5WLC Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_5WLC_001 | 1/L0/120:125 | GNRA Not in a motif group | geometric HL_6CB3_004 HL_42097.1 | |
| HL_5WLC_002 | 1/L0/195:202 | No text annotation Not in a motif group | geometric HL_7A0S_056 HL_84085.2 | |
| HL_5WLC_003 | 1/L0/251:257 | No text annotation Not in a motif group | geometric HL_7A0S_017 HL_53837.1 | |
| HL_5WLC_004 | 1/L0/301:305 | No text annotation Not in a motif group | geometric HL_5TBW_071 HL_53837.1 | |
| HL_5WLC_006 | 1/L0/424:433 | No text annotation Not in a motif group | ||
| HL_5WLC_007 | 1/L0/514:521 | No text annotation Not in a motif group | geometric HL_3HHN_010 HL_84085.2 | |
| HL_5WLC_009 | 1/L1/154:160 | Other HL Not in a motif group | homologous HL_4V88_188 HL_76539.2 | |
| HL_5WLC_010 | 1/L1/190:195 | No text annotation Not in a motif group | homologous HL_4V88_189 HL_77805.2 | |
| HL_5WLC_011 | 1/L1/230:235 | No text annotation Not in a motif group | homologous HL_4V88_190 HL_91058.1 | |
| HL_5WLC_012 | 1/L1/276:279 | No text annotation Not in a motif group | geometric HL_5F9R_002 HL_38927.2 | |
| HL_5WLC_013 | 1/L1/329:339 | No text annotation Not in a motif group | ||
| HL_5WLC_014 | 1/L1/364:380 | No text annotation Not in a motif group | ||
| HL_5WLC_015 | 1/L1/393:404 | No text annotation Not in a motif group | homologous HL_4V88_195 HL_84288.1 | |
| HL_5WLC_016 | 1/L1/414:419 | UNCG Not in a motif group | homologous HL_4V88_196 HL_03562.2 | |
| HL_5WLC_017 | 1/L1/450:456 | No text annotation Not in a motif group | homologous HL_4V88_197 HL_09136.1 | |
| HL_5WLC_018 | 1/L1/491:496 | Other HL Not in a motif group | geometric HL_1JID_001 HL_87030.2 | |
| HL_5WLC_019 | 1/L1/520:532 | No text annotation Not in a motif group | geometric HL_4V88_199 HL_06285.2 | |
| HL_5WLC_020 | 1/L1/561:566 | No text annotation Not in a motif group | geometric HL_4V9F_011 HL_75407.1 | |
| HL_5WLC_022 | 1/L1/900:909 | No text annotation Not in a motif group | homologous HL_4V88_206 HL_12326.1 | |
| HL_5WLC_023 | 1/L1/937:942 | Other HL Not in a motif group | homologous HL_4V88_207 HL_87030.2 | |
| HL_5WLC_024 | 1/L1/997:1007 | No text annotation Not in a motif group | homologous HL_4V88_208 HL_12326.1 | |
| HL_5WLC_025 | 1/L1/1129:1139 | No text annotation Not in a motif group | geometric HL_3IGI_004 HL_30784.2 | |
| HL_5WLC_027 | 1/L1/1501:1506 | GNRA Not in a motif group | homologous HL_4V88_218 HL_42097.1 | |
| HL_5WLC_029 | 1/L1/1594:1602 | No text annotation Not in a motif group | ||
| HL_5WLC_030 | 1/L1/1629:1636 | No text annotation Not in a motif group | ||
| HL_5WLC_031 | 1/L1/1778:1783 | Other HL Not in a motif group | homologous HL_4V88_222 HL_16173.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5WLC_005 | No text annotation | ||
| HL_5WLC_008 | No text annotation | ||
| HL_5WLC_021 | No text annotation | ||
| HL_5WLC_026 | No text annotation | ||
| HL_5WLC_028 | No text annotation | ||
| HL_5WLC_032 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5WLC_001 | 1/L0/17:18, 1/L0/62:64 | Single bulged G Not in a motif group | geometric IL_5TBW_037 IL_00225.2 | |
| IL_5WLC_002 | 1/L0/94:95, 1/L0/149:156 | No text annotation Not in a motif group | ||
| IL_5WLC_003 | 1/L0/97:99, 1/L0/145:147 | Isolated cWH basepair Not in a motif group | geometric IL_3R1C_012 IL_51629.2 | |
| IL_5WLC_004 | 1/L0/100:104, 1/L0/140:144 | No text annotation Not in a motif group | ||
| IL_5WLC_005 | 1/L0/107:110, 1/L0/136:137 | Single stack bend Not in a motif group | geometric IL_5TBW_070 IL_76488.2 | |
| IL_5WLC_006 | 1/L0/116:118, 1/L0/127:130 | Isolated cWH basepair Not in a motif group | geometric IL_4WF9_045 IL_51629.2 | |
| IL_5WLC_007 | 1/L0/167:171, 1/L0/225:228 | No text annotation Not in a motif group | ||
| IL_5WLC_008 | 1/L0/175:178, 1/L0/219:221 | No text annotation Not in a motif group | geometric IL_2O3V_004 IL_95997.1 | |
| IL_5WLC_009 | 1/L0/187:190, 1/L0/207:210 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5J7L_283 IL_30621.2 | |
| IL_5WLC_010 | 1/L0/245:246, 1/L0/266:268 | Single bulged U Not in a motif group | geometric IL_4O26_001 IL_83039.13 | |
| IL_5WLC_011 | 1/L0/250:251, 1/L0/257:262 | Multiple bulged bases Not in a motif group | geometric IL_1R3E_002 IL_59677.2 | |
| IL_5WLC_012 | 1/L0/337:340, 1/L0/386:387 | Major groove minor groove platform; mini C-loop Not in a motif group | geometric IL_4V9F_068 IL_95601.3 | |
| IL_5WLC_013 | 1/L0/340:341, 1/L0/384:386 | Single bulged A Not in a motif group | geometric IL_1JZV_002 IL_37497.2 | |
| IL_5WLC_014 | 1/L0/341:343, 1/L0/381:384 | No text annotation Not in a motif group | geometric IL_5TBW_079 IL_95997.1 | |
| IL_5WLC_015 | 1/L0/346:349, 1/L0/375:378 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5TBW_128 IL_30621.2 | |
| IL_5WLC_016 | 1/L0/402:408, 1/L0/448:455 | No text annotation Not in a motif group | ||
| IL_5WLC_017 | 1/L0/413:414, 1/L0/441:443 | Single stack bend Not in a motif group | geometric IL_5J7L_032 IL_76488.2 | |
| IL_5WLC_018 | 1/L0/414:415, 1/L0/439:441 | Single bulged U Not in a motif group | geometric IL_3WBM_001 IL_83039.13 | |
| IL_5WLC_019 | 1/L0/465:467, 1/L2/50:51 | Single stack bend Not in a motif group | geometric IL_5TBW_070 IL_76488.2 | |
| IL_5WLC_020 | 1/L0/467:471, 1/L2/47:50 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_1L9A_005 IL_30621.2 | |
| IL_5WLC_021 | 1/L0/497:498, 1/L0/540:542 | Single bulged U Not in a motif group | geometric IL_4KZD_001 IL_83039.13 | |
| IL_5WLC_022 | 1/L0/501:503, 1/L0/533:537 | No text annotation Not in a motif group | ||
| IL_5WLC_023 | 1/L0/505:507, 1/L0/529:531 | No text annotation Not in a motif group | geometric IL_5TBW_068 IL_95997.1 | |
| IL_5WLC_024 | 1/L0/510:512, 1/L0/523:526 | Single bulged G, near cWW Not in a motif group | geometric IL_6CZR_128 IL_52767.2 | |
| IL_5WLC_025 | 1/L0/550:552, 1/L0/585:587 | AA cWW Not in a motif group | geometric IL_5ED1_002 IL_95997.1 | |
| IL_5WLC_026 | 1/L1/50:52, 1/L1/428:429 | Single stack bend Not in a motif group | geometric IL_4V9F_005 IL_76488.2 | |
| IL_5WLC_027 | 1/L1/109:112, 1/L1/302:305 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_391 IL_30621.2 | |
| IL_5WLC_028 | 1/L1/113:116, 1/L1/300:301 | Multiple bulged bases Not in a motif group | homologous IL_4V88_392 IL_44546.1 | |
| IL_5WLC_029 | 1/L1/117:122, 1/L1/295:299 | No text annotation Not in a motif group | homologous IL_4V88_393 IL_64181.2 | |
| IL_5WLC_030 | 1/L1/150:152, 1/L1/162:164 | No text annotation Not in a motif group | homologous IL_4V88_395 IL_53251.2 | |
| IL_5WLC_031 | 1/L1/186:189, 1/L1/196:199 | Double sheared Not in a motif group | homologous IL_4V88_396 IL_09705.9 | |
| IL_5WLC_032 | 1/L1/206:208, 1/L1/257:259 | No text annotation Not in a motif group | homologous IL_4V88_398 IL_95997.1 | |
| IL_5WLC_033 | 1/L1/226:228, 1/L1/237:241 | C-loop Not in a motif group | geometric IL_6JDV_004 IL_63596.6 | |
| IL_5WLC_034 | 1/L1/265:267, 1/L1/288:289 | Single bulged A Not in a motif group | homologous IL_4V88_399 IL_37497.2 | |
| IL_5WLC_035 | 1/L1/270:273, 1/L1/283:285 | No text annotation Not in a motif group | homologous IL_4V88_400 IL_47298.1 | |
| IL_5WLC_036 | 1/L1/275:276, 1/L1/279:281 | Single bulged U Not in a motif group | homologous IL_4V88_401 IL_83039.13 | |
| IL_5WLC_037 | 1/L1/311:316, 1/L1/348:355 | Kink-turn with non-sequential stacking Not in a motif group | homologous IL_4V88_402 IL_45067.2 | |
| IL_5WLC_038 | 1/L1/318:323, 1/L1/345:346 | No text annotation Not in a motif group | geometric IL_5Y58_001 IL_48100.2 | |
| IL_5WLC_039 | 1/L1/389:391, 1/L1/406:408 | Isolated cWH basepair Not in a motif group | homologous IL_4V88_405 IL_51629.2 | |
| IL_5WLC_040 | 1/L1/411:413, 1/L1/420:422 | Isolated near basepair Not in a motif group | homologous IL_4V88_406 IL_52767.2 | |
| IL_5WLC_041 | 1/L1/439:441, 1/L1/463:464 | Single bulged U Not in a motif group | homologous IL_4V88_407 IL_83039.13 | |
| IL_5WLC_042 | 1/L1/443:448, 1/L1/458:461 | C-loop with extra cWW pair Not in a motif group | homologous IL_4V88_408 IL_93630.2 | |
| IL_5WLC_043 | 1/L1/482:483, 1/L1/504:506 | Single bulged A Not in a motif group | homologous IL_4V88_409 IL_37497.2 | |
| IL_5WLC_044 | 1/L1/517:520, 1/L1/532:535 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4UYK_003 IL_30621.2 | |
| IL_5WLC_045 | 1/L1/551:552, 1/L1/584:587 | Multiple bulged bases Not in a motif group | geometric IL_7A0S_090 IL_71530.2 | |
| IL_5WLC_046 | 1/L1/552:559, 1/L1/568:584 | No text annotation Not in a motif group | ||
| IL_5WLC_047 | 1/L1/624:626, 1/L1/973:975 | No text annotation Not in a motif group | homologous IL_4V88_417 IL_95997.1 | |
| IL_5WLC_048 | 1/L1/627:631, 1/L1/968:972 | tSH-tHW-tHS Not in a motif group | homologous IL_4V88_418 IL_17136.1 | |
| IL_5WLC_049 | 1/L1/867:870, 1/L1/957:961 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_429 IL_30621.2 | |
| IL_5WLC_050 | 1/L1/871:874, 1/L1/953:956 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_430 IL_30621.2 | |
| IL_5WLC_051 | 1/L1/874:878, 1/L1/950:953 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_431 IL_30621.2 | |
| IL_5WLC_052 | 1/L1/885:888, 1/L1/924:927 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_432 IL_30621.2 | |
| IL_5WLC_053 | 1/L1/892:899, 1/L1/910:920 | No text annotation Not in a motif group | ||
| IL_5WLC_054 | 1/L1/985:990, 1/L1/1014:1016 | Other IL Not in a motif group | geometric IL_4V88_435 IL_22046.1 | |
| IL_5WLC_055 | 1/L1/990:994, 1/L1/1010:1014 | tSH-tHW-tHS Not in a motif group | homologous IL_4V88_436 IL_17136.1 | |
| IL_5WLC_056 | 1/L1/1117:1119, 1/L2/6:7 | Single bulged G Not in a motif group | geometric IL_3IGI_004 IL_00225.2 | |
| IL_5WLC_057 | 1/L1/1157:1160, 1/L1/1617:1621 | C-loop Not in a motif group | homologous IL_4V88_443 IL_63596.6 | |
| IL_5WLC_058 | 1/L1/1173:1176, 1/L1/1463:1466 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5EW4_001 IL_30621.2 | |
| IL_5WLC_059 | 1/L1/1213:1215, 1/L1/1448:1450 | No text annotation Not in a motif group | homologous IL_4V88_446 IL_95997.1 | |
| IL_5WLC_060 | 1/L1/1268:1270, 1/L1/1440:1441 | Single bulged U Not in a motif group | geometric IL_6MWN_006 IL_83039.13 | |
| IL_5WLC_061 | 1/L1/1273:1276, 1/L1/1433:1437 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_1MFQ_004 IL_30621.2 | |
| IL_5WLC_062 | 1/L1/1495:1498, 1/L1/1509:1512 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_461 IL_30621.2 | |
| IL_5WLC_063 | 1/L1/1650:1652, 1/L1/1748:1750 | AA cWW Not in a motif group | homologous IL_4V88_467 IL_95997.1 | |
| IL_5WLC_064 | 1/L2/78:85, 1/L2/325:329 | No text annotation Not in a motif group | ||
| IL_5WLC_065 | 1/L2/97:98, 1/L2/317:319 | No text annotation Not in a motif group | ||
| IL_5WLC_066 | 1/L2/111:115, 1/L2/252:259 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5WLC_067 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5WLC_001 | 1/L1/632:635, 1/L1/861:866, 1/L1/962:967 | No text annotation Not in a motif group | ||
| J3_5WLC_002 | 1/L1/881:884, 1/L1/928:936, 1/L1/943:947 | No text annotation Not in a motif group | homologous J3_4V88_033 NA | |
| J3_5WLC_003 | 1/L1/1150:1151, 1/L1/1627:1629, 1/L1/1636:1640 | No text annotation Not in a motif group | ||
| J3_5WLC_004 | 1/L1/1168:1171, 1/L1/1468:1470, 1/L1/1574:1577 | No text annotation Not in a motif group | homologous J3_4V88_036 NA | |
| J3_5WLC_005 | 1/L1/1470:1474, 1/L1/1533:1540, 1/L1/1571:1574 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5WLC_006 | No text annotation |
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