7A1G Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7A1G_001 | 1/2/7:17 | No text annotation | homologous HL_4V88_186 NA | |
| HL_7A1G_002 | 1/2/70:81 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_7A1G_003 | 1/2/154:160 | GNRA related | homologous HL_4V88_188 NA | |
| HL_7A1G_004 | 1/2/190:195 | No text annotation | geometric HL_2Y8W_001 HL_81100.2 | |
| HL_7A1G_005 | 1/2/228:237 | No text annotation | ||
| HL_7A1G_006 | 1/2/243:250 | T-loop with 1 bulged base | homologous HL_4V88_191 NA | |
| HL_7A1G_007 | 1/2/276:279 | Mini UNCG | homologous HL_4V88_192 NA | |
| HL_7A1G_008 | 1/2/330:338 | GNRA related | homologous HL_4V88_193 NA | |
| HL_7A1G_009 | 1/2/368:373 | No text annotation | homologous HL_4V88_194 NA | |
| HL_7A1G_010 | 1/2/393:404 | No text annotation | homologous HL_4V88_195 NA | |
| HL_7A1G_011 | 1/2/414:419 | UNCG | homologous HL_4V88_196 NA | |
| HL_7A1G_012 | 1/2/450:456 | No text annotation | homologous HL_4V88_197 NA | |
| HL_7A1G_013 | 1/2/491:496 | No text annotation | geometric HL_2Y8W_001 HL_81100.2 | |
| HL_7A1G_014 | 1/2/520:532 | No text annotation | homologous HL_4V88_199 NA | |
| HL_7A1G_015 | 1/2/569:574 | GNRA variation | homologous HL_4V88_200 NA | |
| HL_7A1G_016 | 1/2/650:684 | No text annotation | ||
| HL_7A1G_017 | 1/2/702:736 | No text annotation | ||
| HL_7A1G_018 | 1/2/764:772 | No text annotation | homologous HL_4V88_203 NA | |
| HL_7A1G_019 | 1/2/777:783 | No text annotation | homologous HL_4V88_204 NA | |
| HL_7A1G_038 | 1/2/829:843 | No text annotation | homologous HL_8P9A_236 HL_88364.2 | |
| HL_7A1G_021 | 1/2/900:909 | No text annotation | homologous HL_4V88_206 NA | |
| HL_7A1G_022 | 1/2/937:942 | GNRA | homologous HL_4V88_207 NA | |
| HL_7A1G_023 | 1/2/997:1007 | No text annotation | homologous HL_4V88_208 NA | |
| HL_7A1G_024 | 1/2/1055:1064 | No text annotation | homologous HL_8P9A_212 HL_97917.2 | |
| HL_7A1G_025 | 1/2/1084:1089 | GNRA | homologous HL_4V88_210 NA | |
| HL_7A1G_026 | 1/2/1121:1126 | GNRA | homologous HL_4V88_211 NA | |
| HL_7A1G_027 | 1/2/1188:1197 | No text annotation | homologous HL_4V88_212 NA | |
| HL_7A1G_028 | 1/2/1238:1247 | Anticodon loop related | homologous HL_4V88_213 NA | |
| HL_7A1G_029 | 1/2/1296:1301 | GNRA | homologous HL_4V88_214 NA | |
| HL_7A1G_030 | 1/2/1309:1316 | No text annotation | homologous HL_4V88_215 NA | |
| HL_7A1G_031 | 1/2/1359:1364 | No text annotation | homologous HL_4V88_216 NA | |
| HL_7A1G_032 | 1/2/1396:1402 | GNRA | homologous HL_4V88_217 NA | |
| HL_7A1G_033 | 1/2/1501:1506 | GNRA | homologous HL_4V88_218 NA | |
| HL_7A1G_034 | 1/2/1550:1561 | No text annotation | homologous HL_4V88_219 NA | |
| HL_7A1G_035 | 1/2/1594:1602 | No text annotation | homologous HL_4V88_220 NA | |
| HL_7A1G_036 | 1/2/1698:1703 | No text annotation | geometric HL_4O26_001 HL_35941.1 | |
| HL_7A1G_037 | 1/2/1778:1783 | GNRA variation | homologous HL_4V88_222 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7A1G_020 | Pseudoknot geometry |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7A1G_001 | 1/2/24:26, 1/2/600:601 | Single bulged C | homologous IL_4V88_384 NA | |
| IL_7A1G_002 | 1/2/35:37, 1/2/471:473 | Isolated non-canonical cWW pair | geometric IL_4V88_385 NA | |
| IL_7A1G_003 | 1/2/37:41, 1/2/466:471 | Triple sheared related | homologous IL_4V88_386 NA | |
| IL_7A1G_004 | 1/2/42:48, 1/2/431:433 | No text annotation | homologous IL_4V88_387 NA | |
| IL_7A1G_005 | 1/2/50:52, 1/2/428:429 | Minor groove platform | homologous IL_4V88_388 NA | |
| IL_7A1G_006 | 1/2/58:63, 1/2/87:89 | No text annotation | homologous IL_4V88_389 NA | |
| IL_7A1G_007 | 1/2/64:69, 1/2/82:86 | No text annotation | homologous IL_4V88_390 NA | |
| IL_7A1G_008 | 1/2/109:112, 1/2/302:305 | Tandem non-canonical cWW pairs | homologous IL_4V88_391 NA | |
| IL_7A1G_009 | 1/2/113:116, 1/2/300:301 | Multiple bulged bases | homologous IL_4V88_392 NA | |
| IL_7A1G_010 | 1/2/117:122, 1/2/295:299 | No text annotation | homologous IL_4V88_393 NA | |
| IL_7A1G_011 | 1/2/144:149, 1/2/165:171 | tWH-tWH-tHW-tHW | geometric IL_4LFB_009 IL_12745.1 | |
| IL_7A1G_012 | 1/2/150:152, 1/2/162:164 | Isolated cWH basepair | geometric IL_6RA4_002 IL_10167.5 | |
| IL_7A1G_013 | 1/2/186:189, 1/2/196:199 | Double sheared | homologous IL_4V88_396 NA | |
| IL_7A1G_014 | 1/2/204:206, 1/2/259:263 | Major groove platform with extra cWW | homologous IL_4V88_397 NA | |
| IL_7A1G_015 | 1/2/206:208, 1/2/257:259 | Isolated non-canonical cWW pair | geometric IL_3U4M_001 IL_28037.2 | |
| IL_7A1G_016 | 1/2/265:267, 1/2/288:289 | Single bulged A | homologous IL_4V88_399 NA | |
| IL_7A1G_094 | 1/2/270:273, 1/2/283:285 | No text annotation | homologous IL_8P9A_389 IL_15698.3 | |
| IL_7A1G_018 | 1/2/275:276, 1/2/279:281 | Single bulged U | geometric IL_4V88_401 NA | |
| IL_7A1G_019 | 1/2/311:316, 1/2/348:355 | Kink-turn with non-sequential stacking | homologous IL_4V88_402 NA | |
| IL_7A1G_020 | 1/2/318:323, 1/2/345:346 | No text annotation | geometric IL_5Y58_001 IL_59877.1 | |
| IL_7A1G_021 | 1/2/363:365, 1/2/376:381 | No text annotation | homologous IL_4V88_404 NA | |
| IL_7A1G_022 | 1/2/389:391, 1/2/406:408 | Isolated cWH basepair | homologous IL_4V88_405 NA | |
| IL_7A1G_023 | 1/2/411:413, 1/2/420:422 | Isolated near basepair | homologous IL_4V88_406 NA | |
| IL_7A1G_024 | 1/2/439:441, 1/2/463:464 | Single bulged U | homologous IL_4V88_407 NA | |
| IL_7A1G_025 | 1/2/443:447, 1/2/460:461 | C-loop | geometric IL_5J7L_018 IL_03109.3 | |
| IL_7A1G_026 | 1/2/447:448, 1/2/458:460 | Single bulged G | geometric IL_5J7L_019 IL_00225.13 | |
| IL_7A1G_027 | 1/2/481:482, 1/2/505:507 | Single bulged A | homologous IL_4V88_409 NA | |
| IL_7A1G_028 | 1/2/485:488, 1/2/500:502 | No text annotation | ||
| IL_7A1G_029 | 1/2/488:489, 1/2/498:500 | No text annotation | ||
| IL_7A1G_030 | 1/2/514:516, 1/2/536:543 | No text annotation | ||
| IL_7A1G_031 | 1/2/517:518, 1/2/533:535 | Minor groove platform | geometric IL_4V88_388 NA | |
| IL_7A1G_032 | 1/2/518:520, 1/2/532:533 | Minor groove platform | geometric IL_4V88_412 NA | |
| IL_7A1G_033 | 1/2/550:557, 1/2/587:588 | SSU/LSU pseudoknot | homologous IL_4V88_413 NA | |
| IL_7A1G_034 | 1/2/557:559, 1/2/586:587 | Single bulged U | geometric IL_4WF9_030 IL_89505.4 | |
| IL_7A1G_035 | 1/2/562:568, 1/2/575:583 | Kink-turn related | homologous IL_4V88_415 NA | |
| IL_7A1G_036 | 1/2/616:622, 1/2/1104:1105 | No text annotation | homologous IL_4V88_416 NA | |
| IL_7A1G_037 | 1/2/624:626, 1/2/973:975 | Isolated non-canonical cWW pair | homologous IL_4V88_417 NA | |
| IL_7A1G_038 | 1/2/627:631, 1/2/968:972 | tSH-tHW-tHS | homologous IL_4V88_418 NA | |
| IL_7A1G_039 | 1/2/646:648, 1/2/686:688 | Isolated non-canonical cWW pair | geometric IL_4V88_419 NA | |
| IL_7A1G_040 | 1/2/746:747, 1/2/802:805 | Major groove minor groove platform; mini C-loop | homologous IL_4V88_423 NA | |
| IL_7A1G_041 | 1/2/748:750, 1/2/799:801 | Isolated non-canonical cWW pair | homologous IL_4V88_424 NA | |
| IL_7A1G_042 | 1/2/751:759, 1/2/791:798 | No text annotation | homologous IL_4V88_425 NA | |
| IL_7A1G_043 | 1/2/817:822, 1/2/850:854 | No text annotation | homologous IL_8P9A_416 NA | |
| IL_7A1G_044 | 1/2/822:824, 1/2/848:850 | Isolated non-canonical cWW pair | geometric IL_7A0S_031 IL_87907.2 | |
| IL_7A1G_045 | 1/2/865:866, 1/2/962:965 | Major groove platform; stack outside cWW | homologous IL_4V88_428 NA | |
| IL_7A1G_095 | 1/2/868:869, 1/2/958:960 | Single bulged U | geometric IL_3NDB_005 IL_89505.4 | |
| IL_7A1G_096 | 1/2/871:873, 1/2/954:956 | Isolated non-canonical cWW pair | geometric IL_2R8S_001 IL_87907.2 | |
| IL_7A1G_048 | 1/2/874:878, 1/2/950:953 | Tandem non-canonical cWW pairs | geometric IL_4V88_431 NA | |
| IL_7A1G_049 | 1/2/885:888, 1/2/924:927 | Tandem non-canonical cWW pairs | homologous IL_4V88_432 NA | |
| IL_7A1G_050 | 1/2/893:899, 1/2/910:919 | Kink-turn related | homologous IL_8C3A_440 NA | |
| IL_7A1G_051 | 1/2/985:990, 1/2/1014:1016 | Other IL | homologous IL_4V88_435 NA | |
| IL_7A1G_052 | 1/2/990:994, 1/2/1010:1014 | tSH-tHW-tHS | geometric IL_4V88_436 NA | |
| IL_7A1G_053 | 1/2/1034:1036, 1/2/1095:1101 | No text annotation | homologous IL_4V88_437 NA | |
| IL_7A1G_054 | 1/2/1041:1044, 1/2/1074:1077 | Tandem non-canonical cWW pairs | homologous IL_4V88_438 NA | |
| IL_7A1G_055 | 1/2/1051:1053, 1/2/1066:1067 | Single bulged U | homologous IL_4V88_439 NA | |
| IL_7A1G_056 | 1/2/1111:1118, 1/2/1129:1134 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4V88_440 NA | |
| IL_7A1G_057 | 1/2/1146:1147, 1/2/1630:1632 | Single bulged A | homologous IL_4V88_441 NA | |
| IL_7A1G_058 | 1/2/1149:1151, 1/2/1627:1628 | Single bulged G | homologous IL_4V88_442 NA | |
| IL_7A1G_059 | 1/2/1157:1160, 1/2/1617:1621 | C-loop | homologous IL_4V88_443 NA | |
| IL_7A1G_060 | 1/2/1173:1175, 1/2/1464:1466 | Isolated non-canonical cWW pair | homologous IL_4V88_444 NA | |
| IL_7A1G_061 | 1/2/1178:1179, 1/2/1459:1461 | Minor groove platform | homologous IL_4V88_445 NA | |
| IL_7A1G_062 | 1/2/1213:1215, 1/2/1448:1450 | Isolated non-canonical cWW pair | geometric IL_4E59_001 IL_87907.2 | |
| IL_7A1G_063 | 1/2/1224:1230, 1/2/1257:1259 | No text annotation | ||
| IL_7A1G_097 | 1/2/1224:1233, 1/2/1252:1259 | No text annotation | homologous IL_8P9A_470 IL_28304.1 | |
| IL_7A1G_064 | 1/2/1230:1233, 1/2/1252:1257 | No text annotation | ||
| IL_7A1G_065 | 1/2/1234:1236, 1/2/1249:1251 | No text annotation | homologous IL_4V88_448 NA | |
| IL_7A1G_066 | 1/2/1268:1270, 1/2/1440:1441 | Single bulged U | homologous IL_4V88_449 NA | |
| IL_7A1G_067 | 1/2/1272:1276, 1/2/1436:1438 | Isolated cWS basepair | geometric IL_4LFB_044 IL_76319.5 | |
| IL_7A1G_098 | 1/2/1272:1278, 1/2/1430:1438 | No text annotation | homologous IL_8P9A_439 IL_86012.1 | |
| IL_7A1G_068 | 1/2/1276:1278, 1/2/1430:1436 | Minor groove platform with extra cWW | homologous IL_4V88_451 NA | |
| IL_7A1G_069 | 1/2/1280:1281, 1/2/1426:1428 | Single bulged A | homologous IL_4V88_452 NA | |
| IL_7A1G_070 | 1/2/1290:1292, 1/2/1323:1325 | Isolated cWH basepair | homologous IL_4V88_453 NA | |
| IL_7A1G_071 | 1/2/1306:1308, 1/2/1317:1318 | Minor groove platform | geometric IL_5T83_003 IL_51454.2 | |
| IL_7A1G_072 | 1/2/1339:1342, 1/2/1383:1385 | Isolated non-canonical cWW pair | homologous IL_4V88_455 NA | |
| IL_7A1G_073 | 1/2/1345:1348, 1/2/1377:1380 | Minor groove platform | homologous IL_4V88_456 NA | |
| IL_7A1G_099 | 1/2/1352:1354, 1/2/1369:1373 | Isolated non-canonical cWW pair | geometric IL_4V88_457 NA | |
| IL_7A1G_075 | 1/2/1389:1391, 1/2/1407:1412 | Major groove platform; stack outside cWW | geometric IL_4V88_458 NA | |
| IL_7A1G_076 | 1/2/1480:1487, 1/2/1519:1527 | No text annotation | homologous IL_4V88_459 NA | |
| IL_7A1G_077 | 1/2/1488:1494, 1/2/1513:1518 | 180 degree turn | homologous IL_4V88_460 NA | |
| IL_7A1G_078 | 1/2/1495:1498, 1/2/1509:1512 | Tandem non-canonical cWW pairs | homologous IL_4V88_461 NA | |
| IL_7A1G_079 | 1/2/1540:1545, 1/2/1566:1571 | No text annotation | geometric IL_4V88_462 NA | |
| IL_7A1G_080 | 1/2/1636:1638, 1/2/1764:1767 | No text annotation | geometric IL_4V88_463 NA | |
| IL_7A1G_081 | 1/2/1638:1642, 1/2/1759:1764 | No text annotation | ||
| IL_7A1G_082 | 1/2/1642:1644, 1/2/1757:1759 | Isolated non-canonical cWW pair | geometric IL_4E48_006 IL_87907.2 | |
| IL_7A1G_083 | 1/2/1644:1647, 1/2/1753:1757 | Tandem non-canonical cWW pairs | geometric IL_4EYA_010 IL_51479.1 | |
| IL_7A1G_084 | 1/2/1650:1652, 1/2/1748:1750 | Isolated non-canonical cWW pair | homologous IL_4V88_467 NA | |
| IL_7A1G_085 | 1/2/1653:1656, 1/2/1744:1747 | Double sheared | geometric IL_4V88_468 NA | |
| IL_7A1G_100 | 1/2/1656:1658, 1/2/1743:1744 | No text annotation | ||
| IL_7A1G_087 | 1/2/1665:1667, 1/2/1734:1736 | Isolated non-canonical cWW pair | homologous IL_4V88_470 NA | |
| IL_7A1G_088 | 1/2/1669:1672, 1/2/1729:1732 | Double sheared | geometric IL_4V88_471 NA | |
| IL_7A1G_089 | 1/2/1672:1674, 1/2/1727:1729 | Isolated non-canonical cWW pair | homologous IL_4V88_472 NA | |
| IL_7A1G_090 | 1/2/1675:1678, 1/2/1723:1726 | Tandem non-canonical cWW pairs | homologous IL_4V88_473 NA | |
| IL_7A1G_091 | 1/2/1678:1682, 1/2/1719:1723 | Triple sheared | geometric IL_4V88_474 NA | |
| IL_7A1G_092 | 1/2/1687:1690, 1/2/1711:1714 | No text annotation | ||
| IL_7A1G_093 | 1/2/1692:1695, 1/2/1706:1709 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7A1G_017 | No text annotation | ||
| IL_7A1G_046 | Tandem non-canonical cWW pairs | ||
| IL_7A1G_047 | Tandem non-canonical cWW pairs | ||
| IL_7A1G_074 | Tandem non-canonical cWW pairs | ||
| IL_7A1G_086 | Decoding loop related |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7A1G_001 | 1/2/41:42, 1/2/433:439, 1/2/464:466 | No text annotation | geometric J3_4V88_078 NA | |
| J3_7A1G_014 | 1/2/41:48, 1/2/431:439, 1/2/464:466 | No text annotation | homologous J3_8P9A_069 J3_46317.4 | |
| J3_7A1G_015 | 1/2/213:228, 1/2/237:243, 1/2/250:252 | No text annotation | ||
| J3_7A1G_002 | 1/2/633:635, 1/2/861:865, 1/2/965:966 | No text annotation | geometric J3_4V88_080 NA | |
| J3_7A1G_016 | 1/2/633:635, 1/2/861:866, 1/2/962:966 | No text annotation | homologous J3_8P9A_072 J3_17385.4 | |
| J3_7A1G_003 | 1/2/760:763, 1/2/773:775, 1/2/785:790 | No text annotation | homologous J3_4V88_032 NA | |
| J3_7A1G_004 | 1/2/881:884, 1/2/928:936, 1/2/943:947 | No text annotation | homologous J3_4V88_033 NA | |
| J3_7A1G_005 | 1/2/1037:1039, 1/2/1079:1083, 1/2/1090:1094 | No text annotation | homologous J3_4V88_034 NA | |
| J3_7A1G_006 | 1/2/1161:1164, 1/2/1581:1587, 1/2/1609:1616 | No text annotation | homologous J3_4V88_035 NA | |
| J3_7A1G_007 | 1/2/1168:1171, 1/2/1468:1470, 1/2/1574:1577 | No text annotation | homologous J3_8C3A_039 NA | |
| J3_7A1G_008 | 1/2/1180:1187, 1/2/1198:1209, 1/2/1454:1458 | No text annotation | homologous J3_8C3A_040 NA | |
| J3_7A1G_009 | 1/2/1215:1220, 1/2/1263:1267, 1/2/1442:1448 | No text annotation | homologous J3_4V88_038 NA | |
| J3_7A1G_010 | 1/2/1283:1288, 1/2/1327:1332, 1/2/1419:1424 | No text annotation | homologous J3_8P9A_080 J3_99563.1 | |
| J3_7A1G_011 | 1/2/1293:1294, 1/2/1303:1306, 1/2/1318:1322 | No text annotation | homologous J3_8C3A_085 NA | |
| J3_7A1G_012 | 1/2/1336:1338, 1/2/1386:1389, 1/2/1412:1415 | No text annotation | homologous J3_4V88_040 NA | |
| J3_7A1G_017 | 1/2/1336:1338, 1/2/1386:1391, 1/2/1407:1415 | No text annotation | homologous J3_8C3A_086 NA | |
| J3_7A1G_013 | 1/2/1470:1474, 1/2/1533:1540, 1/2/1571:1574 | No text annotation | homologous J3_4V88_041 NA | |
| J4_7A1G_001 | 1/2/99:107, 1/2/307:309, 1/2/357:361, 1/2/383:384 | No text annotation | homologous J4_8C3A_021 NA | |
| J4_7A1G_002 | 1/2/622:624, 1/2/975:980, 1/2/1021:1032, 1/2/1103:1104 | No text annotation | homologous J4_8P9A_022 J4_61885.6 | |
| J5_7A1G_001 | 1/2/31:35, 1/2/473:479, 1/2/509:514, 1/2/543:546, 1/2/592:595 | No text annotation | homologous J5_8C3A_018 NA | |
| J5_7A1G_002 | 1/2/31:35, 1/2/473:479, 1/2/509:516, 1/2/536:546, 1/2/592:595 | No text annotation | ||
| J5_7A1G_003 | 1/2/54:57, 1/2/90:97, 1/2/386:388, 1/2/409:411, 1/2/422:426 | No text annotation | homologous J5_8C3A_020 NA | |
| J5_7A1G_004 | 1/2/124:143, 1/2/172:182, 1/2/203:204, 1/2/263:265, 1/2/289:293 | No text annotation | ||
| J5_7A1G_005 | 1/2/124:143, 1/2/172:182, 1/2/203:204, 1/2/263:267, 1/2/288:293 | No text annotation | ||
| J5_7A1G_006 | 1/2/636:641, 1/2/693:700, 1/2/738:744, 1/2/807:817, 1/2/854:860 | No text annotation |
Problematic loops
No problematic loops
Coloring options: