3U5F Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_3U5F_001 | 1/6/7:17 | No text annotation | geometric HL_8P9A_190 HL_73535.1 | |
| HL_3U5F_002 | 1/6/70:81 | No text annotation | geometric HL_8P9A_191 HL_81312.1 | |
| HL_3U5F_003 | 1/6/154:160 | GNRA related | geometric HL_8P9A_192 HL_34789.3 | |
| HL_3U5F_004 | 1/6/190:195 | No text annotation | geometric HL_8P9A_193 HL_51020.2 | |
| HL_3U5F_005 | 1/6/230:235 | No text annotation | ||
| HL_3U5F_006 | 1/6/243:250 | T-loop with 1 bulged base | geometric HL_8CRE_196 HL_67772.1 | |
| HL_3U5F_007 | 1/6/276:279 | Mini UNCG | geometric HL_4L8H_001 HL_90436.3 | |
| HL_3U5F_008 | 1/6/330:338 | No text annotation | geometric HL_8P9A_197 HL_87268.2 | |
| HL_3U5F_009 | 1/6/368:373 | No text annotation | geometric HL_8P9A_198 HL_93535.2 | |
| HL_3U5F_010 | 1/6/393:404 | No text annotation | geometric HL_8P9A_199 HL_86432.1 | |
| HL_3U5F_011 | 1/6/414:419 | UNCG | geometric HL_6CZR_080 NA | |
| HL_3U5F_012 | 1/6/450:456 | No text annotation | ||
| HL_3U5F_013 | 1/6/491:496 | Mini UNCG | geometric HL_4LFB_005 HL_90436.3 | |
| HL_3U5F_014 | 1/6/520:532 | No text annotation | geometric HL_8P9A_203 HL_68749.1 | |
| HL_3U5F_015 | 1/6/569:574 | No text annotation | geometric HL_8P9A_204 HL_93535.2 | |
| HL_3U5F_016 | 1/6/656:674 | No text annotation | ||
| HL_3U5F_017 | 1/6/716:722 | No text annotation | ||
| HL_3U5F_018 | 1/6/764:772 | No text annotation | geometric HL_8P9A_206 HL_11974.2 | |
| HL_3U5F_019 | 1/6/777:783 | No text annotation | geometric HL_8P9A_207 HL_89167.2 | |
| HL_3U5F_020 | 1/6/829:843 | No text annotation | geometric HL_8P9A_236 HL_88364.4 | |
| HL_3U5F_021 | 1/6/900:909 | No text annotation | geometric HL_8P9A_209 HL_38491.2 | |
| HL_3U5F_022 | 1/6/937:942 | GNRA | geometric HL_8P9A_210 HL_34789.3 | |
| HL_3U5F_023 | 1/6/997:1007 | No text annotation | geometric HL_8P9A_211 HL_38491.2 | |
| HL_3U5F_024 | 1/6/1055:1064 | No text annotation | ||
| HL_3U5F_025 | 1/6/1084:1089 | GNRA | geometric HL_8P9A_213 HL_34789.3 | |
| HL_3U5F_026 | 1/6/1121:1126 | GNRA | geometric HL_8P9A_214 HL_34789.3 | |
| HL_3U5F_027 | 1/6/1188:1197 | No text annotation | geometric HL_8P9A_215 HL_97521.1 | |
| HL_3U5F_028 | 1/6/1238:1247 | GNRA wlth extra near cWW | geometric HL_8P9A_216 HL_98423.3 | |
| HL_3U5F_029 | 1/6/1296:1301 | GNRA | geometric HL_4LFB_024 HL_34789.3 | |
| HL_3U5F_030 | 1/6/1309:1316 | T-loop related | geometric HL_8P9A_218 HL_63894.2 | |
| HL_3U5F_031 | 1/6/1359:1364 | No text annotation | ||
| HL_3U5F_032 | 1/6/1396:1402 | No text annotation | geometric HL_8P9A_220 HL_76371.2 | |
| HL_3U5F_033 | 1/6/1501:1506 | GNRA | geometric HL_8P9A_221 HL_34789.3 | |
| HL_3U5F_034 | 1/6/1550:1561 | No text annotation | geometric HL_8P9A_222 HL_50951.1 | |
| HL_3U5F_035 | 1/6/1594:1602 | T-loop with 1 bulged base | geometric HL_8CRE_224 HL_61418.2 | |
| HL_3U5F_036 | 1/6/1691:1710 | No text annotation | ||
| HL_3U5F_037 | 1/6/1778:1783 | GNRA variation | geometric HL_8P9A_225 HL_34789.3 |
Problematic loops
No problematic loops
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_3U5F_001 | 1/6/24:26, 1/6/600:601 | Single bulged C | geometric IL_8P9A_373 IL_05642.2 | |
| IL_3U5F_002 | 1/6/35:37, 1/6/471:473 | Isolated non-canonical cWW pair | geometric IL_8P9A_374 IL_01003.3 | |
| IL_3U5F_003 | 1/6/37:41, 1/6/466:471 | No text annotation | geometric IL_8P9A_375 IL_12697.1 | |
| IL_3U5F_004 | 1/6/42:48, 1/6/431:433 | No text annotation | geometric IL_8P9A_376 IL_88082.2 | |
| IL_3U5F_005 | 1/6/50:52, 1/6/428:429 | Minor groove platform | geometric IL_8P9A_377 IL_34520.3 | |
| IL_3U5F_006 | 1/6/58:63, 1/6/87:89 | No text annotation | geometric IL_8P9A_378 IL_61299.6 | |
| IL_3U5F_007 | 1/6/64:69, 1/6/82:86 | No text annotation | geometric IL_8P9A_379 IL_21667.2 | |
| IL_3U5F_008 | 1/6/109:112, 1/6/302:305 | Tandem non-canonical cWW pairs | geometric IL_8P9A_380 IL_71194.2 | |
| IL_3U5F_009 | 1/6/113:116, 1/6/300:301 | Multiple bulged bases | geometric IL_8P9A_381 IL_71421.2 | |
| IL_3U5F_010 | 1/6/117:122, 1/6/295:299 | No text annotation | geometric IL_8P9A_382 IL_31545.1 | |
| IL_3U5F_011 | 1/6/143:149, 1/6/165:172 | No text annotation | geometric IL_8P9A_383 IL_24485.1 | |
| IL_3U5F_012 | 1/6/150:152, 1/6/162:164 | No text annotation | geometric IL_8P9A_384 IL_87720.1 | |
| IL_3U5F_013 | 1/6/186:189, 1/6/196:199 | Double sheared | geometric IL_9DFE_089 IL_58355.2 | |
| IL_3U5F_014 | 1/6/204:206, 1/6/259:263 | No text annotation | geometric IL_9DFE_020 IL_36931.2 | |
| IL_3U5F_015 | 1/6/206:208, 1/6/257:259 | Isolated non-canonical cWW pair | geometric IL_8CRE_404 IL_71625.2 | |
| IL_3U5F_016 | 1/6/265:267, 1/6/288:289 | Single bulged A | geometric IL_8P9A_388 IL_14190.2 | |
| IL_3U5F_017 | 1/6/270:273, 1/6/283:285 | No text annotation | geometric IL_8P9A_389 IL_15698.5 | |
| IL_3U5F_018 | 1/6/275:276, 1/6/279:281 | Single bulged U | geometric IL_8P9A_390 IL_97561.3 | |
| IL_3U5F_019 | 1/6/311:316, 1/6/348:355 | Kink-turn with non-sequential stacking | geometric IL_8P9A_391 IL_46174.4 | |
| IL_3U5F_020 | 1/6/318:323, 1/6/345:346 | No text annotation | ||
| IL_3U5F_021 | 1/6/363:365, 1/6/376:381 | No text annotation | geometric IL_8P9A_393 IL_93336.1 | |
| IL_3U5F_022 | 1/6/389:391, 1/6/406:408 | Isolated cWH basepair | geometric IL_8P9A_394 IL_10892.2 | |
| IL_3U5F_023 | 1/6/411:413, 1/6/420:422 | No text annotation | geometric IL_8P9A_395 IL_42997.5 | |
| IL_3U5F_024 | 1/6/439:441, 1/6/463:464 | Single bulged U | geometric IL_8P9A_396 IL_97561.3 | |
| IL_3U5F_026 | 1/6/481:482, 1/6/505:507 | Single bulged A | geometric IL_8P9A_399 IL_14190.2 | |
| IL_3U5F_029 | 1/6/518:520, 1/6/532:533 | Minor groove platform | geometric IL_8P9A_401 IL_34520.3 | |
| IL_3U5F_030 | 1/6/550:557, 1/6/587:588 | SSU/LSU pseudoknot | geometric IL_8P9A_402 IL_11411.1 | |
| IL_3U5F_031 | 1/6/557:559, 1/6/586:587 | Single bulged U | geometric IL_8P9A_403 IL_97561.3 | |
| IL_3U5F_032 | 1/6/562:568, 1/6/575:583 | No text annotation | geometric IL_8P9A_404 IL_52042.1 | |
| IL_3U5F_033 | 1/6/616:622, 1/6/1104:1105 | No text annotation | geometric IL_8P9A_405 IL_20847.1 | |
| IL_3U5F_034 | 1/6/624:626, 1/6/973:975 | Isolated non-canonical cWW pair | geometric IL_8P9A_406 IL_01003.3 | |
| IL_3U5F_035 | 1/6/627:631, 1/6/968:972 | tSH-tHW-tHS | geometric IL_8P9A_407 IL_05821.1 | |
| IL_3U5F_036 | 1/6/646:648, 1/6/686:688 | No text annotation | geometric IL_8P9A_408 IL_87720.1 | |
| IL_3U5F_038 | 1/6/703:708, 1/6/730:735 | No text annotation | geometric IL_8P9A_410 IL_57885.2 | |
| IL_3U5F_040 | 1/6/746:747, 1/6/802:805 | No text annotation | geometric IL_8P9A_412 IL_73108.2 | |
| IL_3U5F_041 | 1/6/748:750, 1/6/799:801 | Isolated non-canonical cWW pair | geometric IL_8P9A_413 IL_71625.2 | |
| IL_3U5F_042 | 1/6/751:759, 1/6/791:798 | No text annotation | geometric IL_8P9A_414 IL_59049.2 | |
| IL_3U5F_043 | 1/6/819:822, 1/6/850:852 | Isolated non-canonical cWW pair | geometric IL_8P9A_415 IL_71625.2 | |
| IL_3U5F_044 | 1/6/822:824, 1/6/848:850 | Isolated cWH basepair | geometric IL_2H1M_002 IL_10892.2 | |
| IL_3U5F_045 | 1/6/865:866, 1/6/962:965 | Major groove platform; stack outside cWW | geometric IL_8P9A_417 IL_74641.2 | |
| IL_3U5F_047 | 1/6/871:874, 1/6/953:956 | Tandem non-canonical cWW pairs | geometric IL_8P9A_419 IL_15225.2 | |
| IL_3U5F_048 | 1/6/874:878, 1/6/950:953 | Tandem non-canonical cWW pairs | geometric IL_8P9A_420 IL_15225.2 | |
| IL_3U5F_049 | 1/6/885:888, 1/6/924:927 | Tandem non-canonical cWW pairs | geometric IL_8P9A_421 IL_15225.2 | |
| IL_3U5F_050 | 1/6/893:895, 1/6/917:919 | Isolated non-canonical cWW pair | geometric IL_6SX2_001 IL_01003.3 | |
| IL_3U5F_051 | 1/6/895:899, 1/6/910:917 | Kink-turn | geometric IL_6UFM_001 IL_71972.1 | |
| IL_3U5F_052 | 1/6/985:990, 1/6/1014:1016 | No text annotation | geometric IL_8P9A_423 IL_31359.1 | |
| IL_3U5F_053 | 1/6/990:994, 1/6/1010:1014 | tSH-tHW-tHS | geometric IL_8P9A_424 IL_05821.1 | |
| IL_3U5F_054 | 1/6/1034:1036, 1/6/1095:1101 | No text annotation | geometric IL_8P9A_425 IL_82706.2 | |
| IL_3U5F_055 | 1/6/1041:1044, 1/6/1074:1077 | Tandem non-canonical cWW pairs | geometric IL_8P9A_426 IL_15225.2 | |
| IL_3U5F_056 | 1/6/1051:1053, 1/6/1066:1067 | Single bulged U | geometric IL_8P9A_427 IL_97561.3 | |
| IL_3U5F_057 | 1/6/1111:1118, 1/6/1129:1134 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | geometric IL_8P9A_428 IL_84044.1 | |
| IL_3U5F_058 | 1/6/1146:1147, 1/6/1630:1632 | Single bulged A | geometric IL_4LFB_035 IL_14190.2 | |
| IL_3U5F_059 | 1/6/1149:1151, 1/6/1627:1628 | Single bulged G | geometric IL_8P9A_430 IL_28408.2 | |
| IL_3U5F_060 | 1/6/1157:1160, 1/6/1617:1621 | C-loop | geometric IL_8P9A_431 IL_63596.12 | |
| IL_3U5F_061 | 1/6/1173:1175, 1/6/1464:1466 | Isolated non-canonical cWW pair | geometric IL_8P9A_432 IL_01003.3 | |
| IL_3U5F_062 | 1/6/1178:1179, 1/6/1459:1461 | Minor groove platform | geometric IL_8P9A_433 IL_34520.3 | |
| IL_3U5F_063 | 1/6/1213:1215, 1/6/1448:1450 | Isolated non-canonical cWW pair | geometric IL_4KYY_001 IL_71625.2 | |
| IL_3U5F_064 | 1/6/1224:1233, 1/6/1252:1259 | No text annotation | ||
| IL_3U5F_065 | 1/6/1234:1236, 1/6/1249:1251 | No text annotation | geometric IL_8P9A_436 IL_38565.2 | |
| IL_3U5F_066 | 1/6/1268:1270, 1/6/1440:1441 | No text annotation | geometric IL_8CRE_451 IL_97561.3 | |
| IL_3U5F_067 | 1/6/1272:1276, 1/6/1436:1438 | Isolated cWS basepair | geometric IL_4LFB_044 IL_82453.1 | |
| IL_3U5F_068 | 1/6/1276:1278, 1/6/1430:1436 | No text annotation | geometric IL_8P9A_440 IL_34117.1 | |
| IL_3U5F_069 | 1/6/1280:1281, 1/6/1426:1428 | Single bulged A | geometric IL_8P9A_441 IL_14190.2 | |
| IL_3U5F_070 | 1/6/1290:1292, 1/6/1323:1325 | Isolated cWH basepair | geometric IL_8P9A_442 IL_10892.2 | |
| IL_3U5F_071 | 1/6/1306:1308, 1/6/1317:1318 | Minor groove platform | geometric IL_8P9A_443 IL_34520.3 | |
| IL_3U5F_072 | 1/6/1339:1342, 1/6/1383:1385 | Isolated non-canonical cWW pair | geometric IL_8P9A_444 IL_01003.3 | |
| IL_3U5F_073 | 1/6/1345:1348, 1/6/1377:1380 | No text annotation | geometric IL_8P9A_445 IL_78800.2 | |
| IL_3U5F_074 | 1/6/1352:1354, 1/6/1369:1373 | Isolated non-canonical cWW pair | geometric IL_8P9A_471 IL_71625.2 | |
| IL_3U5F_075 | 1/6/1389:1391, 1/6/1407:1412 | No text annotation | geometric IL_8P9A_447 IL_94684.1 | |
| IL_3U5F_076 | 1/6/1480:1487, 1/6/1519:1527 | No text annotation | geometric IL_8P9A_448 IL_91698.1 | |
| IL_3U5F_077 | 1/6/1488:1494, 1/6/1513:1518 | No text annotation | geometric IL_8P9A_449 IL_22564.1 | |
| IL_3U5F_078 | 1/6/1495:1498, 1/6/1509:1512 | Tandem non-canonical cWW pairs | geometric IL_8P9A_450 IL_76776.1 | |
| IL_3U5F_079 | 1/6/1540:1545, 1/6/1566:1571 | No text annotation | geometric IL_8P9A_451 IL_57885.2 | |
| IL_3U5F_080 | 1/6/1636:1638, 1/6/1764:1767 | No text annotation | geometric IL_5J7L_058 NA | |
| IL_3U5F_081 | 1/6/1638:1641, 1/6/1760:1764 | No text annotation | geometric IL_8P9A_453 IL_25873.2 | |
| IL_3U5F_082 | 1/6/1642:1644, 1/6/1757:1759 | Isolated non-canonical cWW pair | geometric IL_8P9A_454 IL_01003.3 | |
| IL_3U5F_083 | 1/6/1644:1647, 1/6/1753:1757 | No text annotation | geometric IL_8P9A_455 IL_05553.1 | |
| IL_3U5F_084 | 1/6/1650:1652, 1/6/1748:1750 | Isolated non-canonical cWW pair | geometric IL_8P9A_456 IL_01003.3 | |
| IL_3U5F_085 | 1/6/1653:1656, 1/6/1744:1747 | Double sheared | geometric IL_8P9A_457 IL_58355.2 | |
| IL_3U5F_086 | 1/6/1656:1658, 1/6/1743:1744 | Single bulged U | geometric IL_8P9A_458 IL_97561.3 | |
| IL_3U5F_087 | 1/6/1665:1667, 1/6/1734:1736 | Isolated non-canonical cWW pair | geometric IL_8P9A_459 IL_71625.2 | |
| IL_3U5F_088 | 1/6/1669:1672, 1/6/1729:1732 | Double sheared | geometric IL_8P9A_460 IL_58355.2 | |
| IL_3U5F_089 | 1/6/1672:1674, 1/6/1727:1729 | Isolated non-canonical cWW pair | geometric IL_8P9A_461 IL_01003.3 | |
| IL_3U5F_090 | 1/6/1675:1678, 1/6/1723:1726 | Tandem non-canonical cWW pairs | geometric IL_8P9A_462 IL_71194.2 | |
| IL_3U5F_091 | 1/6/1678:1682, 1/6/1719:1723 | Triple sheared | geometric IL_8P9A_463 IL_15190.2 | |
| IL_3U5F_093 | 1/6/1688:1690, 1/6/1711:1713 | Isolated tWW contact | geometric IL_8P9A_464 IL_55553.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_3U5F_025 | No text annotation | ||
| IL_3U5F_028 | No text annotation | ||
| IL_3U5F_037 | No text annotation | ||
| IL_3U5F_039 | Triple non-canonical cWW pairs | ||
| IL_3U5F_046 | Tandem non-canonical cWW pairs |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_3U5F_001 | 1/6/760:763, 1/6/773:775, 1/6/785:790 | No text annotation | geometric J3_8P9A_073 J3_97642.2 | |
| J3_3U5F_002 | 1/6/881:884, 1/6/928:936, 1/6/943:947 | No text annotation | geometric J3_8P9A_074 J3_23895.1 | |
| J3_3U5F_003 | 1/6/1037:1039, 1/6/1079:1083, 1/6/1090:1094 | No text annotation | geometric J3_8P9A_075 J3_94999.1 | |
| J3_3U5F_004 | 1/6/1161:1164, 1/6/1581:1587, 1/6/1609:1616 | No text annotation | geometric J3_8P9A_076 J3_85722.1 | |
| J3_3U5F_005 | 1/6/1168:1171, 1/6/1468:1470, 1/6/1574:1577 | No text annotation | geometric J3_8P9A_077 J3_44359.1 | |
| J3_3U5F_006 | 1/6/1180:1187, 1/6/1198:1209, 1/6/1454:1458 | No text annotation | geometric J3_8P9A_078 J3_88451.1 | |
| J3_3U5F_007 | 1/6/1215:1220, 1/6/1263:1267, 1/6/1442:1448 | No text annotation | geometric J3_8P9A_079 J3_87797.2 | |
| J3_3U5F_008 | 1/6/1283:1288, 1/6/1327:1332, 1/6/1419:1424 | No text annotation | geometric J3_8P9A_080 J3_17077.1 | |
| J3_3U5F_009 | 1/6/1336:1338, 1/6/1386:1389, 1/6/1412:1415 | No text annotation | geometric J3_8P9A_082 J3_82365.5 | |
| J3_3U5F_010 | 1/6/1470:1474, 1/6/1533:1540, 1/6/1571:1574 | No text annotation | geometric J3_8P9A_084 J3_03192.1 |
Problematic loops
No problematic loops
Coloring options: