8C8Z Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8C8Z_001 | 1/A/59:68 | No text annotation | homologous HL_5J7L_134 NA | |
| HL_8C8Z_002 | 1/A/87:95 | No text annotation | homologous HL_5J7L_135 NA | |
| HL_8C8Z_003 | 1/A/123:128 | No text annotation | homologous HL_4WF9_003 HL_75660.6 | |
| HL_8C8Z_004 | 1/A/136:143 | No text annotation | geometric HL_7KI3_001 HL_75660.6 | |
| HL_8C8Z_005 | 1/A/158:168 | No text annotation | homologous HL_5J7L_138 NA | |
| HL_8C8Z_006 | 1/A/194:201 | No text annotation | homologous HL_9DFE_005 HL_48677.1 | |
| HL_8C8Z_007 | 1/A/225:230 | No text annotation | homologous HL_5J7L_140 NA | |
| HL_8C8Z_008 | 1/A/246:252 | No text annotation | homologous HL_4WF9_008 HL_76371.1 | |
| HL_8C8Z_009 | 1/A/305:312 | T-loop with 1 bulged base | homologous HL_7A0S_010 HL_13999.1 | |
| HL_8C8Z_010 | 1/A/319:323 | No text annotation | homologous HL_5J7L_143 NA | |
| HL_8C8Z_011 | 1/A/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_8C8Z_012 | 1/A/380:394 | No text annotation | geometric HL_7A0S_011 HL_75660.6 | |
| HL_8C8Z_014 | 1/A/462:467 | GNRA | homologous HL_4WF9_015 HL_34789.1 | |
| HL_8C8Z_015 | 1/A/487:493 | GNRA | homologous HL_5J7L_148 NA | |
| HL_8C8Z_017 | 1/A/566:575 | No text annotation | homologous HL_7RQB_018 NA | |
| HL_8C8Z_018 | 1/A/611:617 | No text annotation | homologous HL_5J7L_151 NA | |
| HL_8C8Z_019 | 1/A/629:634 | GNRA | homologous HL_5J7L_152 NA | |
| HL_8C8Z_020 | 1/A/641:647 | No text annotation | homologous HL_5J7L_153 NA | |
| HL_8C8Z_022 | 1/A/824:833 | No text annotation | ||
| HL_8C8Z_024 | 1/A/978:985 | No text annotation | homologous HL_7RQB_028 NA | |
| HL_8C8Z_026 | 1/A/1222:1227 | GNRA | homologous HL_5J7L_164 NA | |
| HL_8C8Z_027 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 NA | |
| HL_8C8Z_028 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_8C8Z_029 | 1/A/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_8C8Z_030 | 1/A/1389:1398 | No text annotation | homologous HL_5J7L_168 NA | |
| HL_8C8Z_031 | 1/A/1451:1459 | Mini UNCG with extended bulge | homologous HL_5J7L_169 NA | |
| HL_8C8Z_035 | 1/A/1612:1619 | No text annotation | homologous HL_4WF9_038 HL_28592.1 | |
| HL_8C8Z_036 | 1/A/1630:1636 | GNRA | homologous HL_5J7L_174 NA | |
| HL_8C8Z_038 | 1/A/1752:1756 | No text annotation | homologous HL_7RQB_044 NA | |
| HL_8C8Z_039 | 1/A/2027:2036 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_8C8Z_041 | 1/A/2209:2215 | No text annotation | ||
| HL_8C8Z_043 | 1/A/2264:2276 | No text annotation | homologous HL_5J7L_187 NA | |
| HL_8C8Z_045 | 1/A/2324:2331 | Pseudoknot geometry | homologous HL_7RQB_056 NA | |
| HL_8C8Z_047 | 1/A/2374:2379 | GNRA | homologous HL_7A0S_057 HL_34789.1 | |
| HL_8C8Z_048 | 1/A/2404:2413 | No text annotation | homologous HL_4WF9_055 HL_51853.1 | |
| HL_8C8Z_050 | 1/A/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_8C8Z_052 | 1/A/2796:2799 | Mini UNCG | geometric HL_4V88_192 NA | |
| HL_8C8Z_053 | 1/A/2819:2827 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_8C8Z_054 | 1/A/2856:2861 | GNRA | homologous HL_7A0S_068 HL_34789.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8C8Z_013 | Pseudoknot geometry | ||
| HL_8C8Z_016 | No text annotation | ||
| HL_8C8Z_021 | No text annotation | ||
| HL_8C8Z_023 | No text annotation | ||
| HL_8C8Z_025 | No text annotation | ||
| HL_8C8Z_032 | No text annotation | ||
| HL_8C8Z_033 | UNCG | ||
| HL_8C8Z_034 | No text annotation | ||
| HL_8C8Z_037 | Mini UNCG | ||
| HL_8C8Z_040 | No text annotation | ||
| HL_8C8Z_042 | No text annotation | ||
| HL_8C8Z_044 | No text annotation | ||
| HL_8C8Z_046 | GNRA | ||
| HL_8C8Z_049 | GNRA | ||
| HL_8C8Z_051 | No text annotation | ||
| HL_8C8Z_055 | No text annotation | ||
| HL_8C8Z_056 | Mini UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8C8Z_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | geometric IL_7RQB_001 NA | |
| IL_8C8Z_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | homologous IL_7RQB_002 NA | |
| IL_8C8Z_003 | 1/A/43:44, 1/A/434:436 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_8C8Z_086 | 1/A/82:85, 1/A/97:104 | No text annotation | ||
| IL_8C8Z_005 | 1/A/183:184, 1/A/212:214 | Single stack bend | homologous IL_7A0S_005 IL_15011.1 | |
| IL_8C8Z_006 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7A0S_006 IL_62167.1 | |
| IL_8C8Z_007 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_8C8Z_008 | 1/A/269:271, 1/A/366:370 | No text annotation | homologous IL_5J7L_252 NA | |
| IL_8C8Z_087 | 1/A/273:281, 1/A/359:364 | No text annotation | ||
| IL_8C8Z_010 | 1/A/275:281, 1/A/359:363 | No text annotation | ||
| IL_8C8Z_011 | 1/A/293:295, 1/A/343:347 | No text annotation | homologous IL_5J7L_254 NA | |
| IL_8C8Z_012 | 1/A/481:484, 1/A/496:509 | No text annotation | geometric IL_5J7L_255 NA | |
| IL_8C8Z_013 | 1/A/536:539, 1/A/554:557 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_8C8Z_014 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | geometric IL_4ZC7_004 IL_01003.1 | |
| IL_8C8Z_015 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_8C8Z_016 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | geometric IL_4YHW_001 NA | |
| IL_8C8Z_017 | 1/A/674:678, 1/A/799:806 | tHW-tHW cross-strand stack | homologous IL_7RQB_018 NA | |
| IL_8C8Z_018 | 1/A/844:847, 1/A/933:934 | 90 degree turn | geometric IL_5J7L_267 NA | |
| IL_8C8Z_088 | 1/A/844:848, 1/A/930:934 | No text annotation | geometric IL_5J7L_399 NA | |
| IL_8C8Z_019 | 1/A/847:848, 1/A/930:933 | Stack outside cWW | homologous IL_5J7L_268 NA | |
| IL_8C8Z_020 | 1/A/850:851, 1/A/926:928 | Single stack bend | homologous IL_5J7L_269 NA | |
| IL_8C8Z_021 | 1/A/854:856, 1/A/922:923 | Single stack bend | geometric IL_5J7L_032 NA | |
| IL_8C8Z_022 | 1/A/857:862, 1/A/915:921 | No text annotation | ||
| IL_8C8Z_023 | 1/A/862:863, 1/A/913:915 | Minor groove platform | homologous IL_7A0S_028 IL_34520.1 | |
| IL_8C8Z_027 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_8C8Z_028 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_8C8Z_029 | 1/A/1004:1011, 1/A/1150:1151 | SSU/LSU pseudoknot | homologous IL_5J7L_278 NA | |
| IL_8C8Z_030 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | geometric IL_5J7L_279 NA | |
| IL_8C8Z_031 | 1/A/1018:1024, 1/A/1140:1144 | Kink-turn related | geometric IL_4WF9_039 IL_57188.6 | |
| IL_8C8Z_032 | 1/A/1024:1030, 1/A/1124:1140 | No text annotation | ||
| IL_8C8Z_035 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | homologous IL_4WF9_044 IL_42997.4 | |
| IL_8C8Z_036 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | homologous IL_5J7L_287 NA | |
| IL_8C8Z_037 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_8C8Z_038 | 1/A/1262:1269, 1/A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_8C8Z_039 | 1/A/1310:1313, 1/A/1603:1604 | Major groove platform; stack outside cWW | homologous IL_5J7L_290 NA | |
| IL_8C8Z_040 | 1/A/1319:1323, 1/A/1331:1333 | Major groove minor groove platform with tHH | homologous IL_4WF9_050 IL_06671.1 | |
| IL_8C8Z_041 | 1/A/1351:1353, 1/A/1379:1380 | Single stack bend with SAM intercalation | geometric IL_6FZ0_001 NA | |
| IL_8C8Z_090 | 1/A/1351:1355, 1/A/1376:1380 | UAA/GAN | homologous IL_7A0S_048 IL_89021.3 | |
| IL_8C8Z_042 | 1/A/1353:1355, 1/A/1376:1379 | No text annotation | ||
| IL_8C8Z_043 | 1/A/1357:1361, 1/A/1370:1374 | tSH-tHW-tHS | homologous IL_4WF9_052 IL_05821.1 | |
| IL_8C8Z_047 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | homologous IL_5J7L_297 NA | |
| IL_8C8Z_048 | 1/A/1450:1451, 1/A/1459:1461 | Single bulged U | geometric IL_5J7L_298 NA | |
| IL_8C8Z_049 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_8C8Z_050 | 1/A/1474:1478, 1/A/1513:1517 | tSH-tHW-tHS | homologous IL_5J7L_300 NA | |
| IL_8C8Z_054 | 1/A/1526:1529, 1/A/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 NA | |
| IL_8C8Z_055 | 1/A/1651:1656, 1/A/2004:2006 | No text annotation | homologous IL_5J7L_304 NA | |
| IL_8C8Z_056 | 1/A/1712:1718, 1/A/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 NA | |
| IL_8C8Z_059 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | homologous IL_7RQB_078 NA | |
| IL_8C8Z_060 | 1/A/2053:2056, 1/A/2612:2616 | No text annotation | ||
| IL_8C8Z_066 | 1/A/2350:2353, 1/A/2364:2367 | Double sheared | homologous IL_7RQB_089 NA | |
| IL_8C8Z_070 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | homologous IL_7RQB_102 NA | |
| IL_8C8Z_072 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | homologous IL_5J7L_347 NA | |
| IL_8C8Z_073 | 1/A/2687:2691, 1/A/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_8C8Z_074 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | homologous IL_4WF9_103 IL_44609.1 | |
| IL_8C8Z_076 | 1/A/2795:2796, 1/A/2799:2801 | Single bulged A | geometric IL_7RQB_019 NA | |
| IL_8C8Z_077 | 1/A/2806:2811, 1/A/2889:2892 | No text annotation | geometric IL_5J7L_351 NA | |
| IL_8C8Z_078 | 1/A/2838:2839, 1/A/2878:2880 | Major groove intercalation | homologous IL_5J7L_352 NA | |
| IL_8C8Z_079 | 1/A/2843:2846, 1/A/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_8C8Z_080 | 1/A/2847:2852, 1/A/2865:2869 | tHS double platform | homologous IL_5J7L_354 NA | |
| IL_8C8Z_082 | 1/B/23:28, 1/B/56:60 | No text annotation | homologous IL_7RQB_112 NA | |
| IL_8C8Z_085 | 1/B/71:79, 1/B/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8C8Z_004 | No text annotation | ||
| IL_8C8Z_009 | Single stack bend | ||
| IL_8C8Z_024 | C-loop | ||
| IL_8C8Z_025 | Isolated non-canonical cWW pair | ||
| IL_8C8Z_026 | Double sheared with non-canonical cWW | ||
| IL_8C8Z_089 | No text annotation | ||
| IL_8C8Z_033 | Isolated non-canonical cWW pair | ||
| IL_8C8Z_034 | Tandem non-canonical cWW pairs | ||
| IL_8C8Z_044 | No text annotation | ||
| IL_8C8Z_045 | No text annotation | ||
| IL_8C8Z_092 | Single stack bend | ||
| IL_8C8Z_046 | Tandem non-canonical cWW pairs | ||
| IL_8C8Z_051 | 180 degree turn | ||
| IL_8C8Z_052 | No text annotation | ||
| IL_8C8Z_053 | Single bulged A | ||
| IL_8C8Z_057 | No text annotation | ||
| IL_8C8Z_058 | Single bulged C | ||
| IL_8C8Z_061 | No text annotation | ||
| IL_8C8Z_062 | Minor groove platform | ||
| IL_8C8Z_063 | Double sheared | ||
| IL_8C8Z_091 | Isolated tHS basepair with bulges | ||
| IL_8C8Z_064 | No text annotation | ||
| IL_8C8Z_065 | Single bulged U | ||
| IL_8C8Z_067 | Single stack bend | ||
| IL_8C8Z_068 | Single stack bend | ||
| IL_8C8Z_069 | No text annotation | ||
| IL_8C8Z_071 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_8C8Z_075 | UAA/GAN with extra cWW | ||
| IL_8C8Z_081 | Major groove intercalation | ||
| IL_8C8Z_083 | No text annotation | ||
| IL_8C8Z_084 | Symmetric double minor groove platform |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8C8Z_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | homologous J3_5J7L_036 NA | |
| J3_8C8Z_011 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_8C8Z_002 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | homologous J3_5J7L_037 NA | |
| J3_8C8Z_012 | 1/A/297:301, 1/A/316:325, 1/A/337:341 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_8C8Z_003 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_8C8Z_004 | 1/A/1306:1309, 1/A/1605:1612, 1/A/1619:1622 | No text annotation | ||
| J3_8C8Z_005 | 1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403 | No text annotation | homologous J3_5J7L_043 NA | |
| J3_8C8Z_013 | 1/A/1424:1429, 1/A/1564:1565, 1/A/1568:1575 | No text annotation | ||
| J3_8C8Z_008 | 1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894 | No text annotation | homologous J3_5J7L_047 NA | |
| J3_8C8Z_009 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J4_8C8Z_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_8C8Z_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_8C8Z_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_8C8Z_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_8C8Z_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_8C8Z_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_8C8Z_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_8C8Z_008 | 1/A/2643:2646, 1/A/2674:2676, 1/A/2731:2735, 1/A/2769:2771 | No text annotation | homologous J4_5J7L_028 NA | |
| J5_8C8Z_006 | 1/A/47:54, 1/A/116:121, 1/A/130:131, 1/A/148:150, 1/A/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_8C8Z_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_8C8Z_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_8C8Z_005 | 1/A/2282:2289, 1/A/2343:2347, 1/A/2370:2372, 1/A/2381:2395, 1/A/2421:2427 | No text annotation | ||
| J6_8C8Z_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_8C8Z_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_8C8Z_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
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8C8Z_006 | Kink-turn 3-way junction | ||
| J3_8C8Z_007 | No text annotation | ||
| J3_8C8Z_010 | No text annotation | ||
| J5_8C8Z_001 | No text annotation | ||
| J5_8C8Z_004 | No text annotation |
Coloring options: