9HA4 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9HA4_001 | 1/A/59:68 | No text annotation | homologous HL_5J7L_134 HL_35677.3 | |
| HL_9HA4_002 | 1/A/87:95 | No text annotation | homologous HL_5J7L_135 HL_80241.1 | |
| HL_9HA4_003 | 1/A/123:128 | No text annotation | homologous HL_5J7L_136 HL_82710.2 | |
| HL_9HA4_004 | 1/A/136:143 | No text annotation | geometric HL_7KI3_001 HL_75660.5 | |
| HL_9HA4_005 | 1/A/158:168 | No text annotation | homologous HL_5J7L_138 HL_68257.1 | |
| HL_9HA4_006 | 1/A/194:201 | No text annotation | homologous HL_9DFE_005 HL_30068.2 | |
| HL_9HA4_007 | 1/A/225:230 | No text annotation | homologous HL_5J7L_140 HL_62934.1 | |
| HL_9HA4_008 | 1/A/246:252 | No text annotation | homologous HL_4WF9_008 HL_37369.2 | |
| HL_9HA4_009 | 1/A/305:312 | T-loop with 2 stacked bulged bases | homologous HL_4WF9_010 HL_01609.3 | |
| HL_9HA4_010 | 1/A/319:323 | No text annotation | homologous HL_7A0S_011 HL_75660.5 | |
| HL_9HA4_011 | 1/A/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 HL_27670.2 | |
| HL_9HA4_012 | 1/A/381:394 | No text annotation | ||
| HL_9HA4_013 | 1/A/410:417 | Pseudoknot geometry | homologous HL_7A0S_014 HL_30680.3 | |
| HL_9HA4_014 | 1/A/462:467 | GNRA | homologous HL_4WF9_015 HL_37824.7 | |
| HL_9HA4_015 | 1/A/487:493 | GNRA | homologous HL_9DFE_015 HL_37824.7 | |
| HL_9HA4_016 | 1/A/543:550 | No text annotation | ||
| HL_9HA4_017 | 1/A/566:575 | T-loop with 2 stacked bulged bases | homologous HL_9DFE_016 HL_28252.8 | |
| HL_9HA4_018 | 1/A/611:617 | No text annotation | homologous HL_5J7L_151 HL_80922.2 | |
| HL_9HA4_019 | 1/A/630:634 | No text annotation | ||
| HL_9HA4_020 | 1/A/641:647 | GNRA | homologous HL_4WF9_021 HL_37824.7 | |
| HL_9HA4_021 | 1/A/826:831 | No text annotation | geometric HL_6DTD_001 HL_48417.5 | |
| HL_9HA4_022 | 1/A/955:962 | GNRA | homologous HL_4WF9_027 HL_37824.7 | |
| HL_9HA4_023 | 1/A/978:985 | No text annotation | homologous HL_9DFE_026 HL_42998.2 | |
| HL_9HA4_024 | 1/A/1172:1177 | Externally structured | geometric HL_8C3A_022 NA | |
| HL_9HA4_025 | 1/A/1222:1227 | GNRA | homologous HL_7A0S_031 HL_37824.7 | |
| HL_9HA4_026 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 HL_28252.8 | |
| HL_9HA4_027 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 HL_57176.2 | |
| HL_9HA4_028 | 1/A/1363:1368 | GNRA | homologous HL_5J7L_167 HL_37824.7 | |
| HL_9HA4_029 | 1/A/1389:1398 | No text annotation | homologous HL_7A0S_035 HL_81545.2 | |
| HL_9HA4_030 | 1/A/1451:1459 | Mini UNCG with extended bulge | homologous HL_5J7L_169 HL_22622.1 | |
| HL_9HA4_031 | 1/A/1492:1498 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 HL_57176.2 | |
| HL_9HA4_032 | 1/A/1533:1538 | UNCG | homologous HL_5J7L_171 HL_34617.5 | |
| HL_9HA4_033 | 1/A/1565:1568 | Mini UNCG | homologous HL_5J7L_172 HL_48778.2 | |
| HL_9HA4_034 | 1/A/1612:1619 | No text annotation | homologous HL_5J7L_173 HL_89567.2 | |
| HL_9HA4_035 | 1/A/1630:1636 | GNRA | homologous HL_5J7L_174 HL_37824.7 | |
| HL_9HA4_036 | 1/A/1728:1731 | Mini UNCG | geometric HL_8C3A_072 NA | |
| HL_9HA4_037 | 1/A/1752:1756 | No text annotation | homologous HL_5J7L_177 HL_80709.3 | |
| HL_9HA4_038 | 1/A/2027:2036 | No text annotation | homologous HL_5J7L_183 HL_61996.2 | |
| HL_9HA4_039 | 1/A/2264:2276 | No text annotation | homologous HL_7A0S_053 HL_91939.2 | |
| HL_9HA4_040 | 1/A/2303:2313 | No text annotation | homologous HL_9DFE_053 NA | |
| HL_9HA4_041 | 1/A/2324:2331 | Pseudoknot geometry | homologous HL_9DFE_054 HL_93324.4 | |
| HL_9HA4_042 | 1/A/2356:2361 | GNRA | homologous HL_5J7L_190 HL_37824.7 | |
| HL_9HA4_043 | 1/A/2374:2379 | GNRA | homologous HL_4WF9_054 HL_37824.7 | |
| HL_9HA4_044 | 1/A/2404:2413 | No text annotation | homologous HL_5J7L_192 HL_53454.2 | |
| HL_9HA4_045 | 1/A/2658:2663 | GNRA | homologous HL_5J7L_197 HL_37824.7 | |
| HL_9HA4_046 | 1/A/2700:2707 | No text annotation | geometric HL_5NFV_001 HL_69752.2 | |
| HL_9HA4_047 | 1/A/2745:2759 | No text annotation | ||
| HL_9HA4_048 | 1/A/2796:2799 | Mini UNCG | geometric HL_8C3A_072 NA | |
| HL_9HA4_049 | 1/A/2819:2827 | No text annotation | homologous HL_5J7L_201 HL_64690.6 | |
| HL_9HA4_050 | 1/A/2856:2861 | GNRA | homologous HL_7A0S_068 HL_37824.7 | |
| HL_9HA4_051 | 1/B/38:44 | No text annotation | homologous HL_9DFE_068 HL_47787.2 | |
| HL_9HA4_052 | 1/B/86:90 | Mini UNCG | homologous HL_5J7L_204 HL_48778.2 |
Problematic loops
No problematic loops
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9HA4_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | homologous IL_5J7L_245 IL_04021.2 | |
| IL_9HA4_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | homologous IL_5J7L_246 IL_31462.6 | |
| IL_9HA4_003 | 1/A/43:44, 1/A/434:436 | Minor groove platform | homologous IL_5J7L_247 IL_51454.3 | |
| IL_9HA4_004 | 1/A/82:85, 1/A/97:104 | No text annotation | ||
| IL_9HA4_005 | 1/A/183:184, 1/A/212:214 | Single stack bend | homologous IL_7A0S_005 IL_90729.1 | |
| IL_9HA4_006 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7A0S_006 IL_04346.10 | |
| IL_9HA4_007 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 IL_26307.2 | |
| IL_9HA4_008 | 1/A/269:271, 1/A/366:370 | No text annotation | homologous IL_5J7L_252 IL_47972.1 | |
| IL_9HA4_009 | 1/A/273:281, 1/A/359:364 | No text annotation | ||
| IL_9HA4_010 | 1/A/293:295, 1/A/343:347 | No text annotation | homologous IL_5J7L_254 IL_69440.3 | |
| IL_9HA4_011 | 1/A/379:381, 1/A/394:395 | Single stack bend | geometric IL_7A0S_054 IL_26793.1 | |
| IL_9HA4_012 | 1/A/481:484, 1/A/496:509 | No text annotation | homologous IL_5J7L_255 IL_81516.2 | |
| IL_9HA4_013 | 1/A/536:539, 1/A/554:557 | Double sheared | homologous IL_5J7L_256 IL_09705.15 | |
| IL_9HA4_014 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | homologous IL_4WF9_017 IL_07785.1 | |
| IL_9HA4_015 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 IL_66798.2 | |
| IL_9HA4_016 | 1/A/628:630, 1/A/634:635 | Single stack bend | geometric IL_4LFB_041 IL_90729.1 | |
| IL_9HA4_017 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | homologous IL_9DFE_015 IL_87907.2 | |
| IL_9HA4_018 | 1/A/674:678, 1/A/799:806 | No text annotation | ||
| IL_9HA4_019 | 1/A/844:847, 1/A/933:934 | Other IL | geometric IL_5J7L_267 IL_90729.1 | |
| IL_9HA4_020 | 1/A/844:848, 1/A/930:934 | No text annotation | homologous IL_5J7L_399 IL_96236.1 | |
| IL_9HA4_021 | 1/A/847:848, 1/A/930:933 | Stack outside cWW | homologous IL_5J7L_268 IL_56987.1 | |
| IL_9HA4_022 | 1/A/850:851, 1/A/926:928 | Single stack bend | homologous IL_5J7L_269 IL_26793.1 | |
| IL_9HA4_023 | 1/A/856:862, 1/A/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | homologous IL_5J7L_270 IL_29198.2 | |
| IL_9HA4_024 | 1/A/862:863, 1/A/913:915 | Single bulged G | homologous IL_5J7L_271 IL_00225.13 | |
| IL_9HA4_025 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | homologous IL_5J7L_276 IL_61258.15 | |
| IL_9HA4_026 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | homologous IL_5J7L_277 IL_38507.2 | |
| IL_9HA4_027 | 1/A/1004:1011, 1/A/1150:1151 | SSU/LSU pseudoknot | homologous IL_4WF9_037 IL_41203.4 | |
| IL_9HA4_028 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | homologous IL_5J7L_279 IL_89505.4 | |
| IL_9HA4_029 | 1/A/1018:1030, 1/A/1124:1144 | No text annotation | ||
| IL_9HA4_030 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | homologous IL_7A0S_041 IL_42997.3 | |
| IL_9HA4_031 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | homologous IL_5J7L_287 IL_91920.1 | |
| IL_9HA4_032 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | homologous IL_5J7L_288 IL_70923.9 | |
| IL_9HA4_033 | 1/A/1310:1313, 1/A/1603:1604 | Major groove platform; stack outside cWW | homologous IL_5J7L_290 IL_50694.7 | |
| IL_9HA4_034 | 1/A/1319:1323, 1/A/1331:1333 | Major groove minor groove platform with tHH | homologous IL_4WF9_050 IL_83150.2 | |
| IL_9HA4_035 | 1/A/1351:1353, 1/A/1379:1380 | No text annotation | ||
| IL_9HA4_036 | 1/A/1351:1355, 1/A/1376:1380 | UAA/GAN | geometric IL_7A0S_048 IL_89021.2 | |
| IL_9HA4_037 | 1/A/1353:1355, 1/A/1376:1379 | No text annotation | ||
| IL_9HA4_038 | 1/A/1357:1361, 1/A/1370:1374 | tSH-tHW-tHS | homologous IL_4WF9_052 IL_17136.7 | |
| IL_9HA4_039 | 1/A/1415:1417, 1/A/1581:1587 | No text annotation | ||
| IL_9HA4_040 | 1/A/1417:1422, 1/A/1577:1581 | No text annotation | ||
| IL_9HA4_041 | 1/A/1432:1435, 1/A/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 IL_58112.2 | |
| IL_9HA4_042 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | homologous IL_5J7L_297 IL_99646.2 | |
| IL_9HA4_043 | 1/A/1450:1451, 1/A/1459:1461 | Single bulged U | homologous IL_5J7L_298 IL_89505.4 | |
| IL_9HA4_044 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | homologous IL_5J7L_299 IL_68574.4 | |
| IL_9HA4_045 | 1/A/1474:1478, 1/A/1513:1517 | tSH-tHW-tHS | homologous IL_5J7L_300 IL_38862.4 | |
| IL_9HA4_046 | 1/A/1481:1482, 1/A/1507:1510 | 180 degree turn | homologous IL_5J7L_301 IL_00881.1 | |
| IL_9HA4_048 | 1/A/1489:1491, 1/A/1499:1500 | Single bulged A | geometric IL_4L8H_001 IL_31462.6 | |
| IL_9HA4_049 | 1/A/1526:1529, 1/A/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 IL_23774.1 | |
| IL_9HA4_050 | 1/A/1712:1718, 1/A/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 IL_88269.4 | |
| IL_9HA4_051 | 1/A/1720:1724, 1/A/1736:1740 | Triple sheared | homologous IL_5J7L_310 IL_50730.2 | |
| IL_9HA4_052 | 1/A/1727:1728, 1/A/1731:1733 | Single bulged C | homologous IL_5J7L_311 IL_61258.15 | |
| IL_9HA4_053 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | homologous IL_9DFE_078 IL_48076.6 | |
| IL_9HA4_054 | 1/A/2350:2353, 1/A/2364:2367 | Double sheared | homologous IL_9DFE_089 IL_09705.15 | |
| IL_9HA4_055 | 1/A/2401:2403, 1/A/2414:2415 | Single bulged U | geometric IL_7PMM_002 IL_89505.4 | |
| IL_9HA4_056 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | homologous IL_7A0S_093 IL_04638.3 | |
| IL_9HA4_057 | 1/A/2652:2658, 1/A/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_7A0S_094 IL_16458.4 | |
| IL_9HA4_058 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | homologous IL_5J7L_347 IL_63596.11 | |
| IL_9HA4_059 | 1/A/2687:2691, 1/A/2718:2722 | No text annotation | homologous IL_5J7L_348 IL_23774.1 | |
| IL_9HA4_060 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 IL_42626.2 | |
| IL_9HA4_061 | 1/A/2737:2742, 1/A/2762:2767 | UAA/GAN with extra cWW | homologous IL_7A0S_098 IL_49767.8 | |
| IL_9HA4_062 | 1/A/2795:2796, 1/A/2799:2801 | Single bulged A | geometric IL_8C3A_031 NA | |
| IL_9HA4_063 | 1/A/2806:2811, 1/A/2889:2892 | No text annotation | homologous IL_5J7L_351 IL_29471.1 | |
| IL_9HA4_064 | 1/A/2838:2839, 1/A/2878:2880 | Major groove intercalation | homologous IL_4WF9_106 IL_66635.5 | |
| IL_9HA4_065 | 1/A/2843:2846, 1/A/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 IL_64231.5 | |
| IL_9HA4_066 | 1/A/2847:2852, 1/A/2865:2869 | tHS double platform | homologous IL_5J7L_354 IL_70411.2 | |
| IL_9HA4_067 | 1/B/17:18, 1/B/65:67 | Major groove intercalation | homologous IL_4WF9_112 IL_31462.6 | |
| IL_9HA4_068 | 1/B/23:28, 1/B/56:60 | No text annotation | homologous IL_9DFE_111 IL_18472.4 | |
| IL_9HA4_069 | 1/B/30:31, 1/B/51:54 | No text annotation | ||
| IL_9HA4_070 | 1/B/34:38, 1/B/44:48 | Symmetric double minor groove platform | homologous IL_5J7L_358 IL_58103.11 | |
| IL_9HA4_071 | 1/B/71:79, 1/B/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 IL_56455.6 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9HA4_047 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9HA4_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | homologous J3_4WF9_010 J3_60031.2 | |
| J3_9HA4_002 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | homologous J3_5J7L_067 J3_30040.2 | |
| J3_9HA4_003 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | homologous J3_5J7L_037 J3_35667.2 | |
| J3_9HA4_004 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | homologous J3_5J7L_041 J3_32852.6 | |
| J3_9HA4_005 | 1/A/1306:1309, 1/A/1605:1612, 1/A/1619:1622 | No text annotation | ||
| J3_9HA4_006 | 1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403 | No text annotation | homologous J3_5J7L_043 J3_92705.1 | |
| J3_9HA4_007 | 1/A/1424:1429, 1/A/1564:1565, 1/A/1568:1575 | No text annotation | ||
| J3_9HA4_008 | 1/A/2282:2285, 1/A/2383:2395, 1/A/2421:2427 | No text annotation | homologous J3_4WF9_019 J3_39320.1 | |
| J3_9HA4_009 | 1/A/2295:2299, 1/A/2317:2323, 1/A/2332:2337 | No text annotation | homologous J3_5J7L_071 J3_44961.1 | |
| J3_9HA4_010 | 1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894 | No text annotation | homologous J3_5J7L_047 J3_30104.1 | |
| J3_9HA4_011 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | homologous J3_5J7L_048 J3_64069.1 | |
| J3_9HA4_012 | 1/B/10:16, 1/B/68:70, 1/B/106:110 | No text annotation | homologous J3_5J7L_049 J3_89095.1 | |
| J4_9HA4_001 | 1/A/268:269, 1/A/370:375, 1/A/399:406, 1/A/421:424 | No text annotation | homologous J4_5J7L_018 J4_45801.6 | |
| J4_9HA4_002 | 1/A/297:301, 1/A/316:319, 1/A/323:325, 1/A/337:341 | No text annotation | homologous J4_5J7L_019 J4_71729.5 | |
| J4_9HA4_003 | 1/A/601:604, 1/A/624:628, 1/A/635:638, 1/A/650:656 | No text annotation | homologous J4_5J7L_020 J4_60168.1 | |
| J4_9HA4_004 | 1/A/1262:1276, 1/A/1294:1295, 1/A/1645:1648, 1/A/2009:2017 | No text annotation | ||
| J4_9HA4_005 | 1/A/1313:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1603 | No text annotation | homologous J4_5J7L_023 J4_10313.5 | |
| J4_9HA4_006 | 1/A/1444:1445, 1/A/1466:1467, 1/A/1525:1526, 1/A/1546:1547 | No text annotation | homologous J4_5J7L_024 J4_24280.2 | |
| J4_9HA4_007 | 1/A/2285:2289, 1/A/2343:2347, 1/A/2370:2372, 1/A/2381:2383 | No text annotation | homologous J4_9DFE_009 J4_04930.6 | |
| J4_9HA4_008 | 1/A/2643:2646, 1/A/2674:2676, 1/A/2731:2735, 1/A/2769:2771 | No text annotation | homologous J4_5J7L_028 J4_77044.4 | |
| J5_9HA4_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_9HA4_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 J5_43153.5 | |
| J5_9HA4_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 J5_74302.5 | |
| J6_9HA4_001 | 1/A/45:46, 1/A/179:183, 1/A/214:225, 1/A/230:235, 1/A/262:266, 1/A/426:433 | No text annotation | ||
| J7_9HA4_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_9HA4_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
Coloring options: