Motif Atlas Releases 1.6 and 1.7
Changes in PDB files used for clustering
Release 1.6 has 203 PDB files, release 1.7 has 203 PDB files, 203 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_73276.4 | 21 | C-loop |
| 12 | IL_93424.4 | 21 | tSH-inserted-tHW |
| 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_94430.5 | 16 | 16S h32-h33-h34 3WJ |
| 17 | IL_24982.5 | 16 | SSU helix 20 (h20) IL. Prokaryal 5S Loop E Sub-motif |
| 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_37104.2 | 11 | Single sheared with bulged bases | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) |
| 23 | IL_43124.2 | 11 | 23S H73 ILa : Part of larger Motif | Single sheared with bulged bases |
| 24 | IL_46648.4 | 11 | 23S H91 IL | Single-Base Intercalation Site |
| 25 | 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 |
| 26 | IL_24546.4 | 10 | 23S H41 IL and 16S h18 IL : Has large bulge on one side |
| 27 | IL_58291.4 | 10 | Recurrent Sub-motif found in junctions |
| 28 | IL_47444.3 | 9 | SRP Loop E-like motif |
| 29 | IL_90459.3 | 9 | cWW AG or UU |
| 30 | IL_92114.3 | 9 | GAAA loop receptor "platform" motif |
| 31 | IL_02809.3 | 9 | REV element IL with syn G | Tandem cWW pairs (Not AU or GC) |
| 32 | IL_73000.2 | 7 | cHS-cWS |
| 33 | IL_92321.4 | 7 | Triple sheared (tSH-tHS-tHS) with cWW Wobble base flanking motif |
| 34 | IL_83451.3 | 7 | cHS-cWS triple and Wobble. SSU Helix 44 (h44) IL1. |
| 35 | IL_53635.3 | 6 | LSU Helix 32 (H32) IL |
| 36 | IL_08926.3 | 6 | 23S H91 IL |
| 37 | IL_39585.1 | 6 | Double-sheared with two unpaired, stacked As. LSU Helix 68 IL4. |
| 38 | IL_90133.3 | 6 | |
| 39 | IL_25380.1 | 6 | LSU Helix 89 (H89) IL2 |
| 40 | IL_72158.3 | 6 | LSU Helix 62 (H62) IL |
| 41 | IL_77263.2 | 6 | Kink-turn from U4 |
| 42 | IL_25230.3 | 6 | Bacterial 5S rRNA Loop E |
| 43 | IL_70237.3 | 6 | |
| 44 | IL_13069.3 | 6 | LSU 3WJ H32-H33-H35A |
| 45 | IL_97057.3 | 6 | |
| 46 | IL_02359.3 | 5 | |
| 47 | IL_05684.1 | 5 | tHS tHH bulge with S-turn | Double S-turn motif |
| 48 | IL_86357.3 | 5 | LSU Helix 61 IL2 |
| 49 | IL_44067.4 | 5 | Quadruple sheared (tSH-tHS-tHS-tHS). LSU Helix 2 (H2). |
| 50 | IL_79083.3 | 5 | |
| 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_39526.4 | 4 | |
| 54 | IL_45262.4 | 4 | |
| 55 | IL_98591.3 | 4 | |
| 56 | IL_21333.2 | 4 | tSH-tHW-bulge |
| 57 | IL_39980.1 | 4 | |
| 58 | IL_42251.1 | 4 | |
| 59 | IL_01080.1 | 4 | |
| 60 | 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) |
| 61 | IL_47758.2 | 4 | REV element IL with syn G | Tandem cWW pairs (Not AU or GC) |
| 62 | IL_31066.3 | 4 | SSU Helix 44 (h44) extension |
| 63 | IL_34363.2 | 4 | Kink-turn from 23S H42 |
| 64 | IL_38807.3 | 4 | |
| 65 | IL_95652.3 | 4 | SSU Helix 27 (h27) IL Sarcin-Ricin motif |
| 66 | IL_22732.1 | 4 | tSH-inserted-tHS |
| 67 | IL_28572.2 | 4 | 16S h18 kink-turn like motif |
| 68 | IL_09530.1 | 4 | Double S-turn motif |
| 69 | IL_93568.2 | 4 | Triple Sheared (tSH-tHS-tHS) with wobble cWW. |
| 70 | IL_31663.1 | 4 | 23S H73 ILa : Part of larger Motif |
| 71 | IL_82188.2 | 4 | LSU H68 IL from H.m. |
| 72 | IL_94403.3 | 4 | LSU H77 |
| 73 | IL_06180.1 | 3 | tHS tHH bulge with S-turn |
| 74 | IL_07300.2 | 3 | |
| 75 | IL_06211.1 | 3 | |
| 76 | IL_80348.1 | 3 | 23S H91 IL |
| 77 | IL_82563.1 | 3 | Thi-box riboswitch T-loop |
| 78 | IL_33484.1 | 3 | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 79 | IL_52173.1 | 3 | |
| 80 | IL_30840.2 | 3 | |
| 81 | IL_62499.7 | 3 | |
| 82 | IL_80494.2 | 3 | LSU H58 IL2 H.m. |
| 83 | IL_95150.4 | 3 | |
| 84 | IL_48918.2 | 3 | Kink-turn variant |
| 85 | IL_09520.2 | 3 | Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW |
| 86 | IL_16166.4 | 3 | 23S H91 IL |
| 87 | IL_34628.2 | 3 | Kink-turn |
| 88 | IL_43946.1 | 3 | |
| 89 | IL_74876.2 | 3 | Double-sheared with two unpaired, stacked As. LSU Helix 68 IL4. |
| 90 | IL_05723.1 | 3 | |
| 91 | IL_25271.2 | 3 | SSU Helix 8 (h8) IL E.c. and Yeast |
| 92 | IL_35043.1 | 3 | cWW AG or UU | cWH basepair with syn base | cWH basepair with syn base |
| 93 | IL_58586.2 | 3 | |
| 94 | 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. |
| 95 | IL_98421.4 | 3 | SSU Helix 12 (h12) IL |
| 96 | IL_16415.2 | 3 | SSU Helix 23 (h23) Kink-turn T. thermophilus |
| 97 | IL_37053.1 | 3 | Kink-turn from 23S H58 |
| 98 | IL_75447.1 | 3 | |
| 99 | IL_79955.2 | 3 | SSU Helix (23) h23 IL1 |
| 100 | IL_87065.1 | 3 | 23S H91 IL | Single-Base Intercalation Site |
| 101 | IL_09882.1 | 2 | |
| 102 | IL_31707.1 | 2 | Vitamin B12 aptamer |
| 103 | IL_50521.1 | 2 | |
| 104 | IL_76095.3 | 2 | Motif from Hairpin Ribozyme |
| 105 | IL_80093.1 | 2 | |
| 106 | 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) |
| 107 | IL_87507.1 | 2 | tHS tHH bulge with S-turn |
| 108 | IL_90057.1 | 2 | |
| 109 | IL_00998.1 | 2 | |
| 110 | IL_37197.1 | 2 | |
| 111 | IL_45794.1 | 2 | |
| 112 | IL_67887.1 | 2 | |
| 113 | IL_94744.1 | 2 | Sarcin-ricin motif with extra cWW GA pair |
| 114 | IL_01054.1 | 2 | |
| 115 | IL_30381.1 | 2 | tHS tHH bulge with S-turn |
| 116 | IL_46034.1 | 2 | |
| 117 | IL_57785.5 | 2 | SSU Decoding Site -- Human. Bulge-cSW-tHS |
| 118 | IL_77076.1 | 2 | |
| 119 | IL_80433.1 | 2 | |
| 120 | IL_87548.1 | 2 | |
| 121 | IL_09348.5 | 2 | Leadzyme Motif. SSU Decoding site motif, extended. | cWW-L-cWW-cWW |
| 122 | IL_11751.1 | 2 | |
| 123 | IL_21495.1 | 2 | |
| 124 | IL_33964.1 | 2 | |
| 125 | IL_37406.1 | 2 | |
| 126 | IL_68880.1 | 2 | cWW AG or UU | Single sheared (tHS) with bulged bases. LSU Helix 75 (H75) |
| 127 | IL_90735.1 | 2 | |
| 128 | IL_97509.1 | 2 | Double sheared with wobble cWW. |
| 129 | IL_15840.2 | 2 | Triple Sheared with unpaired, inserted A |
| 130 | IL_19898.1 | 2 | |
| 131 | IL_21639.1 | 2 | |
| 132 | IL_46435.1 | 2 | |
| 133 | IL_69536.1 | 2 | LSU Helix 96 (H96) IL2 |
| 134 | IL_97833.1 | 2 | |
| 135 | IL_12211.1 | 2 | |
| 136 | IL_40892.1 | 2 | |
| 137 | IL_52940.1 | 2 | |
| 138 | IL_78744.1 | 2 | Quadruple Sheared (tSH-tSH-tHS-tHS) |
| 139 | IL_16330.1 | 2 | |
| 140 | IL_23262.4 | 2 | |
| 141 | IL_65137.1 | 2 | Kink-turn like motif in Group I Intron |
| 142 | IL_96206.1 | 2 | |
| 143 | IL_09587.1 | 2 | |
| 144 | IL_23414.1 | 2 | |
| 145 | IL_39355.1 | 2 | SSU Helix 12 (h12) IL | LSU Eukaryal Helix 96 (H96) IL1 |
| 146 | IL_98566.1 | 2 | |
| 147 | IL_02957.1 | 1 | |
| 148 | IL_13682.1 | 1 | |
| 149 | IL_21254.1 | 1 | SSU Helix 11 (h11) IL Kink-turn T. thermophilus |
| 150 | IL_23639.1 | 1 | tWH-tHS-L-cWW |
| 151 | IL_25307.1 | 1 | |
| 152 | IL_30067.1 | 1 | |
| 153 | IL_56513.1 | 1 | |
| 154 | IL_59934.1 | 1 | SSU Helix 23 (h23) Kink-turn E. coli |
| 155 | IL_66744.1 | 1 | SSU Helix 21 (h21) IL2 E.coli |
| 156 | IL_71685.1 | 1 | Sarcin-like with an intercalated basepair |
| 157 | IL_97095.1 | 1 | cWW-bulge-cWW | 16S h19 IL and 23S H41 IL | cWW-bulge-cWW |
| 158 | IL_03110.1 | 1 | |
| 159 | IL_10365.1 | 1 | |
| 160 | IL_17603.1 | 1 | |
| 161 | IL_25314.1 | 1 | |
| 162 | IL_30354.1 | 1 | |
| 163 | IL_31754.1 | 1 | Sarcin-ricin H95 23S rRNA E.c. |
| 164 | IL_41791.1 | 1 | |
| 165 | IL_47687.1 | 1 | |
| 166 | IL_50911.1 | 1 | 16S h34 ILa : Part of larger motif |
| 167 | IL_53988.1 | 1 | |
| 168 | IL_57364.1 | 1 | LSU Helix 89 (H89) IL2 |
| 169 | IL_60649.1 | 1 | Kink-turn |
| 170 | IL_71942.1 | 1 | |
| 171 | IL_76486.1 | 1 | Sarcin-ricin motif with syn G |
| 172 | IL_85510.1 | 1 | |
| 173 | IL_87523.1 | 1 | |
| 174 | IL_97191.1 | 1 | Sarcin-ricin motif with cWW UU instead of tSH basepair. |
| 175 | IL_98655.1 | 1 | Part of H71 Junction in 26S rRNA from Yeast |
| 176 | IL_03282.1 | 1 | |
| 177 | IL_06306.1 | 1 | |
| 178 | IL_09333.1 | 1 | SSU Helix 8 (h8) IL T. thermophilus |
| 179 | IL_11302.1 | 1 | |
| 180 | IL_15205.1 | 1 | |
| 181 | IL_17682.1 | 1 | Sarcin-ricin motif from Eukaryal LSU Helix 11 |
| 182 | IL_21421.1 | 1 | |
| 183 | IL_37347.1 | 1 | |
| 184 | IL_47732.1 | 1 | |
| 185 | IL_54450.1 | 1 | |
| 186 | IL_61730.1 | 1 | |
| 187 | IL_68767.1 | 1 | |
| 188 | IL_82601.1 | 1 | Tandem cWW water-inserted CU pairs |
| 189 | IL_94973.1 | 1 | Sarcin-Ricin from Group II Intron with inserted base and poor modeling: |
| 190 | IL_98924.1 | 1 | |
| 191 | IL_03741.1 | 1 | |
| 192 | IL_06421.1 | 1 | Single sheared with bulged bases |
| 193 | IL_18675.1 | 1 | cWW-bulge-cWW |
| 194 | IL_25082.1 | 1 | |
| 195 | IL_26868.1 | 1 | |
| 196 | IL_40527.1 | 1 | Kink-turn |
| 197 | IL_46306.1 | 1 | |
| 198 | IL_52509.1 | 1 | |
| 199 | IL_54470.1 | 1 | tHS tHH bulge with S-turn |
| 200 | IL_57977.1 | 1 | |
| 201 | IL_82650.1 | 1 | |
| 202 | IL_85805.1 | 1 | |
| 203 | IL_92280.1 | 1 | |
| 204 | IL_05221.1 | 1 | |
| 205 | IL_06468.1 | 1 | 16S h40 3WJ E.c. |
| 206 | IL_09491.1 | 1 | |
| 207 | IL_11778.1 | 1 | |
| 208 | IL_25181.1 | 1 | |
| 209 | IL_26971.1 | 1 | |
| 210 | IL_40845.1 | 1 | |
| 211 | IL_43316.1 | 1 | |
| 212 | IL_52610.1 | 1 | |
| 213 | IL_54954.1 | 1 | Sarcin-Ricin with extra tSH UA basepair. Yeast LSU H11. |
| 214 | IL_63952.1 | 1 | |
| 215 | IL_77296.1 | 1 | |
| 216 | IL_80505.1 | 1 | |
| 217 | IL_83250.1 | 1 | 16S h40 3WJ T.th. |
| 218 | IL_86059.1 | 1 | |
| 219 | IL_88119.1 | 1 | |
| 220 | IL_91044.1 | 1 | |
| 221 | IL_06471.1 | 1 | |
| 222 | IL_20530.1 | 1 | |
| 223 | IL_31224.1 | 1 | 23S H91 IL |
| 224 | IL_55649.1 | 1 | |
| 225 | IL_58454.1 | 1 | |
| 226 | IL_64589.1 | 1 | |
| 227 | IL_69799.1 | 1 | |
| 228 | IL_80652.1 | 1 | |
| 229 | IL_88367.1 | 1 | |
| 230 | IL_91078.1 | 1 | |
| 231 | IL_95980.1 | 1 | 23S H73 ILa : Part of larger Motif | Single sheared with bulged bases |
| 232 | IL_97842.1 | 1 | |
| 233 | IL_02835.1 | 1 | |
| 234 | IL_06808.1 | 1 | Double sheared (tSH-tSH) one bulged base. |
| 235 | IL_12507.1 | 1 | |
| 236 | IL_20775.1 | 1 | tSH-inserted |
| 237 | IL_28644.1 | 1 | |
| 238 | IL_39324.1 | 1 | |
| 239 | IL_41139.1 | 1 | |
| 240 | IL_46721.1 | 1 | |
| 241 | IL_49527.1 | 1 | |
| 242 | IL_52958.1 | 1 | |
| 243 | IL_75415.1 | 1 | Pseudo-knot forming internal loop |
| 244 | IL_81398.1 | 1 | |
| 245 | IL_83856.1 | 1 | |
| 246 | IL_86981.1 | 1 | Sarcin-ricin motif with CC BIfurcated pair. H.m. LSU H18. |
| 247 | IL_91089.1 | 1 | |
| 248 | 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. |
| 249 | IL_06177.1 | 1 | cWW AG or UU |
| 250 | IL_06847.1 | 1 | Group II Intron IL |
| 251 | IL_21077.1 | 1 | |
| 252 | IL_41153.1 | 1 | |
| 253 | IL_49976.1 | 1 | |
| 254 | IL_53323.1 | 1 | |
| 255 | IL_59529.1 | 1 | |
| 256 | IL_83920.1 | 1 | |
| 257 | IL_89794.1 | 1 | |
| 258 | IL_91904.1 | 1 |
Updated motif groups
| # | Motif id | Instances | Description |
|---|
Removed motif groups
| # | Motif id | Instances | Description |
|---|
Added motif groups
| # | Motif id | Instances | Description |
|---|