5WYK Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/5A/120:125 | NA | NA | ||
1/5A/196:201 | NA | NA | ||
1/5A/360:365 | NA | NA | ||
1/5A/515:522 | NA | NA | ||
1/SA/154:160 | geometric HL_4WF9_003 | NA HL_62869.3* | ||
1/SA/190:195 | NA | NA | ||
1/SA/276:279 | geometric HL_5TBW_071 | NA HL_69353.7* | ||
1/SA/330:338 | homologous HL_4V88_193 | NA HL_93727.5* | ||
1/SA/368:373 | NA | NA | ||
1/SA/393:404 | homologous HL_4V88_195 | NA HL_22443.1* | ||
1/SA/414:419 | UNCG homologous HL_4V88_196 | NA HL_79299.11* | ||
1/SA/450:456 | homologous HL_4V88_197 | NA HL_50374.1* | ||
1/SA/491:496 | geometric HL_5U3G_001 | NA HL_40469.1* | ||
1/SA/520:532 | homologous HL_4V88_199 | NA HL_17086.2* | ||
1/SA/569:574 | NA | NA | ||
1/SA/900:909 | homologous HL_4V88_206 | NA HL_87219.4* | ||
1/SA/937:942 | Other HL homologous HL_4V88_207 | NA HL_43074.18* | ||
1/SA/1055:1064 | geometric HL_2ZZM_002 | NA HL_18218.2* | ||
1/SA/1501:1506 | GNRA homologous HL_4V88_218 | NA HL_43074.18* | ||
1/SA/1594:1602 | NA | NA | ||
1/SA/1802:1807 | Other HL geometric HL_5J7L_180 | NA HL_43074.18* |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_5WYK_001 | NA | ||
HL_5WYK_002 | NA | ||
HL_5WYK_003 | NA | ||
HL_5WYK_006 | NA | ||
HL_5WYK_008 | NA | ||
HL_5WYK_010 | NA | ||
HL_5WYK_013 | geometric HL_361D_002 | ||
HL_5WYK_023 | NA | ||
HL_5WYK_027 | NA | ||
HL_5WYK_030 | NA |
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/3A/1:4, 1/SA/1120:1123 | Tandem non-canonical cWW pairs geometric IL_1MFQ_004 | NA IL_85877.10* | ||
1/3A/4:6, 1/SA/1118:1120 | geometric IL_1YZ9_002 | NA IL_01312.13* | ||
1/3A/48:50, 1/5A/468:470 | NA | NA | ||
1/3A/50:52, 1/5A/466:468 | NA | NA | ||
1/3A/78:85, 1/3A/325:329 | NA | NA | ||
1/3A/97:98, 1/3A/317:319 | NA | NA | ||
1/5A/11:15, 1/5A/66:71 | NA | NA | ||
1/5A/16:18, 1/5A/62:65 | NA | NA | ||
1/5A/94:95, 1/5A/149:156 | NA | NA | ||
1/5A/97:99, 1/5A/145:147 | NA | NA | ||
1/5A/100:104, 1/5A/140:144 | NA | NA | ||
1/5A/107:111, 1/5A/135:137 | NA | NA | ||
1/5A/115:120, 1/5A/125:131 | NA | NA | ||
1/5A/167:172, 1/5A/224:228 | NA | NA | ||
1/5A/175:178, 1/5A/219:221 | NA | NA | ||
1/5A/181:183, 1/5A/214:216 | NA | NA | ||
1/5A/187:189, 1/5A/208:210 | NA | NA | ||
1/5A/246:247, 1/5A/265:267 | NA | NA | ||
1/5A/336:341, 1/5A/384:387 | NA | NA | ||
1/5A/342:343, 1/5A/381:383 | NA | NA | ||
1/5A/346:349, 1/5A/375:378 | NA | NA | ||
1/5A/352:356, 1/5A/369:372 | NA | NA | ||
1/5A/395:397, 1/5A/460:462 | NA | NA | ||
1/5A/400:406, 1/5A/450:457 | NA | NA | ||
1/5A/413:414, 1/5A/440:443 | NA | NA | ||
1/5A/501:503, 1/5A/533:537 | NA | NA | ||
1/5A/505:507, 1/5A/529:531 | NA | NA | ||
1/5A/513:515, 1/5A/522:523 | NA | NA | ||
1/5A/550:552, 1/5A/585:587 | NA | NA | ||
1/5A/555:558, 1/5A/579:582 | NA | NA | ||
1/5A/559:561, 1/5A/576:578 | NA | NA | ||
1/SA/24:26, 1/SA/600:601 | NA | NA | ||
1/SA/50:52, 1/SA/428:429 | Minor groove platform homologous IL_4V88_388 | NA IL_06437.11* | ||
1/SA/109:112, 1/SA/302:305 | Tandem non-canonical cWW pairs homologous IL_4V88_391 | NA IL_85877.10* | ||
1/SA/113:116, 1/SA/300:301 | Multiple bulged bases homologous IL_4V88_392 | NA IL_13730.12* | ||
1/SA/117:122, 1/SA/295:299 | homologous IL_4V88_393 | NA IL_76386.1* | ||
1/SA/144:149, 1/SA/165:171 | tWH-tWH-tHW-tHW geometric IL_4LFB_009 | NA IL_87677.1* | ||
1/SA/150:152, 1/SA/162:164 | geometric IL_1RPU_001 | NA IL_01312.13* | ||
1/SA/186:189, 1/SA/196:199 | Double sheared homologous IL_4V88_396 | NA IL_09705.7* | ||
1/SA/204:206, 1/SA/259:263 | Major groove platform with extra cWW geometric IL_1MMS_002 | NA IL_95485.6* | ||
1/SA/206:208, 1/SA/257:259 | NA | NA | ||
1/SA/265:267, 1/SA/288:289 | NA | NA | ||
1/SA/270:273, 1/SA/283:285 | NA | NA | ||
1/SA/275:276, 1/SA/279:281 | NA | NA | ||
1/SA/311:316, 1/SA/348:355 | Kink-turn with non-sequential stacking homologous IL_4V88_402 | NA IL_29549.9* | ||
1/SA/318:323, 1/SA/345:346 | NA | NA | ||
1/SA/363:365, 1/SA/376:381 | NA | NA | ||
1/SA/389:391, 1/SA/406:408 | Isolated cWH basepair homologous IL_4V88_405 | NA IL_42589.6* | ||
1/SA/443:447, 1/SA/460:461 | C-loop geometric IL_5J7L_018 | NA IL_08376.2* | ||
1/SA/447:448, 1/SA/458:460 | Single bulged G geometric IL_3NDB_004 | NA IL_59137.10* | ||
1/SA/480:485, 1/SA/502:508 | NA | NA | ||
1/SA/517:520, 1/SA/532:535 | NA | NA | ||
1/SA/557:559, 1/SA/586:587 | NA | NA | ||
1/SA/627:631, 1/SA/968:972 | tSH-tHW-tHS homologous IL_4V88_418 | NA IL_39521.5* | ||
1/SA/865:866, 1/SA/962:965 | Major groove platform; stack outside cWW geometric IL_6N5P_003 | NA IL_70995.6* | ||
1/SA/867:870, 1/SA/957:961 | Tandem non-canonical cWW pairs homologous IL_4V88_429 | NA IL_85877.10* | ||
1/SA/871:873, 1/SA/954:956 | geometric IL_2R8S_001 | NA IL_01312.13* | ||
1/SA/874:878, 1/SA/950:953 | Tandem non-canonical cWW pairs homologous IL_4V88_431 | NA IL_85877.10* | ||
1/SA/885:888, 1/SA/924:927 | Tandem non-canonical cWW pairs homologous IL_4V88_432 | NA IL_85877.10* | ||
1/SA/893:899, 1/SA/910:919 | NA | NA | ||
1/SA/1041:1044, 1/SA/1074:1077 | Tandem non-canonical cWW pairs homologous IL_4V88_438 | NA IL_85877.10* | ||
1/SA/1051:1053, 1/SA/1066:1067 | NA | NA | ||
1/SA/1149:1151, 1/SA/1627:1628 | Single bulged G homologous IL_4V88_442 | NA IL_59137.10* | ||
1/SA/1157:1161, 1/SA/1616:1621 | NA | NA | ||
1/SA/1173:1175, 1/SA/1464:1466 | homologous IL_4V88_444 | NA IL_01312.13* | ||
1/SA/1470:1474, 1/SA/1533:1574 | NA | NA | ||
1/SA/1495:1498, 1/SA/1509:1512 | Tandem non-canonical cWW pairs homologous IL_4V88_461 | NA IL_85877.10* | ||
1/SA/1642:1644, 1/SA/1757:1759 | geometric IL_4LFB_010 | NA IL_01312.13* | ||
1/SA/1644:1649, 1/SA/1751:1757 | NA | NA | ||
1/SA/1650:1652, 1/SA/1748:1750 | AA cWW homologous IL_4V88_467 | NA IL_01312.13* | ||
1/SA/1653:1656, 1/SA/1744:1747 | Double sheared geometric IL_5AOX_003 | NA IL_09705.7* | ||
1/SA/1656:1658, 1/SA/1743:1744 | NA | NA | ||
1/SA/1665:1667, 1/SA/1734:1736 | homologous IL_4V88_470 | NA IL_01312.13* | ||
1/SA/1669:1672, 1/SA/1729:1732 | Double sheared homologous IL_4V88_471 | NA IL_09705.7* | ||
1/SA/1672:1674, 1/SA/1727:1729 | geometric IL_5UNE_001 | NA IL_01312.13* | ||
1/SA/1675:1678, 1/SA/1723:1726 | Tandem non-canonical cWW pairs homologous IL_4V88_473 | NA IL_85877.10* |
Problematic loops
No problematic loops
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/3A/106:111, 1/3A/259:263, 1/3A/308:309 | NA | NA | ||
1/SA/633:635, 1/SA/861:865, 1/SA/965:966 | NA | NA | ||
1/SA/881:884, 1/SA/928:936, 1/SA/943:947 | homologous J3_4V88_033 | NA | ||
1/SA/1168:1171, 1/SA/1468:1470, 1/SA/1574:1577 | NA | NA |
Problematic loops
No problematic loops
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