 2 | |
| 127 | IL_50521.1 | 2 | |
| 128 | IL_01054.1 | 2 | |
| 129 | IL_15840.2 | 2 | Triple Sheared with unpaired, inserted A |
| 130 | IL_94744.1 | 2 | Sarcin-ricin motif with extra cWW GA pair |
| 131 | IL_97509.1 | 2 | Double sheared with wobble cWW. |
| 132 | IL_37197.1 | 2 | |
| 133 | IL_96446.1 | 2 | |
| 134 | IL_87548.1 | 2 | |
| 135 | IL_09882.1 | 2 | |
| 136 | IL_09348.5 | 2 | Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW |
| 137 | IL_23262.4 | 2 | |
| 138 | IL_69536.1 | 2 | LSU Helix 96 (H96) IL2 |
| 139 | IL_80433.1 | 2 | |
| 140 | IL_45794.1 | 2 | |
| 141 | IL_52940.1 | 2 | |
| 142 | IL_77076.1 | 2 | |
| 143 | IL_80093.1 | 2 | |
| 144 | IL_57785.5 | 2 | SSU Decoding Site -- Human. Bulge-cSW-tHS |
| 145 | IL_68880.1 | 2 | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) |
| 146 | IL_16330.1 | 2 | |
| 147 | IL_87507.1 | 2 | tHS tHH bulge with S-turn |
| 148 | IL_09333.1 | 1 | SSU Helix 8 (h8) IL T. thermophilus |
| 149 | IL_57977.1 | 1 | |
| 150 | IL_39324.1 | 1 | |
| 151 | IL_02897.1 | 1 | Part of Helix 71 (H71) junction in 23S rRNA E.c. H.m. and Tetrahymena | Part of H71 junction in 23S rRNA from T.th. |
| 152 | IL_68827.1 | 1 | Reverse Kink-Turn |
| 153 | IL_66744.1 | 1 | SSU Helix 21 (h21) IL2 E.coli |
| 154 | IL_53988.1 | 1 | |
| 155 | IL_61730.1 | 1 | |
| 156 | IL_37347.1 | 1 | |
| 157 | IL_46306.1 | 1 | |
| 158 | IL_82601.1 | 1 | Tandem cWW water-inserted CU pairs |
| 159 | IL_91089.1 | 1 | |
| 160 | IL_60649.1 | 1 | Kink-turn |
| 161 | IL_52610.1 | 1 | |
| 162 | IL_21254.1 | 1 | SSU Helix 11 (h11) IL Kink-turn T. thermophilus |
| 163 | IL_97191.1 | 1 | Sarcin-ricin motif with cWW UU instead of tSH basepair. |
| 164 | IL_83920.1 | 1 | |
| 165 | IL_59934.1 | 1 | SSU Helix 23 (h23) Kink-turn E. coli |
| 166 | IL_11778.1 | 1 | |
| 167 | IL_75415.1 | 1 | Pseudo-knot forming internal loop |
| 168 | IL_31224.1 | 1 | 23S H91 IL |
| 169 | IL_05221.1 | 1 | |
| 170 | IL_06471.1 | 1 | |
| 171 | IL_68767.1 | 1 | |
| 172 | IL_17603.1 | 1 | |
| 173 | IL_17682.1 | 1 | Sarcin-ricin motif from Eukaryal LSU Helix 11 |
| 174 | IL_87523.1 | 1 | |
| 175 | IL_77296.1 | 1 | |
| 176 | IL_87394.1 | 1 | |
| 177 | IL_40845.1 | 1 | |
| 178 | IL_86059.1 | 1 | |
| 179 | IL_10365.1 | 1 | |
| 180 | IL_06421.1 | 1 | Single sheared with bulged bases |
| 181 | IL_20775.1 | 1 | tSH-inserted |
| 182 | IL_25082.1 | 1 | |
| 183 | IL_53323.1 | 1 | |
| 184 | IL_26971.1 | 1 | |
| 185 | IL_56513.1 | 1 | |
| 186 | IL_15205.1 | 1 | |
| 187 | IL_21077.1 | 1 | |
| 188 | IL_03282.1 | 1 | |
| 189 | IL_42891.1 | 1 | |
| 190 | IL_88865.1 | 1 | |
| 191 | IL_43316.1 | 1 | |
| 192 | IL_12507.1 | 1 | |
| 193 | IL_06468.1 | 1 | 16S h40 3WJ E.c. |
| 194 | IL_52958.1 | 1 | |
| 195 | IL_06808.1 | 1 | Double sheared (tSH-tSH) one bulged base. |
| 196 | IL_77014.1 | 1 | |
| 197 | IL_03741.1 | 1 | |
| 198 | IL_88119.1 | 1 | |
| 199 | IL_98924.1 | 1 | |
| 200 | IL_59529.1 | 1 | |
| 201 | IL_91904.1 | 1 | |
| 202 | IL_21421.1 | 1 | |
| 203 | IL_85510.1 | 1 | |
| 204 | IL_49527.1 | 1 | |
| 205 | IL_94973.1 | 1 | Sarcin-Ricin from Group II Intron with inserted base and poor modeling: |
| 206 | IL_47732.1 | 1 | |
| 207 | IL_50911.1 | 1 | 16S h34 ILa : Part of larger motif |
| 208 | IL_92280.1 | 1 | |
| 209 | IL_80505.1 | 1 | |
| 210 | IL_69799.1 | 1 | |
| 211 | IL_47687.1 | 1 | |
| 212 | IL_80652.1 | 1 | |
| 213 | IL_54450.1 | 1 | |
| 214 | IL_71942.1 | 1 | |
| 215 | IL_91078.1 | 1 | |
| 216 | IL_71685.1 | 1 | Sarcin-like with an intercalated basepair |
| 217 | IL_25181.1 | 1 | |
| 218 | IL_09491.1 | 1 | |
| 219 | IL_58454.1 | 1 | |
| 220 | IL_88367.1 | 1 | |
| 221 | IL_49976.1 | 1 | |
| 222 | IL_57285.1 | 1 | |
| 223 | IL_97095.1 | 1 | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 224 | IL_85805.1 | 1 | |
| 225 | IL_06177.1 | 1 | cWW AG or UU |
| 226 | IL_82650.1 | 1 | |
| 227 | IL_31006.1 | 1 | tSH-tHW-L-bif-cWW |
| 228 | IL_55649.1 | 1 | |
| 229 | IL_31754.1 | 1 | Sarcin-ricin H95 23S rRNA E.c. |
| 230 | IL_75328.1 | 1 | |
| 231 | IL_06306.1 | 1 | |
| 232 | IL_54954.1 | 1 | Sarcin-Ricin with extra tSH UA basepair. Yeast LSU H11. |
| 233 | IL_23639.1 | 1 | tWH-tHS-L-cWW |
| 234 | IL_02957.1 | 1 | |
| 235 | IL_18675.1 | 1 | cWW-bulge-cWW |
| 236 | IL_40527.1 | 1 | Kink-turn |
| 237 | IL_23448.1 | 1 | |
| 238 | IL_30354.1 | 1 | |
| 239 | IL_83250.1 | 1 | 16S h40 3WJ T.th. |
| 240 | IL_03110.1 | 1 | |
| 241 | IL_02835.1 | 1 | |
| 242 | IL_25307.1 | 1 | |
| 243 | IL_26868.1 | 1 | |
| 244 | IL_27243.1 | 1 | |
| 245 | IL_25314.1 | 1 | |
| 246 | IL_20530.1 | 1 | |
| 247 | IL_83856.1 | 1 | |
| 248 | IL_76486.1 | 1 | Sarcin-ricin motif with syn G |
| 249 | IL_57364.1 | 1 | LSU Helix 89 (H89) IL2 |
| 250 | IL_41139.1 | 1 | |
| 251 | IL_91044.1 | 1 | |
| 252 | IL_27668.1 | 1 | |
| 253 | IL_46721.1 | 1 | |
| 254 | IL_63952.1 | 1 | |
| 255 | IL_86981.1 | 1 | Sarcin-ricin motif with CC BIfurcated pair. H.m. LSU H18. |
| 256 | IL_41791.1 | 1 | |
| 257 | IL_76263.1 | 1 | |
| 258 | IL_91379.1 | 1 | |
| 259 | IL_11302.1 | 1 | |
| 260 | IL_89794.1 | 1 | |
| 261 | IL_28644.1 | 1 | |
| 262 | IL_52509.1 | 1 | |
| 263 | IL_95980.1 | 1 | 23S H73 ILa : Part of larger Motif | Single sheared with bulged bases |
| 264 | IL_13682.1 | 1 | |
| 265 | IL_81398.1 | 1 | |
| 266 | IL_97842.1 | 1 | |
| 267 | IL_98655.1 | 1 | Part of H71 Junction in 26S rRNA from Yeast |
| 268 | IL_64589.1 | 1 | |
| 269 | IL_54470.1 | 1 | tHS tHH bulge with S-turn |
| 270 | IL_06847.1 | 1 | Group II Intron IL |
| 271 | IL_30067.1 | 1 | |
| 272 | IL_41153.1 | 1 |
Updated motif groups
| # | Motif id | Instances | Description |
|---|
Removed motif groups
| # | Motif id | Instances | Description |
|---|
Added motif groups
| # | Motif id | Instances | Description |
|---|