9HAI Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9HAI_001 | 1/A/59:68 | No text annotation | homologous HL_5J7L_134 NA | |
| HL_9HAI_002 | 1/A/87:95 | No text annotation | homologous HL_5J7L_135 NA | |
| HL_9HAI_003 | 1/A/123:128 | No text annotation | homologous HL_5J7L_136 NA | |
| HL_9HAI_004 | 1/A/137:142 | No text annotation | ||
| HL_9HAI_005 | 1/A/158:168 | No text annotation | homologous HL_5J7L_138 NA | |
| HL_9HAI_006 | 1/A/225:230 | No text annotation | homologous HL_5J7L_140 NA | |
| HL_9HAI_007 | 1/A/246:252 | No text annotation | homologous HL_4WF9_008 HL_76371.2 | |
| HL_9HAI_008 | 1/A/305:312 | T-loop with 2 stacked bulged bases | homologous HL_4WF9_010 HL_13999.3 | |
| HL_9HAI_009 | 1/A/319:323 | No text annotation | geometric HL_8C3A_006 NA | |
| HL_9HAI_010 | 1/A/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_9HAI_011 | 1/A/381:394 | No text annotation | ||
| HL_9HAI_012 | 1/A/410:417 | Pseudoknot geometry | homologous HL_7A0S_014 HL_30680.5 | |
| HL_9HAI_013 | 1/A/462:467 | GNRA | homologous HL_4WF9_015 HL_34789.3 | |
| HL_9HAI_014 | 1/A/487:493 | GNRA | homologous HL_9DFE_015 HL_34789.3 | |
| HL_9HAI_015 | 1/A/543:550 | No text annotation | homologous HL_5J7L_149 NA | |
| HL_9HAI_016 | 1/A/566:575 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_150 NA | |
| HL_9HAI_017 | 1/A/611:617 | No text annotation | homologous HL_5J7L_151 NA | |
| HL_9HAI_018 | 1/A/629:634 | GNRA | homologous HL_5J7L_152 NA | |
| HL_9HAI_022 | 1/A/978:985 | No text annotation | homologous HL_9DFE_026 HL_47171.1 | |
| HL_9HAI_024 | 1/A/1222:1227 | GNRA | homologous HL_5J7L_164 NA | |
| HL_9HAI_025 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 NA | |
| HL_9HAI_026 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_9HAI_027 | 1/A/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_9HAI_028 | 1/A/1389:1398 | No text annotation | homologous HL_5J7L_168 NA | |
| HL_9HAI_029 | 1/A/1451:1459 | Mini UNCG with extended bulge | homologous HL_5J7L_169 NA | |
| HL_9HAI_030 | 1/A/1492:1498 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 NA | |
| HL_9HAI_032 | 1/A/1565:1568 | Mini UNCG | homologous HL_5J7L_172 NA | |
| HL_9HAI_033 | 1/A/1612:1619 | No text annotation | homologous HL_4WF9_038 HL_28592.2 | |
| HL_9HAI_034 | 1/A/1630:1636 | GNRA | homologous HL_5J7L_174 NA | |
| HL_9HAI_035 | 1/A/1727:1733 | No text annotation | homologous HL_5J7L_214 NA | |
| HL_9HAI_036 | 1/A/1752:1756 | No text annotation | homologous HL_5J7L_177 NA | |
| HL_9HAI_037 | 1/A/2027:2036 | No text annotation | homologous HL_5J7L_183 NA | |
| HL_9HAI_039 | 1/A/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_9HAI_042 | 1/A/2819:2827 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_9HAI_043 | 1/A/2856:2861 | GNRA | homologous HL_7A0S_068 HL_34789.3 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9HAI_019 | GNRA | ||
| HL_9HAI_020 | No text annotation | ||
| HL_9HAI_021 | GNRA | ||
| HL_9HAI_023 | No text annotation | ||
| HL_9HAI_031 | UNCG | ||
| HL_9HAI_038 | GNRA | ||
| HL_9HAI_040 | No text annotation | ||
| HL_9HAI_041 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9HAI_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | homologous IL_5J7L_245 NA | |
| IL_9HAI_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | homologous IL_7A0S_002 IL_14190.2 | |
| IL_9HAI_003 | 1/A/43:44, 1/A/434:436 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_9HAI_004 | 1/A/82:85, 1/A/97:104 | Kink-turn | geometric IL_1U63_003 IL_24134.1 | |
| IL_9HAI_005 | 1/A/183:184, 1/A/212:214 | Single stack bend | homologous IL_7A0S_005 IL_15011.2 | |
| IL_9HAI_006 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7A0S_006 IL_62167.3 | |
| IL_9HAI_007 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_9HAI_008 | 1/A/269:271, 1/A/366:370 | No text annotation | homologous IL_5J7L_252 NA | |
| IL_9HAI_010 | 1/A/293:295, 1/A/343:347 | No text annotation | homologous IL_5J7L_254 NA | |
| IL_9HAI_011 | 1/A/378:381, 1/A/394:396 | No text annotation | ||
| IL_9HAI_012 | 1/A/481:484, 1/A/496:509 | No text annotation | homologous IL_5J7L_255 NA | |
| IL_9HAI_013 | 1/A/536:539, 1/A/554:557 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_9HAI_014 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | homologous IL_4WF9_017 IL_71625.2 | |
| IL_9HAI_015 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_9HAI_016 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | homologous IL_7A0S_014 IL_01003.3 | |
| IL_9HAI_017 | 1/A/674:678, 1/A/799:806 | No text annotation | homologous IL_9DFE_016 IL_73855.1 | |
| IL_9HAI_018 | 1/A/844:847, 1/A/933:934 | 90 degree turn | geometric IL_5J7L_267 NA | |
| IL_9HAI_019 | 1/A/844:848, 1/A/930:934 | No text annotation | homologous IL_5J7L_399 NA | |
| IL_9HAI_020 | 1/A/847:848, 1/A/930:933 | Stack outside cWW | homologous IL_5J7L_268 NA | |
| IL_9HAI_021 | 1/A/850:851, 1/A/926:928 | Single stack bend | homologous IL_5J7L_269 NA | |
| IL_9HAI_022 | 1/A/856:862, 1/A/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | homologous IL_5J7L_270 NA | |
| IL_9HAI_024 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | homologous IL_4WF9_035 IL_05642.2 | |
| IL_9HAI_025 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | homologous IL_7A0S_033 IL_08938.1 | |
| IL_9HAI_026 | 1/A/1004:1011, 1/A/1150:1151 | SSU/LSU pseudoknot | homologous IL_5J7L_278 NA | |
| IL_9HAI_027 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | homologous IL_5J7L_279 NA | |
| IL_9HAI_028 | 1/A/1018:1024, 1/A/1140:1144 | Kink-turn related | homologous IL_4WF9_039 IL_57188.6 | |
| IL_9HAI_029 | 1/A/1024:1030, 1/A/1124:1140 | No text annotation | ||
| IL_9HAI_030 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | homologous IL_7A0S_041 IL_42997.5 | |
| IL_9HAI_031 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | homologous IL_5J7L_287 NA | |
| IL_9HAI_032 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_9HAI_033 | 1/A/1262:1269, 1/A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_9HAI_034 | 1/A/1310:1313, 1/A/1603:1604 | Major groove platform; stack outside cWW | geometric IL_4V9F_008 IL_74641.2 | |
| IL_9HAI_035 | 1/A/1319:1323, 1/A/1331:1333 | Major groove minor groove platform with tHH | homologous IL_4WF9_050 IL_06671.1 | |
| IL_9HAI_036 | 1/A/1351:1355, 1/A/1376:1380 | UAA/GAN | homologous IL_7A0S_048 IL_89021.3 | |
| IL_9HAI_037 | 1/A/1357:1361, 1/A/1370:1374 | tSH-tHW-tHS | homologous IL_4WF9_052 IL_05821.1 | |
| IL_9HAI_038 | 1/A/1415:1416, 1/A/1582:1587 | No text annotation | homologous IL_5J7L_294 NA | |
| IL_9HAI_039 | 1/A/1417:1421, 1/A/1577:1581 | UAA/GAN | homologous IL_5J7L_295 NA | |
| IL_9HAI_040 | 1/A/1432:1435, 1/A/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 NA | |
| IL_9HAI_041 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | homologous IL_5J7L_297 NA | |
| IL_9HAI_042 | 1/A/1450:1451, 1/A/1459:1461 | Single bulged U | homologous IL_5J7L_298 NA | |
| IL_9HAI_043 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_9HAI_044 | 1/A/1474:1478, 1/A/1513:1517 | tSH-tHW-tHS | homologous IL_5J7L_300 NA | |
| IL_9HAI_045 | 1/A/1481:1482, 1/A/1507:1510 | 180 degree turn | homologous IL_5J7L_301 NA | |
| IL_9HAI_046 | 1/A/1489:1491, 1/A/1499:1500 | Single bulged A | homologous IL_5J7L_302 NA | |
| IL_9HAI_047 | 1/A/1526:1529, 1/A/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 NA | |
| IL_9HAI_048 | 1/A/1651:1656, 1/A/2004:2006 | No text annotation | homologous IL_7A0S_059 IL_12566.5 | |
| IL_9HAI_049 | 1/A/1663:1665, 1/A/1995:1997 | Isolated tWW turn | homologous IL_4WF9_063 IL_10432.1 | |
| IL_9HAI_050 | 1/A/1666:1669, 1/A/1993:1994 | Major groove platform; stack outside cWW | geometric IL_8C3A_082 NA | |
| IL_9HAI_051 | 1/A/1666:1674, 1/A/1990:1994 | No text annotation | geometric IL_8C3A_484 NA | |
| IL_9HAI_052 | 1/A/1669:1674, 1/A/1990:1993 | Intercalated tWH | homologous IL_4WF9_065 IL_28217.1 | |
| IL_9HAI_053 | 1/A/1712:1718, 1/A/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 NA | |
| IL_9HAI_054 | 1/A/1720:1724, 1/A/1736:1740 | Triple sheared | homologous IL_5J7L_310 NA | |
| IL_9HAI_055 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_9HAI_056 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | homologous IL_7A0S_093 IL_04638.4 | |
| IL_9HAI_057 | 1/A/2642:2644, 1/A/2771:2772 | Single stack bend | geometric IL_5J7L_391 NA | |
| IL_9HAI_059 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | homologous IL_5J7L_347 NA | |
| IL_9HAI_060 | 1/A/2687:2691, 1/A/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_9HAI_061 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 NA | |
| IL_9HAI_062 | 1/A/2737:2742, 1/A/2762:2767 | UAA/GAN with extra cWW | homologous IL_9DFE_106 IL_91079.1 | |
| IL_9HAI_063 | 1/A/2795:2796, 1/A/2799:2801 | Single bulged A | geometric IL_8C3A_031 NA | |
| IL_9HAI_064 | 1/A/2806:2811, 1/A/2889:2892 | No text annotation | homologous IL_5J7L_351 NA | |
| IL_9HAI_065 | 1/A/2838:2839, 1/A/2878:2880 | Major groove intercalation | homologous IL_4WF9_106 IL_77710.1 | |
| IL_9HAI_066 | 1/A/2843:2846, 1/A/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_9HAI_067 | 1/A/2847:2852, 1/A/2865:2869 | tHS double platform | homologous IL_5J7L_354 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9HAI_009 | No text annotation | ||
| IL_9HAI_023 | Single bulged G | ||
| IL_9HAI_058 | Sarcin-Ricin target in LSU H95; G-bulge |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9HAI_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | homologous J3_4WF9_010 J3_68715.1 | |
| J3_9HAI_002 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_9HAI_003 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | homologous J3_5J7L_037 NA | |
| J3_9HAI_004 | 1/A/297:301, 1/A/316:325, 1/A/337:341 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_9HAI_005 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_9HAI_006 | 1/A/1306:1309, 1/A/1605:1611, 1/A/1620:1622 | No text annotation | homologous J3_7A0S_007 J3_47341.1 | |
| J3_9HAI_007 | 1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403 | No text annotation | homologous J3_5J7L_043 NA | |
| J3_9HAI_008 | 1/A/1424:1429, 1/A/1564:1565, 1/A/1568:1574 | No text annotation | homologous J3_7A0S_019 J3_34864.3 | |
| J3_9HAI_009 | 1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894 | No text annotation | homologous J3_5J7L_047 NA | |
| J3_9HAI_010 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J4_9HAI_001 | 1/A/268:269, 1/A/370:375, 1/A/399:406, 1/A/421:424 | No text annotation | homologous J4_5J7L_018 NA | |
| J4_9HAI_002 | 1/A/297:301, 1/A/316:319, 1/A/323:325, 1/A/337:341 | No text annotation | homologous J4_5J7L_019 NA | |
| J4_9HAI_003 | 1/A/601:604, 1/A/624:628, 1/A/635:638, 1/A/650:656 | No text annotation | homologous J4_5J7L_020 NA | |
| J4_9HAI_004 | 1/A/1270:1276, 1/A/1294:1295, 1/A/1645:1648, 1/A/2009:2010 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_9HAI_005 | 1/A/1310:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1604 | No text annotation | homologous J4_5J7L_022 NA | |
| J4_9HAI_006 | 1/A/1313:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1603 | No text annotation | homologous J4_5J7L_023 NA | |
| J4_9HAI_007 | 1/A/1444:1445, 1/A/1466:1467, 1/A/1525:1526, 1/A/1546:1547 | No text annotation | homologous J4_5J7L_024 NA | |
| J4_9HAI_008 | 1/A/2644:2646, 1/A/2674:2676, 1/A/2731:2735, 1/A/2769:2771 | No text annotation | ||
| J5_9HAI_001 | 1/A/47:54, 1/A/116:121, 1/A/130:131, 1/A/148:151, 1/A/175:178 | No text annotation | ||
| J5_9HAI_002 | 1/A/531:533, 1/A/560:564, 1/A/577:579, 1/A/1261:1262, 1/A/2017:2018 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_9HAI_003 | 1/A/584:589, 1/A/668:671, 1/A/809:812, 1/A/1195:1196, 1/A/1250:1256 | No text annotation | homologous J5_5J7L_015 NA | |
| J5_9HAI_004 | 1/A/1674:1682, 1/A/1706:1707, 1/A/1751:1752, 1/A/1756:1764, 1/A/1988:1990 | No text annotation | homologous J5_5J7L_016 NA | |
| J6_9HAI_001 | 1/A/45:46, 1/A/179:183, 1/A/214:224, 1/A/231:235, 1/A/262:266, 1/A/426:433 | No text annotation | ||
| J7_9HAI_001 | 1/A/8:15, 1/A/525:531, 1/A/2018:2023, 1/A/2040:2043, 1/A/2625:2630, 1/A/2788:2789, 1/A/2894:2895 | No text annotation | ||
| J7_9HAI_002 | 1/A/817:822, 1/A/835:838, 1/A/940:946, 1/A/971:976, 1/A/987:991, 1/A/1163:1164, 1/A/1185:1190 | No text annotation |
Problematic loops
No problematic loops
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