6QT0 Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A/38:45 | geometric HL_5TBW_001 | NA HL_23481.5* | ||
| 1/A/69:74 | homologous HL_5TBW_114 | NA | ||
| 1/A/90:96 | homologous HL_5TBW_115 | NA | ||
| 1/A/132:136 | homologous HL_5TBW_116 | NA | ||
| 1/A/194:201 | homologous HL_5TBW_117 | NA | ||
| 1/A/208:212 | homologous HL_5TBW_118 | NA | ||
| 1/A/216:224 | homologous HL_5TBW_119 | NA | ||
| 1/A/278:287 | homologous HL_5TBW_120 | NA | ||
| 1/A/357:362 | homologous HL_5TBW_122 | NA | ||
| 1/A/382:387 | homologous HL_5TBW_123 | NA | ||
| 1/A/541:550 | NA | NA | ||
| 1/A/599:604 | homologous HL_5TBW_125 | NA | ||
| 1/A/640:649 | homologous HL_5TBW_126 | NA | ||
| 1/A/686:694 | homologous HL_5TBW_127 | NA | ||
| 1/A/732:737 | homologous HL_5TBW_129 | NA | ||
| 1/A/958:963 | homologous HL_5TBW_134 | NA | ||
| 1/A/1148:1155 | homologous HL_5TBW_138 | NA | ||
| 1/A/1347:1357 | NA | NA | ||
| 1/A/1403:1408 | homologous HL_5TBW_142 | NA | ||
| 1/A/3025:3030 | homologous HL_5TBW_178 | NA | ||
| 1/A/3068:3073 | homologous HL_5TBW_179 | NA | ||
| 1/A/3110:3124 | homologous HL_5TBW_180 | NA | ||
| 1/A/3194:3197 | homologous HL_5TBW_181 | NA | ||
| 1/A/3303:3311 | homologous HL_5TBW_183 | NA | ||
| 1/x/36:41 | NA | NA | ||
| 1/x/88:93 | NA | NA | ||
| 1/y/47:56 | geometric HL_7A0S_001 | NA HL_29414.1* | ||
| 1/y/69:89 | NA | NA | ||
| 1/y/108:114 | homologous HL_5TBW_075 | NA HL_06569.2* | ||
| 1/y/124:129 | homologous HL_5TBW_076 | NA HL_60357.1* |
Problematic loops
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A/7:8, 1/y/150:152 | Single bulged C homologous IL_5TBW_002 | NA IL_61258.10* | ||
| 1/A/13:15, 1/y/144:145 | Single bulged U homologous IL_5TBW_003 | NA IL_83039.11* | ||
| 1/A/27:28, 1/A/56:58 | homologous IL_5TBW_240 | NA | ||
| 1/A/31:38, 1/A/45:53 | homologous IL_5TBW_241 | NA | ||
| 1/A/82:89, 1/A/97:103 | homologous IL_5TBW_242 | NA | ||
| 1/A/123:124, 1/A/144:149 | homologous IL_5TBW_243 | NA | ||
| 1/A/125:127, 1/A/141:143 | homologous IL_5TBW_244 | NA | ||
| 1/A/177:178, 1/A/238:241 | NA | NA | ||
| 1/A/189:191, 1/A/204:205 | homologous IL_5TBW_248 | NA | ||
| 1/A/337:339, 1/y/25:26 | Single bulged A homologous IL_5TBW_013 | NA IL_80007.16* | ||
| 1/A/376:379, 1/A/390:403 | homologous IL_5TBW_250 | NA | ||
| 1/A/404:410, 1/y/13:19 | Triple sheared with non-canonical cWW geometric IL_5TBW_015 | NA IL_66414.5* | ||
| 1/A/429:431, 1/A/628:630 | homologous IL_5TBW_252 | NA | ||
| 1/A/512:513, 1/A/577:579 | homologous IL_5TBW_254 | NA | ||
| 1/A/517:525, 1/A/567:573 | homologous IL_5TBW_255 | NA | ||
| 1/A/531:539, 1/A/552:561 | NA | NA | ||
| 1/A/668:670, 1/A/792:794 | homologous IL_5TBW_257 | NA | ||
| 1/A/680:684, 1/A/696:700 | homologous IL_5TBW_258 | NA | ||
| 1/A/725:728, 1/A/741:745 | homologous IL_5TBW_259 | NA | ||
| 1/A/752:753, 1/A/779:781 | homologous IL_5TBW_260 | NA | ||
| 1/A/755:757, 1/A/774:777 | geometric IL_5E81_376 | NA IL_01312.13* | ||
| 1/A/803:805, 1/A/938:940 | geometric IL_5TBW_027 | NA IL_01312.13* | ||
| 1/A/805:809, 1/A/931:938 | homologous IL_5TBW_264 | NA | ||
| 1/A/954:956, 1/A/965:967 | homologous IL_5TBW_270 | NA | ||
| 1/A/969:970, 1/A/1111:1113 | homologous IL_5TBW_271 | NA | ||
| 1/A/977:982, 1/A/1101:1104 | NA | NA | ||
| 1/A/983:985, 1/A/1099:1100 | homologous IL_5TBW_273 | NA | ||
| 1/A/1120:1122, 1/A/1136:1138 | homologous IL_5TBW_282 | NA | ||
| 1/A/1167:1171, 1/A/1328:1332 | homologous IL_5TBW_284 | NA | ||
| 1/A/1173:1180, 1/A/1325:1326 | homologous IL_5TBW_285 | NA | ||
| 1/A/1180:1182, 1/A/1324:1325 | Single bulged U geometric IL_5TBW_050 | NA IL_83039.11* | ||
| 1/A/1207:1209, 1/A/1296:1297 | homologous IL_5TBW_289 | NA | ||
| 1/A/1376:1378, 1/A/1428:1431 | homologous IL_5TBW_293 | NA | ||
| 1/A/1388:1395, 1/A/1415:1419 | homologous IL_5TBW_295 | NA | ||
| 1/A/1444:1450, 1/A/2354:2359 | homologous IL_5TBW_297 | NA | ||
| 1/A/3004:3007, 1/A/3139:3144 | homologous IL_5TBW_349 | NA | ||
| 1/A/3012:3014, 1/A/3040:3042 | homologous IL_5TBW_350 | NA | ||
| 1/A/3018:3025, 1/A/3030:3036 | 8x7 Sarcin-Ricin; G-bulge geometric IL_5TBW_116 | NA IL_04346.5* | ||
| 1/A/3047:3051, 1/A/3091:3094 | homologous IL_5TBW_352 | NA | ||
| 1/A/3054:3059, 1/A/3084:3088 | homologous IL_5TBW_353 | NA | ||
| 1/A/3103:3107, 1/A/3127:3131 | homologous IL_5TBW_355 | NA | ||
| 1/A/3164:3166, 1/A/3284:3286 | geometric IL_4M4O_001 | NA IL_01312.13* | ||
| 1/A/3177:3179, 1/A/3210:3211 | homologous IL_5TBW_358 | NA | ||
| 1/A/3179:3188, 1/A/3204:3210 | geometric IL_5TBW_124 | NA IL_56867.1* | ||
| 1/A/3192:3194, 1/A/3197:3200 | geometric IL_5UNE_007 | NA IL_01312.13* | ||
| 1/A/3300:3303, 1/A/3311:3314 | Tandem non-canonical cWW pairs geometric IL_5TBW_129 | NA IL_85877.10* | ||
| 1/A/3318:3320, 1/A/3387:3388 | Single bulged U geometric IL_3D2V_001 | NA IL_83039.11* | ||
| 1/A/3324:3325, 1/A/3381:3383 | NA | NA | ||
| 1/A/3332:3337, 1/A/3367:3371 | homologous IL_5TBW_368 | NA | ||
| 1/x/15:16, 1/x/63:65 | NA | NA | ||
| 1/x/21:27, 1/x/53:58 | NA | NA | ||
| 1/x/28:29, 1/x/49:52 | NA | NA | ||
| 1/x/29:30, 1/x/47:49 | NA | NA | ||
| 1/x/32:36, 1/x/41:45 | NA | NA | ||
| 1/x/72:80, 1/x/100:106 | NA | NA | ||
| 1/x/84:87, 1/x/94:96 | NA | NA | ||
| 1/y/64:67, 1/y/92:96 | NA | NA | ||
| 1/y/68:69, 1/y/89:91 | Single bulged U homologous IL_5TBW_146 | NA IL_83039.11* |
Problematic loops
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A/369:376, 1/A/403:404, 1/y/19:20 | homologous J3_5TBW_002 | NA | ||
| 1/A/502:503, 1/A/588:597, 1/A/606:611 | homologous J3_5TBW_032 | NA | ||
| 1/A/3298:3300, 1/A/3314:3318, 1/A/3388:3390 | homologous J3_5TBW_044 | NA | ||
| 1/x/9:14, 1/x/66:67, 1/x/111:112 | NA | NA | ||
| 1/y/43:45, 1/y/58:64, 1/y/96:101 | NA | NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6QT0_001 | NA | ||
| J3_6QT0_004 | NA | ||
| J3_6QT0_005 | homologous J3_5TBW_034 | ||
| J3_6QT0_006 | NA | ||
| J3_6QT0_007 | homologous J3_5TBW_037 | ||
| J3_6QT0_008 | homologous J3_5TBW_038 | ||
| J3_6QT0_009 | homologous J3_5TBW_039 | ||
| J3_6QT0_010 | homologous J3_5TBW_040 | ||
| J3_6QT0_011 | NA | ||
| J3_6QT0_012 | NA | ||
| J3_6QT0_013 | homologous J3_5TBW_043 |
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