8IP9 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
HL_8IP9_001 | 1/aa/7:17 | No text annotation | homologous HL_8C3A_192 NA | |
HL_8IP9_002 | 1/aa/70:82 | No text annotation | ||
HL_8IP9_003 | 1/aa/152:158 | GNRA related | homologous HL_4V88_188 NA | |
HL_8IP9_005 | 1/aa/246:253 | T-loop with 1 bulged base | geometric HL_4V88_191 NA | |
HL_8IP9_007 | 1/aa/334:342 | GNRA related | homologous HL_8C3A_199 NA | |
HL_8IP9_008 | 1/aa/372:377 | No text annotation | homologous HL_4V88_194 NA | |
HL_8IP9_009 | 1/aa/397:408 | No text annotation | homologous HL_4V88_195 NA | |
HL_8IP9_010 | 1/aa/418:423 | UNCG | homologous HL_8C3A_202 NA | |
HL_8IP9_011 | 1/aa/454:460 | No text annotation | homologous HL_8C3A_203 NA | |
HL_8IP9_013 | 1/aa/524:536 | No text annotation | geometric HL_4V88_199 NA | |
HL_8IP9_014 | 1/aa/573:578 | GNRA variation | homologous HL_8C3A_206 NA | |
HL_8IP9_016 | 1/aa/770:778 | No text annotation | homologous HL_8C3A_208 NA | |
HL_8IP9_017 | 1/aa/782:790 | No text annotation | geometric HL_7KI3_001 HL_75660.6 | |
HL_8IP9_019 | 1/aa/905:914 | No text annotation | homologous HL_8C3A_211 NA | |
HL_8IP9_020 | 1/aa/942:947 | GNRA | homologous HL_4V88_207 NA | |
HL_8IP9_021 | 1/aa/1002:1012 | No text annotation | homologous HL_4V88_208 NA | |
HL_8IP9_022 | 1/aa/1062:1068 | GNRA | geometric HL_6AZ4_001 NA | |
HL_8IP9_023 | 1/aa/1089:1094 | GNRA | homologous HL_8C3A_215 NA | |
HL_8IP9_024 | 1/aa/1126:1131 | GNRA | homologous HL_8C3A_216 NA | |
HL_8IP9_025 | 1/aa/1192:1201 | No text annotation | homologous HL_4V88_212 NA | |
HL_8IP9_026 | 1/aa/1242:1251 | Anticodon loop related | homologous HL_8C3A_218 NA | |
HL_8IP9_027 | 1/aa/1300:1305 | GNRA | homologous HL_8C3A_219 NA | |
HL_8IP9_028 | 1/aa/1313:1320 | No text annotation | homologous HL_4V88_215 NA | |
HL_8IP9_029 | 1/aa/1363:1370 | No text annotation | geometric HL_2ZNI_001 HL_75660.6 | |
HL_8IP9_030 | 1/aa/1402:1408 | GNRA | homologous HL_4V88_217 NA | |
HL_8IP9_031 | 1/aa/1509:1514 | GNRA | homologous HL_8C3A_223 NA | |
HL_8IP9_032 | 1/aa/1558:1569 | No text annotation | homologous HL_8C3A_224 NA | |
HL_8IP9_033 | 1/aa/1602:1610 | No text annotation | homologous HL_8C3A_225 NA | |
HL_8IP9_035 | 1/aa/1788:1793 | GNRA variation | homologous HL_8C3A_227 NA | |
HL_8IP9_036 | 1/cl/13:22 | No text annotation | homologous HL_6PMO_003 NA | |
HL_8IP9_037 | 1/cl/31:39 | tRNA anticodon loop | homologous HL_6CFJ_107 HL_81376.1 |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_8IP9_004 | No text annotation | ||
HL_8IP9_006 | Externally structured | ||
HL_8IP9_012 | No text annotation | ||
HL_8IP9_015 | No text annotation | ||
HL_8IP9_018 | No text annotation | ||
HL_8IP9_039 | No text annotation | ||
HL_8IP9_034 | No text annotation | ||
HL_8IP9_038 | T-loop with 2 stacked bulged bases |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
IL_8IP9_001 | 1/aa/24:26, 1/aa/604:605 | Single bulged C | homologous IL_4V88_384 NA | |
IL_8IP9_002 | 1/aa/35:37, 1/aa/475:477 | Isolated non-canonical cWW pair | geometric IL_4V88_385 NA | |
IL_8IP9_003 | 1/aa/37:41, 1/aa/470:475 | Triple sheared related | homologous IL_8C3A_394 NA | |
IL_8IP9_004 | 1/aa/42:48, 1/aa/435:437 | No text annotation | homologous IL_8C3A_395 NA | |
IL_8IP9_005 | 1/aa/50:52, 1/aa/432:433 | Minor groove platform | homologous IL_4V88_388 NA | |
IL_8IP9_006 | 1/aa/58:63, 1/aa/88:90 | No text annotation | homologous IL_4V88_389 NA | |
IL_8IP9_007 | 1/aa/64:69, 1/aa/83:87 | No text annotation | ||
IL_8IP9_008 | 1/aa/110:113, 1/aa/306:309 | Tandem non-canonical cWW pairs | homologous IL_4V88_391 NA | |
IL_8IP9_009 | 1/aa/114:117, 1/aa/304:305 | Multiple bulged bases | homologous IL_8C3A_400 NA | |
IL_8IP9_010 | 1/aa/118:123, 1/aa/299:303 | No text annotation | homologous IL_4V88_393 NA | |
IL_8IP9_011 | 1/aa/141:147, 1/aa/163:170 | No text annotation | homologous IL_8C3A_402 NA | |
IL_8IP9_012 | 1/aa/147:150, 1/aa/160:163 | Tandem non-canonical cWW pairs | geometric IL_1MFQ_004 IL_15225.1 | |
IL_8IP9_013 | 1/aa/183:184, 1/aa/197:199 | Single stack bend | geometric IL_4V9F_005 IL_15011.1 | |
IL_8IP9_014 | 1/aa/184:187, 1/aa/194:197 | Double sheared | geometric IL_7A0S_081 IL_58355.1 | |
IL_8IP9_015 | 1/aa/201:202, 1/aa/264:266 | Minor groove platform | geometric IL_7RQB_028 NA | |
IL_8IP9_016 | 1/aa/202:203, 1/aa/262:264 | Single bulged C | geometric IL_1S03_002 IL_05642.1 | |
IL_8IP9_017 | 1/aa/203:205, 1/aa/260:262 | Isolated non-canonical cWW pair | geometric IL_3U4M_001 IL_71625.1 | |
IL_8IP9_019 | 1/aa/268:270, 1/aa/292:293 | Single bulged A | homologous IL_4V88_399 NA | |
IL_8IP9_097 | 1/aa/273:276, 1/aa/287:289 | No text annotation | homologous IL_8P9A_389 IL_15698.4 | |
IL_8IP9_021 | 1/aa/315:320, 1/aa/352:359 | Kink-turn with non-sequential stacking | homologous IL_8C3A_410 NA | |
IL_8IP9_022 | 1/aa/322:327, 1/aa/349:350 | No text annotation | homologous IL_8C3A_411 NA | |
IL_8IP9_023 | 1/aa/367:369, 1/aa/380:385 | No text annotation | homologous IL_8P9A_393 IL_93336.1 | |
IL_8IP9_024 | 1/aa/393:395, 1/aa/410:412 | Isolated cWH basepair | homologous IL_8C3A_413 NA | |
IL_8IP9_025 | 1/aa/415:417, 1/aa/424:426 | Isolated non-canonical cWW pair | homologous IL_8C3A_414 NA | |
IL_8IP9_026 | 1/aa/443:445, 1/aa/467:468 | Single bulged U | homologous IL_4V88_407 NA | |
IL_8IP9_027 | 1/aa/447:451, 1/aa/464:465 | C-loop | homologous IL_8C3A_416 NA | |
IL_8IP9_028 | 1/aa/451:452, 1/aa/462:464 | Single bulged G | geometric IL_5J7L_019 NA | |
IL_8IP9_029 | 1/aa/484:489, 1/aa/507:512 | No text annotation | ||
IL_8IP9_098 | 1/aa/484:491, 1/aa/503:512 | No text annotation | ||
IL_8IP9_031 | 1/aa/521:522, 1/aa/537:539 | Minor groove platform | geometric IL_4V88_388 NA | |
IL_8IP9_032 | 1/aa/522:524, 1/aa/536:537 | Minor groove platform | homologous IL_4V88_412 NA | |
IL_8IP9_033 | 1/aa/554:561, 1/aa/591:592 | SSU/LSU pseudoknot | homologous IL_8C3A_423 NA | |
IL_8IP9_034 | 1/aa/561:563, 1/aa/590:591 | Single bulged U | geometric IL_2OIU_003 IL_97561.1 | |
IL_8IP9_035 | 1/aa/566:572, 1/aa/579:587 | Kink-turn related | homologous IL_8C3A_425 NA | |
IL_8IP9_036 | 1/aa/618:620, 1/aa/1110:1112 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 NA | |
IL_8IP9_037 | 1/aa/620:626, 1/aa/1109:1110 | No text annotation | geometric IL_4LFB_022 IL_20847.1 | |
IL_8IP9_038 | 1/aa/628:630, 1/aa/978:980 | Isolated non-canonical cWW pair | homologous IL_8C3A_427 NA | |
IL_8IP9_039 | 1/aa/631:635, 1/aa/973:977 | tSH-tHW-tHS | homologous IL_8C3A_428 NA | |
IL_8IP9_041 | 1/aa/752:753, 1/aa/808:811 | Major groove minor groove platform; mini C-loop | homologous IL_8C3A_430 NA | |
IL_8IP9_042 | 1/aa/754:756, 1/aa/805:807 | Isolated non-canonical cWW pair | homologous IL_8C3A_431 NA | |
IL_8IP9_043 | 1/aa/757:765, 1/aa/797:804 | No text annotation | homologous IL_4V88_425 NA | |
IL_8IP9_099 | 1/aa/766:769, 1/aa/779:796 | No text annotation | ||
IL_8IP9_046 | 1/aa/870:871, 1/aa/967:970 | Major groove platform; stack outside cWW | homologous IL_4V88_428 NA | |
IL_8IP9_100 | 1/aa/873:874, 1/aa/963:965 | Single bulged U | geometric IL_3NDB_005 NA | |
IL_8IP9_048 | 1/aa/876:879, 1/aa/958:961 | Tandem non-canonical cWW pairs | geometric IL_4V88_430 NA | |
IL_8IP9_049 | 1/aa/879:883, 1/aa/955:958 | Tandem non-canonical cWW pairs | homologous IL_4V88_431 NA | |
IL_8IP9_050 | 1/aa/890:893, 1/aa/929:932 | Tandem non-canonical cWW pairs | homologous IL_8C3A_439 NA | |
IL_8IP9_101 | 1/aa/900:904, 1/aa/915:922 | Kink-turn | geometric IL_4V88_434 NA | |
IL_8IP9_052 | 1/aa/990:995, 1/aa/1019:1021 | No text annotation | homologous IL_8C3A_441 NA | |
IL_8IP9_053 | 1/aa/995:999, 1/aa/1015:1019 | tSH-tHW-tHS | geometric IL_4V88_436 NA | |
IL_8IP9_054 | 1/aa/1039:1041, 1/aa/1100:1106 | No text annotation | homologous IL_4V88_437 NA | |
IL_8IP9_055 | 1/aa/1046:1049, 1/aa/1079:1082 | Tandem non-canonical cWW pairs | homologous IL_8C3A_444 NA | |
IL_8IP9_056 | 1/aa/1056:1058, 1/aa/1071:1072 | Single stack bend | geometric IL_4V9F_081 IL_15011.1 | |
IL_8IP9_057 | 1/aa/1060:1062, 1/aa/1068:1069 | No text annotation | ||
IL_8IP9_058 | 1/aa/1116:1123, 1/aa/1134:1139 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4V88_440 NA | |
IL_8IP9_059 | 1/aa/1151:1152, 1/aa/1638:1640 | Single bulged A | homologous IL_8C3A_447 NA | |
IL_8IP9_060 | 1/aa/1154:1156, 1/aa/1635:1636 | Single bulged G | homologous IL_8C3A_448 NA | |
IL_8IP9_061 | 1/aa/1162:1165, 1/aa/1625:1629 | C-loop | homologous IL_8C3A_449 NA | |
IL_8IP9_062 | 1/aa/1178:1180, 1/aa/1470:1472 | Isolated non-canonical cWW pair | homologous IL_4V88_444 NA | |
IL_8IP9_063 | 1/aa/1183:1185, 1/aa/1464:1467 | No text annotation | ||
IL_8IP9_064 | 1/aa/1217:1219, 1/aa/1454:1456 | Isolated non-canonical cWW pair | homologous IL_8C3A_452 NA | |
IL_8IP9_065 | 1/aa/1228:1234, 1/aa/1261:1263 | No text annotation | ||
IL_8IP9_102 | 1/aa/1228:1237, 1/aa/1256:1263 | Kink-turn | geometric IL_4V88_447 NA | |
IL_8IP9_066 | 1/aa/1234:1237, 1/aa/1256:1261 | No text annotation | ||
IL_8IP9_103 | 1/aa/1237:1240, 1/aa/1253:1256 | No text annotation | ||
IL_8IP9_068 | 1/aa/1272:1274, 1/aa/1446:1447 | Single bulged U | homologous IL_8C3A_455 NA | |
IL_8IP9_069 | 1/aa/1276:1280, 1/aa/1442:1444 | No text annotation | homologous IL_8C3A_456 NA | |
IL_8IP9_104 | 1/aa/1276:1281, 1/aa/1440:1444 | No text annotation | geometric IL_6CZR_365 NA | |
IL_8IP9_105 | 1/aa/1276:1282, 1/aa/1436:1444 | No text annotation | geometric IL_4V88_510 NA | |
IL_8IP9_106 | 1/aa/1280:1281, 1/aa/1440:1442 | No text annotation | ||
IL_8IP9_107 | 1/aa/1281:1282, 1/aa/1436:1440 | Minor groove platform | geometric IL_4LFB_045 IL_24264.1 | |
IL_8IP9_071 | 1/aa/1284:1285, 1/aa/1432:1434 | Single bulged A | homologous IL_8C3A_458 NA | |
IL_8IP9_072 | 1/aa/1293:1296, 1/aa/1327:1330 | Tandem non-canonical cWW pairs | geometric IL_4EYA_008 IL_15225.1 | |
IL_8IP9_073 | 1/aa/1310:1312, 1/aa/1321:1322 | Minor groove platform | homologous IL_8C3A_460 NA | |
IL_8IP9_074 | 1/aa/1343:1346, 1/aa/1389:1391 | Isolated non-canonical cWW pair | homologous IL_4V88_455 NA | |
IL_8IP9_075 | 1/aa/1349:1352, 1/aa/1383:1386 | Minor groove platform | homologous IL_4V88_456 NA | |
IL_8IP9_108 | 1/aa/1353:1357, 1/aa/1376:1382 | Partly complementary | geometric IL_6CZR_167 NA | |
IL_8IP9_077 | 1/aa/1395:1398, 1/aa/1412:1418 | No text annotation | geometric IL_5J7L_053 NA | |
IL_8IP9_078 | 1/aa/1483:1485, 1/aa/1536:1538 | Isolated non-canonical cWW pair | geometric IL_4KYY_003 NA | |
IL_8IP9_109 | 1/aa/1485:1493, 1/aa/1527:1536 | No text annotation | ||
IL_8IP9_079 | 1/aa/1494:1502, 1/aa/1521:1526 | No text annotation | ||
IL_8IP9_080 | 1/aa/1504:1506, 1/aa/1517:1519 | Isolated non-canonical cWW pair | homologous IL_8C3A_468 NA | |
IL_8IP9_081 | 1/aa/1548:1553, 1/aa/1574:1579 | No text annotation | homologous IL_4V88_462 NA | |
IL_8IP9_082 | 1/aa/1644:1646, 1/aa/1774:1777 | No text annotation | geometric IL_5J7L_058 NA | |
IL_8IP9_083 | 1/aa/1646:1649, 1/aa/1770:1774 | No text annotation | homologous IL_4V88_464 NA | |
IL_8IP9_084 | 1/aa/1650:1652, 1/aa/1767:1769 | Isolated non-canonical cWW pair | geometric IL_3GM7_003 IL_01003.1 | |
IL_8IP9_085 | 1/aa/1652:1654, 1/aa/1764:1767 | Isolated non-canonical cWW pair | geometric IL_5J7L_009 NA | |
IL_8IP9_086 | 1/aa/1655:1657, 1/aa/1761:1763 | Isolated non-canonical cWW pair | geometric IL_3SZX_003 IL_01003.1 | |
IL_8IP9_087 | 1/aa/1658:1660, 1/aa/1758:1760 | Isolated non-canonical cWW pair | homologous IL_8C3A_474 NA | |
IL_8IP9_088 | 1/aa/1661:1664, 1/aa/1754:1757 | Double sheared | geometric IL_4LFB_060 IL_58355.1 | |
IL_8IP9_090 | 1/aa/1672:1675, 1/aa/1744:1747 | Tandem non-canonical cWW pairs | geometric IL_4K27_001 NA | |
IL_8IP9_091 | 1/aa/1677:1680, 1/aa/1739:1742 | Double sheared | homologous IL_8C3A_478 NA | |
IL_8IP9_092 | 1/aa/1683:1686, 1/aa/1733:1736 | Tandem non-canonical cWW pairs | homologous IL_8C3A_479 NA | |
IL_8IP9_093 | 1/aa/1686:1690, 1/aa/1729:1733 | Triple sheared | geometric IL_7RQB_075 NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_8IP9_096 | No text annotation | ||
IL_8IP9_018 | No text annotation | ||
IL_8IP9_020 | No text annotation | ||
IL_8IP9_030 | No text annotation | ||
IL_8IP9_040 | Isolated non-canonical cWW pair | ||
IL_8IP9_044 | No text annotation | ||
IL_8IP9_045 | No text annotation | ||
IL_8IP9_047 | No text annotation | ||
IL_8IP9_051 | Kink-turn | ||
IL_8IP9_067 | No text annotation | ||
IL_8IP9_070 | Minor groove platform with extra cWW | ||
IL_8IP9_076 | No text annotation | ||
IL_8IP9_089 | Single bulged U | ||
IL_8IP9_094 | No text annotation | ||
IL_8IP9_095 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
J3_8IP9_010 | 1/aa/41:42, 1/aa/437:443, 1/aa/468:470 | No text annotation | geometric J3_4V88_078 NA | |
J3_8IP9_011 | 1/aa/41:48, 1/aa/435:443, 1/aa/468:470 | No text annotation | homologous J3_8P9A_069 J3_63856.1 | |
J3_8IP9_012 | 1/aa/637:640, 1/aa/865:870, 1/aa/970:971 | No text annotation | ||
J3_8IP9_013 | 1/aa/637:640, 1/aa/865:871, 1/aa/967:971 | No text annotation | ||
J3_8IP9_001 | 1/aa/886:889, 1/aa/933:941, 1/aa/948:952 | No text annotation | homologous J3_4V88_033 NA | |
J3_8IP9_002 | 1/aa/1042:1044, 1/aa/1084:1088, 1/aa/1095:1099 | No text annotation | homologous J3_4V88_034 NA | |
J3_8IP9_003 | 1/aa/1166:1169, 1/aa/1589:1595, 1/aa/1617:1624 | No text annotation | homologous J3_4V88_035 NA | |
J3_8IP9_004 | 1/aa/1173:1176, 1/aa/1474:1476, 1/aa/1582:1585 | No text annotation | homologous J3_8C3A_039 NA | |
J3_8IP9_005 | 1/aa/1185:1191, 1/aa/1202:1213, 1/aa/1460:1464 | No text annotation | ||
J3_8IP9_006 | 1/aa/1219:1224, 1/aa/1267:1271, 1/aa/1448:1454 | No text annotation | homologous J3_4V88_038 NA | |
J3_8IP9_007 | 1/aa/1287:1292, 1/aa/1331:1336, 1/aa/1425:1430 | No text annotation | homologous J3_8P9A_080 J3_17077.1 | |
J3_8IP9_014 | 1/aa/1297:1298, 1/aa/1307:1310, 1/aa/1322:1326 | No text annotation | homologous J3_8C3A_085 NA | |
J3_8IP9_008 | 1/aa/1340:1342, 1/aa/1392:1395, 1/aa/1418:1421 | No text annotation | homologous J3_4V88_040 NA | |
J3_8IP9_015 | 1/aa/1340:1342, 1/aa/1392:1398, 1/aa/1412:1421 | No text annotation | ||
J3_8IP9_009 | 1/aa/1476:1480, 1/aa/1541:1548, 1/aa/1579:1582 | No text annotation | homologous J3_8C3A_044 NA | |
J4_8IP9_001 | 1/aa/100:108, 1/aa/311:313, 1/aa/361:365, 1/aa/387:388 | No text annotation | homologous J4_8P9A_021 J4_15241.2 | |
J4_8IP9_002 | 1/aa/626:628, 1/aa/980:985, 1/aa/1026:1037, 1/aa/1108:1109 | No text annotation | homologous J4_8C3A_022 NA | |
J4_8IP9_003 | 1/cl/7:10, 1/cl/25:27, 1/cl/43:49, 1/cl/65:66 | tRNA junction | homologous J4_5AXM_001 J4_58311.1 | |
J5_8IP9_001 | 1/aa/31:35, 1/aa/477:483, 1/aa/513:520, 1/aa/540:550, 1/aa/596:599 | No text annotation | ||
J5_8IP9_002 | 1/aa/54:57, 1/aa/91:98, 1/aa/390:392, 1/aa/413:415, 1/aa/426:430 | No text annotation | homologous J5_8C3A_020 NA | |
J5_8IP9_003 | 1/aa/127:141, 1/aa/170:184, 1/aa/197:201, 1/aa/266:268, 1/aa/293:295 | No text annotation | ||
J5_8IP9_004 | 1/aa/127:141, 1/aa/170:184, 1/aa/197:201, 1/aa/266:270, 1/aa/292:295 | No text annotation |
Problematic loops
No problematic loops
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