6WNV Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6WNV_102 | 1/3/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_6WNV_003 | 1/3/158:163 | GNRA | homologous HL_5J7L_003 NA | |
| HL_6WNV_006 | 1/3/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_6WNV_007 | 1/3/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_6WNV_008 | 1/3/320:333 | No text annotation | homologous HL_4LFB_008 HL_39665.1 | |
| HL_6WNV_009 | 1/3/342:347 | UNCG | homologous HL_4LFB_009 HL_61337.2 | |
| HL_6WNV_010 | 1/3/379:384 | GNRA | homologous HL_5J7L_010 NA | |
| HL_6WNV_011 | 1/3/419:424 | UNCG | homologous HL_5J7L_011 NA | |
| HL_6WNV_013 | 1/3/522:527 | Externally structured | geometric HL_5TBW_022 NA | |
| HL_6WNV_014 | 1/3/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_6WNV_015 | 1/3/689:698 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_6WNV_016 | 1/3/726:731 | GNRA | homologous HL_4LFB_016 HL_34789.2 | |
| HL_6WNV_017 | 1/3/786:796 | No text annotation | homologous HL_4LFB_017 HL_38491.2 | |
| HL_6WNV_019 | 1/3/862:867 | GNRA | homologous HL_5J7L_019 NA | |
| HL_6WNV_020 | 1/3/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.2 | |
| HL_6WNV_023 | 1/3/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_6WNV_024 | 1/3/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.2 | |
| HL_6WNV_030 | 1/3/1449:1454 | UNCG | homologous HL_5J7L_030 NA | |
| HL_6WNV_031 | 1/3/1515:1520 | GNRA | homologous HL_6CZR_103 NA | |
| HL_6WNV_032 | 1/4/59:68 | Pseudoknot geometry | geometric HL_4GXY_003 HL_97725.1 | |
| HL_6WNV_033 | 1/4/87:95 | No text annotation | geometric HL_5J7L_135 NA | |
| HL_6WNV_034 | 1/4/123:128 | No text annotation | geometric HL_5J7L_136 NA | |
| HL_6WNV_036 | 1/4/158:168 | No text annotation | geometric HL_5J7L_138 NA | |
| HL_6WNV_037 | 1/4/194:201 | No text annotation | geometric HL_4WF9_006 HL_48677.1 | |
| HL_6WNV_038 | 1/4/225:230 | No text annotation | geometric HL_5J7L_140 NA | |
| HL_6WNV_039 | 1/4/246:252 | No text annotation | geometric HL_5J7L_141 NA | |
| HL_6WNV_040 | 1/4/305:312 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_142 NA | |
| HL_6WNV_041 | 1/4/327:335 | T-loop with unstacked turn | geometric HL_5J7L_144 NA | |
| HL_6WNV_042 | 1/4/382:392 | No text annotation | geometric HL_5J7L_145 NA | |
| HL_6WNV_043 | 1/4/410:417 | Pseudoknot geometry | geometric HL_7A0S_014 HL_30680.5 | |
| HL_6WNV_044 | 1/4/462:467 | GNRA | geometric HL_5TBW_064 NA | |
| HL_6WNV_045 | 1/4/487:493 | GNRA | geometric HL_5J7L_148 NA | |
| HL_6WNV_047 | 1/4/566:575 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_150 NA | |
| HL_6WNV_048 | 1/4/611:617 | No text annotation | geometric HL_361D_002 NA | |
| HL_6WNV_049 | 1/4/629:634 | GNRA | geometric HL_6N2V_001 HL_34789.2 | |
| HL_6WNV_050 | 1/4/641:647 | No text annotation | geometric HL_5J7L_153 NA | |
| HL_6WNV_051 | 1/4/712:719 | No text annotation | geometric HL_361D_002 NA | |
| HL_6WNV_052 | 1/4/744:753 | No text annotation | geometric HL_7A0S_022 HL_50204.1 | |
| HL_6WNV_053 | 1/4/779:785 | No text annotation | geometric HL_5U3G_001 HL_75660.7 | |
| HL_6WNV_054 | 1/4/826:831 | No text annotation | geometric HL_7RQB_025 NA | |
| HL_6WNV_056 | 1/4/955:962 | No text annotation | ||
| HL_6WNV_057 | 1/4/978:985 | No text annotation | geometric HL_5NFV_001 HL_69752.4 | |
| HL_6WNV_103 | 1/4/1100:1114 | No text annotation | homologous HL_5J7L_215 NA | |
| HL_6WNV_059 | 1/4/1104:1110 | No text annotation | geometric HL_7RQB_011 NA | |
| HL_6WNV_063 | 1/4/1350:1355 | GNRA | geometric HL_5J7L_164 NA | |
| HL_6WNV_064 | 1/4/1409:1417 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_165 NA | |
| HL_6WNV_065 | 1/4/1452:1458 | Pseudoknot geometry with 3' bulge | geometric HL_5J7L_166 NA | |
| HL_6WNV_066 | 1/4/1491:1496 | GNRA | geometric HL_5J7L_167 NA | |
| HL_6WNV_067 | 1/4/1517:1526 | No text annotation | geometric HL_4V9F_037 HL_77449.1 | |
| HL_6WNV_068 | 1/4/1579:1587 | Mini UNCG | geometric HL_5U30_001 HL_90436.2 | |
| HL_6WNV_069 | 1/4/1620:1626 | Pseudoknot geometry with 3' bulge | geometric HL_5J7L_170 NA | |
| HL_6WNV_071 | 1/4/1693:1696 | Mini UNCG | geometric HL_5J7L_172 NA | |
| HL_6WNV_072 | 1/4/1740:1747 | No text annotation | geometric HL_7RQB_040 NA | |
| HL_6WNV_073 | 1/4/1758:1764 | GNRA | geometric HL_5J7L_174 NA | |
| HL_6WNV_074 | 1/4/1819:1824 | UNCG | geometric HL_1I6U_001 HL_61337.2 | |
| HL_6WNV_075 | 1/4/1855:1861 | No text annotation | geometric HL_4V88_198 NA | |
| HL_6WNV_076 | 1/4/1880:1884 | No text annotation | geometric HL_5J7L_177 NA | |
| HL_6WNV_077 | 1/4/1905:1915 | No text annotation | geometric HL_5J7L_178 NA | |
| HL_6WNV_078 | 1/4/1934:1939 | GNRA related | geometric HL_5J7L_179 NA | |
| HL_6WNV_080 | 1/4/2038:2048 | No text annotation | geometric HL_5TBW_049 NA | |
| HL_6WNV_081 | 1/4/2077:2085 | No text annotation | geometric HL_5J7L_182 NA | |
| HL_6WNV_082 | 1/4/2155:2164 | No text annotation | geometric HL_4WF9_047 HL_78372.1 | |
| HL_6WNV_084 | 1/4/2337:2343 | No text annotation | geometric HL_5J7L_185 NA | |
| HL_6WNV_085 | 1/4/2376:2384 | No text annotation | geometric HL_4WF9_049 HL_11974.2 | |
| HL_6WNV_086 | 1/4/2392:2404 | No text annotation | geometric HL_7RQB_054 NA | |
| HL_6WNV_087 | 1/4/2431:2441 | No text annotation | geometric HL_7RQB_055 NA | |
| HL_6WNV_088 | 1/4/2452:2459 | Pseudoknot geometry | geometric HL_5J7L_189 NA | |
| HL_6WNV_089 | 1/4/2484:2489 | GNRA | geometric HL_5J7L_190 NA | |
| HL_6WNV_090 | 1/4/2502:2507 | GNRA | geometric HL_5F9F_003 HL_34789.2 | |
| HL_6WNV_091 | 1/4/2532:2541 | No text annotation | geometric HL_5J7L_192 NA | |
| HL_6WNV_092 | 1/4/2599:2607 | No text annotation | geometric HL_4WF9_056 HL_52011.1 | |
| HL_6WNV_093 | 1/4/2656:2663 | GNRA variation | geometric HL_5J7L_194 NA | |
| HL_6WNV_094 | 1/4/2679:2685 | No text annotation | geometric HL_5TBW_063 NA | |
| HL_6WNV_095 | 1/4/2722:2727 | GNRA | geometric HL_5TBW_064 NA | |
| HL_6WNV_097 | 1/4/2829:2834 | Ribsomal LSU H95 | geometric HL_5J7L_198 NA | |
| HL_6WNV_098 | 1/4/2873:2887 | No text annotation | geometric HL_5J7L_199 NA | |
| HL_6WNV_099 | 1/4/2923:2929 | UNCG variation | geometric HL_7A0S_023 HL_51020.2 | |
| HL_6WNV_100 | 1/4/2947:2955 | No text annotation | geometric HL_5J7L_201 NA | |
| HL_6WNV_101 | 1/4/2984:2989 | GNRA | geometric HL_7A0S_068 HL_34789.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6WNV_001 | No text annotation | ||
| HL_6WNV_002 | No text annotation | ||
| HL_6WNV_004 | GNRA | ||
| HL_6WNV_005 | No text annotation | ||
| HL_6WNV_012 | GNRA wlth extra near cWW | ||
| HL_6WNV_018 | No text annotation | ||
| HL_6WNV_021 | No text annotation | ||
| HL_6WNV_022 | GNRA | ||
| HL_6WNV_025 | No text annotation | ||
| HL_6WNV_026 | GNRA | ||
| HL_6WNV_027 | GNRA | ||
| HL_6WNV_028 | T-loop with 3 stacked bulged bases | ||
| HL_6WNV_029 | No text annotation | ||
| HL_6WNV_035 | No text annotation | ||
| HL_6WNV_046 | No text annotation | ||
| HL_6WNV_055 | UNCG variation | ||
| HL_6WNV_058 | No text annotation | ||
| HL_6WNV_060 | No text annotation | ||
| HL_6WNV_061 | No text annotation | ||
| HL_6WNV_062 | No text annotation | ||
| HL_6WNV_070 | No text annotation | ||
| HL_6WNV_079 | GNRA | ||
| HL_6WNV_104 | No text annotation | ||
| HL_6WNV_083 | No text annotation | ||
| HL_6WNV_096 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6WNV_001 | 1/3/30:32, 1/3/552:553 | Single bulged G | homologous IL_6CZR_113 NA | |
| IL_6WNV_002 | 1/3/44:45, 1/3/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6WNV_003 | 1/3/47:52, 1/3/359:361 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_6WNV_004 | 1/3/54:56, 1/3/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.2 | |
| IL_6WNV_005 | 1/3/63:66, 1/3/103:104 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_6WNV_006 | 1/3/67:69, 1/3/99:102 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
| IL_6WNV_009 | 1/3/128:131, 1/3/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_6WNV_010 | 1/3/132:136, 1/3/227:230 | Minor groove platform related | homologous IL_5J7L_010 NA | |
| IL_6WNV_012 | 1/3/147:153, 1/3/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_6WNV_014 | 1/3/242:247, 1/3/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_6WNV_015 | 1/3/249:252, 1/3/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_6WNV_016 | 1/3/292:293, 1/3/304:308 | C-loop | homologous IL_6CZR_125 NA | |
| IL_6WNV_017 | 1/3/367:369, 1/3/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_6WNV_018 | 1/3/371:375, 1/3/389:390 | C-loop | geometric IL_5J7L_018 NA | |
| IL_6WNV_019 | 1/3/375:376, 1/3/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_6WNV_021 | 1/3/440:442, 1/3/492:497 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_6WNV_022 | 1/3/446:450, 1/3/483:488 | tSH-tHW-tWW | homologous IL_5J7L_022 NA | |
| IL_6WNV_023 | 1/3/450:455, 1/3/477:483 | No text annotation | geometric IL_5J7L_023 NA | |
| IL_6WNV_024 | 1/3/504:511, 1/3/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_6WNV_025 | 1/3/515:521, 1/3/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6WNV_026 | 1/3/569:575, 1/3/880:881 | No text annotation | homologous IL_4LFB_022 IL_20847.1 | |
| IL_6WNV_027 | 1/3/580:584, 1/3/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_6WNV_028 | 1/3/594:596, 1/3/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_6WNV_029 | 1/3/597:598, 1/3/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_4LFB_025 IL_73108.2 | |
| IL_6WNV_030 | 1/3/605:612, 1/3/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_6WNV_031 | 1/3/654:655, 1/3/751:754 | Major groove platform; stack outside cWW | homologous IL_4LFB_027 IL_74641.2 | |
| IL_6WNV_172 | 1/3/659:660, 1/3/745:747 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_6WNV_033 | 1/3/662:666, 1/3/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_6WNV_173 | 1/3/673:677, 1/3/713:717 | Triple non-canonical cWW pairs | homologous IL_5J7L_361 NA | |
| IL_6WNV_035 | 1/3/684:688, 1/3/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_6WNV_036 | 1/3/774:778, 1/3/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_6WNV_037 | 1/3/779:783, 1/3/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_6WNV_038 | 1/3/887:894, 1/3/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_6WNV_039 | 1/3/922:923, 1/3/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_6WNV_040 | 1/3/925:927, 1/3/1390:1391 | Single bulged G | homologous IL_4LFB_036 IL_28408.2 | |
| IL_6WNV_044 | 1/3/998:999, 1/3/1041:1043 | Single stack bend | homologous IL_5J7L_044 NA | |
| IL_6WNV_053 | 1/3/1158:1161, 1/3/1175:1181 | No text annotation | homologous IL_5J7L_053 NA | |
| IL_6WNV_058 | 1/3/1399:1401, 1/3/1501:1504 | No text annotation | geometric IL_4V88_463 NA | |
| IL_6WNV_059 | 1/3/1401:1404, 1/3/1497:1501 | No text annotation | geometric IL_4V88_464 NA | |
| IL_6WNV_060 | 1/3/1405:1407, 1/3/1494:1496 | Isolated non-canonical cWW pair | geometric IL_5VCI_002 IL_01003.2 | |
| IL_6WNV_061 | 1/3/1407:1409, 1/3/1491:1494 | Decoding loop related | geometric IL_2O3X_003 IL_53541.1 | |
| IL_6WNV_176 | 1/3/1412:1414, 1/3/1486:1488 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_6WNV_063 | 1/3/1416:1419, 1/3/1481:1484 | Double sheared | homologous IL_6CZR_169 NA | |
| IL_6WNV_064 | 1/3/1430:1435, 1/3/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA | |
| IL_6WNV_065 | 1/3/1440:1442, 1/3/1460:1461 | Single bulged A | homologous IL_5J7L_064 NA | |
| IL_6WNV_066 | 1/3/1445:1448, 1/3/1455:1457 | No text annotation | homologous IL_5J7L_065 NA | |
| IL_6WNV_067 | 1/4/24:30, 1/4/510:516 | Triple sheared with non-canonical cWW | geometric IL_4WF9_001 IL_22311.1 | |
| IL_6WNV_068 | 1/4/36:37, 1/4/442:444 | Single bulged A | geometric IL_7RQB_002 NA | |
| IL_6WNV_069 | 1/4/43:44, 1/4/434:436 | Minor groove platform | geometric IL_5J7L_247 NA | |
| IL_6WNV_070 | 1/4/81:85, 1/4/97:105 | Kink-turn | homologous IL_9DFE_004 IL_71972.1 | |
| IL_6WNV_071 | 1/4/183:184, 1/4/212:214 | Single stack bend | geometric IL_5J7L_249 NA | |
| IL_6WNV_072 | 1/4/188:194, 1/4/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7A0S_006 IL_62167.2 | |
| IL_6WNV_073 | 1/4/239:245, 1/4/253:258 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_5J7L_251 NA | |
| IL_6WNV_074 | 1/4/269:271, 1/4/366:370 | No text annotation | geometric IL_5J7L_252 NA | |
| IL_6WNV_076 | 1/4/293:295, 1/4/343:347 | No text annotation | geometric IL_5J7L_254 NA | |
| IL_6WNV_077 | 1/4/481:484, 1/4/496:509 | No text annotation | geometric IL_5J7L_255 NA | |
| IL_6WNV_078 | 1/4/536:539, 1/4/554:557 | Double sheared | geometric IL_5J7L_256 NA | |
| IL_6WNV_079 | 1/4/564:566, 1/4/575:577 | Isolated non-canonical cWW pair | geometric IL_5J7L_257 NA | |
| IL_6WNV_080 | 1/4/606:610, 1/4/618:622 | AAA cross-strand stack | geometric IL_5J7L_258 NA | |
| IL_6WNV_081 | 1/4/672:674, 1/4/806:808 | Isolated non-canonical cWW pair | geometric IL_5J7L_259 NA | |
| IL_6WNV_082 | 1/4/674:678, 1/4/799:806 | tHW-tHW cross-strand stack | geometric IL_5J7L_260 NA | |
| IL_6WNV_083 | 1/4/697:698, 1/4/763:765 | Single bulged A | geometric IL_5J7L_261 NA | |
| IL_6WNV_084 | 1/4/702:703, 1/4/728:730 | Single bulged G | geometric IL_4V9F_026 IL_28408.2 | |
| IL_6WNV_085 | 1/4/703:707, 1/4/724:728 | Triple sheared | geometric IL_7RQB_021 NA | |
| IL_6WNV_086 | 1/4/738:740, 1/4/757:758 | Major groove platform | geometric IL_4WF9_026 IL_48076.8 | |
| IL_6WNV_087 | 1/4/775:777, 1/4/787:791 | Multiple bulged bases | geometric IL_5J7L_265 NA | |
| IL_6WNV_088 | 1/4/844:847, 1/4/933:934 | 90 degree turn | geometric IL_5J7L_267 NA | |
| IL_6WNV_178 | 1/4/844:848, 1/4/930:934 | No text annotation | geometric IL_5J7L_399 NA | |
| IL_6WNV_089 | 1/4/847:848, 1/4/930:933 | Stack outside cWW | geometric IL_5J7L_268 NA | |
| IL_6WNV_090 | 1/4/850:851, 1/4/926:928 | Single stack bend | geometric IL_5J7L_269 NA | |
| IL_6WNV_091 | 1/4/856:862, 1/4/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 NA | |
| IL_6WNV_092 | 1/4/862:863, 1/4/913:915 | Single bulged G | geometric IL_5J7L_271 NA | |
| IL_6WNV_093 | 1/4/864:868, 1/4/909:912 | C-loop with bulged stacked A's | geometric IL_5J7L_272 NA | |
| IL_6WNV_097 | 1/4/994:996, 1/4/1287:1288 | Single bulged C | geometric IL_7RQB_035 NA | |
| IL_6WNV_098 | 1/4/998:1002, 1/4/1281:1285 | UAA/GAN | geometric IL_4WF9_036 IL_08938.1 | |
| IL_6WNV_099 | 1/4/1004:1011, 1/4/1278:1279 | SSU/LSU pseudoknot | geometric IL_5J7L_278 NA | |
| IL_6WNV_100 | 1/4/1011:1013, 1/4/1277:1278 | Single bulged U | geometric IL_5J7L_279 NA | |
| IL_6WNV_101 | 1/4/1018:1024, 1/4/1268:1272 | Kink-turn related | geometric IL_4WF9_039 IL_57188.6 | |
| IL_6WNV_102 | 1/4/1039:1047, 1/4/1137:1145 | Bacterial 5S Loop E | geometric IL_5J7L_359 NA | |
| IL_6WNV_104 | 1/4/1089:1094, 1/4/1122:1126 | No text annotation | homologous IL_5J7L_356 NA | |
| IL_6WNV_106 | 1/4/1100:1104, 1/4/1110:1114 | Symmetric double minor groove platform | homologous IL_5J7L_358 NA | |
| IL_6WNV_107 | 1/4/1159:1162, 1/4/1249:1251 | Isolated non-canonical cWW pair | geometric IL_7RQB_041 NA | |
| IL_6WNV_109 | 1/4/1171:1179, 1/4/1236:1240 | Kink-turn | geometric IL_4V9F_042 IL_99692.3 | |
| IL_6WNV_111 | 1/4/1324:1326, 1/4/1375:1378 | Isolated cWS basepair | geometric IL_4WF9_044 IL_42997.5 | |
| IL_6WNV_112 | 1/4/1330:1334, 1/4/1368:1371 | No text annotation | geometric IL_5J7L_287 NA | |
| IL_6WNV_113 | 1/4/1336:1343, 1/4/1362:1366 | Kink-turn | geometric IL_5J7L_288 NA | |
| IL_6WNV_114 | 1/4/1390:1397, 1/4/2139:2145 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_289 NA | |
| IL_6WNV_115 | 1/4/1438:1441, 1/4/1731:1732 | Major groove platform; stack outside cWW | geometric IL_7RQB_050 NA | |
| IL_6WNV_116 | 1/4/1447:1451, 1/4/1459:1461 | C-loop | geometric IL_5J7L_291 NA | |
| IL_6WNV_117 | 1/4/1479:1483, 1/4/1504:1508 | UAA/GAN | geometric IL_5J7L_292 NA | |
| IL_6WNV_118 | 1/4/1485:1489, 1/4/1498:1502 | tSH-tHW-tHS | geometric IL_5J7L_293 NA | |
| IL_6WNV_119 | 1/4/1543:1544, 1/4/1710:1715 | No text annotation | geometric IL_5J7L_294 NA | |
| IL_6WNV_120 | 1/4/1545:1549, 1/4/1705:1709 | UAA/GAN | geometric IL_5J7L_295 NA | |
| IL_6WNV_121 | 1/4/1560:1563, 1/4/1685:1689 | Tandem non-canonical cWW pairs | geometric IL_5J7L_296 NA | |
| IL_6WNV_122 | 1/4/1565:1568, 1/4/1679:1683 | tSH-tHW | geometric IL_5J7L_297 NA | |
| IL_6WNV_123 | 1/4/1578:1579, 1/4/1587:1589 | Single bulged U | geometric IL_5J7L_298 NA | |
| IL_6WNV_124 | 1/4/1596:1599, 1/4/1648:1652 | No text annotation | geometric IL_5J7L_299 NA | |
| IL_6WNV_180 | 1/4/1602:1606, 1/4/1641:1645 | tSH-tHW-tHS | geometric IL_5J7L_300 NA | |
| IL_6WNV_126 | 1/4/1609:1610, 1/4/1635:1638 | 180 degree turn | geometric IL_5J7L_301 NA | |
| IL_6WNV_127 | 1/4/1617:1619, 1/4/1627:1628 | Single bulged A | geometric IL_5J7L_302 NA | |
| IL_6WNV_128 | 1/4/1654:1657, 1/4/1670:1674 | UAA/GAN variation | geometric IL_5J7L_303 NA | |
| IL_6WNV_129 | 1/4/1779:1784, 1/4/2132:2134 | No text annotation | geometric IL_5J7L_304 NA | |
| IL_6WNV_130 | 1/4/1791:1793, 1/4/2123:2125 | Isolated tWW turn | geometric IL_5J7L_305 NA | |
| IL_6WNV_131 | 1/4/1794:1797, 1/4/2121:2122 | Major groove platform; stack outside cWW | geometric IL_7RQB_066 NA | |
| IL_6WNV_181 | 1/4/1794:1802, 1/4/2118:2122 | No text annotation | geometric IL_4WF9_117 IL_80252.1 | |
| IL_6WNV_132 | 1/4/1797:1802, 1/4/2118:2121 | Intercalated tWH | geometric IL_4WF9_065 IL_28217.1 | |
| IL_6WNV_133 | 1/4/1814:1819, 1/4/1824:1830 | tSH-tSH-tHH-tHS | geometric IL_7RQB_068 NA | |
| IL_6WNV_134 | 1/4/1840:1846, 1/4/1870:1874 | 6x5 Sarcin-Ricin; G-bulge | geometric IL_5J7L_309 NA | |
| IL_6WNV_135 | 1/4/1848:1852, 1/4/1864:1868 | Triple sheared | geometric IL_5J7L_310 NA | |
| IL_6WNV_136 | 1/4/1898:1899, 1/4/2108:2110 | Single bulged A | geometric IL_7A0S_064 IL_14190.2 | |
| IL_6WNV_137 | 1/4/1926:1932, 1/4/1941:1949 | Kink-turn related | geometric IL_7RQB_070 NA | |
| IL_6WNV_138 | 1/4/1965:1968, 1/4/2030:2031 | Minor groove platform, major groove intercalation | geometric IL_5J7L_314 NA | |
| IL_6WNV_139 | 1/4/1969:1970, 1/4/2026:2029 | Major groove intercalation | geometric IL_5J7L_315 NA | |
| IL_6WNV_140 | 1/4/1974:1977, 1/4/2021:2022 | Major groove minor groove platform; mini C-loop | geometric IL_5J7L_316 NA | |
| IL_6WNV_182 | 1/4/1979:1988, 1/4/2010:2019 | No text annotation | geometric IL_5J7L_387 NA | |
| IL_6WNV_141 | 1/4/1992:1995, 1/4/2002:2006 | UAA/GAN variation | geometric IL_4WF9_075 IL_77691.7 | |
| IL_6WNV_142 | 1/4/2061:2062, 1/4/2092:2095 | Bulged stacked bases | geometric IL_5J7L_318 NA | |
| IL_6WNV_143 | 1/4/2062:2073, 1/4/2089:2092 | No text annotation | geometric IL_7A0S_072 IL_04332.3 | |
| IL_6WNV_144 | 1/4/2178:2180, 1/4/2745:2746 | Major groove platform | geometric IL_5J7L_320 NA | |
| IL_6WNV_145 | 1/4/2182:2184, 1/4/2740:2743 | No text annotation | geometric IL_5J7L_321 NA | |
| IL_6WNV_146 | 1/4/2195:2197, 1/4/2570:2571 | Single bulged U | geometric IL_7RQB_080 NA | |
| IL_6WNV_147 | 1/4/2198:2199, 1/4/2566:2569 | Minor groove platform | geometric IL_7RQB_081 NA | |
| IL_6WNV_148 | 1/4/2209:2211, 1/4/2364:2367 | Isolated tHS basepair with bulges | geometric IL_5J7L_325 NA | |
| IL_6WNV_149 | 1/4/2213:2215, 1/4/2360:2362 | Isolated non-canonical cWW pair | geometric IL_5J7L_326 NA | |
| IL_6WNV_152 | 1/4/2330:2332, 1/4/2348:2349 | Single bulged U | geometric IL_5J7L_331 NA | |
| IL_6WNV_153 | 1/4/2478:2481, 1/4/2492:2495 | Double sheared | geometric IL_5J7L_333 NA | |
| IL_6WNV_154 | 1/4/2529:2531, 1/4/2542:2543 | No text annotation | geometric IL_9AXU_122 IL_97561.2 | |
| IL_6WNV_155 | 1/4/2594:2598, 1/4/2608:2612 | Double sheared with non-canonical cWW | geometric IL_5J7L_338 NA | |
| IL_6WNV_156 | 1/4/2635:2636, 1/4/2708:2710 | Major groove platform | geometric IL_5TBW_107 NA | |
| IL_6WNV_157 | 1/4/2638:2640, 1/4/2702:2706 | Isolated non-canonical cWW with bulges | geometric IL_5J7L_340 NA | |
| IL_6WNV_158 | 1/4/2640:2641, 1/4/2699:2702 | No text annotation | geometric IL_5J7L_341 NA | |
| IL_6WNV_159 | 1/4/2650:2651, 1/4/2668:2671 | Major groove platform with intercalation | geometric IL_7A0S_091 IL_94991.2 | |
| IL_6WNV_160 | 1/4/2719:2720, 1/4/2729:2731 | No text annotation | geometric IL_9AXU_106 IL_14190.2 | |
| IL_6WNV_161 | 1/4/2764:2768, 1/4/2902:2910 | tSH-tHS-tHW | geometric IL_5J7L_345 NA | |
| IL_6WNV_162 | 1/4/2780:2786, 1/4/2791:2796 | Sarcin-Ricin target in LSU H95; G-bulge | geometric IL_7A0S_094 IL_16458.5 | |
| IL_6WNV_163 | 1/4/2808:2812, 1/4/2853:2855 | C-loop | geometric IL_5J7L_347 NA | |
| IL_6WNV_164 | 1/4/2815:2819, 1/4/2846:2850 | UAA/GAN related, with intercalation | geometric IL_5J7L_348 NA | |
| IL_6WNV_165 | 1/4/2823:2824, 1/4/2839:2842 | Multiple bulged bases | geometric IL_5J7L_349 NA | |
| IL_6WNV_166 | 1/4/2865:2870, 1/4/2890:2895 | UAA/GAN with extra cWW | geometric IL_5J7L_350 NA | |
| IL_6WNV_167 | 1/4/2934:2939, 1/4/3017:3020 | No text annotation | geometric IL_5J7L_351 NA | |
| IL_6WNV_168 | 1/4/2966:2967, 1/4/3006:3008 | Major groove intercalation | geometric IL_5J7L_352 NA | |
| IL_6WNV_169 | 1/4/2971:2974, 1/4/2998:3002 | Multiple bulged bases with non-canonical cWW | geometric IL_5J7L_353 NA | |
| IL_6WNV_170 | 1/4/2975:2980, 1/4/2993:2997 | tHS double platform | geometric IL_7RQB_110 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6WNV_007 | Minor groove platform | ||
| IL_6WNV_008 | No text annotation | ||
| IL_6WNV_011 | Isolated cWH basepair | ||
| IL_6WNV_013 | No text annotation | ||
| IL_6WNV_020 | No text annotation | ||
| IL_6WNV_171 | No text annotation | ||
| IL_6WNV_032 | No text annotation | ||
| IL_6WNV_034 | No text annotation | ||
| IL_6WNV_041 | Minor groove platform | ||
| IL_6WNV_042 | No text annotation | ||
| IL_6WNV_043 | Minor groove platform | ||
| IL_6WNV_045 | No text annotation | ||
| IL_6WNV_046 | Single bulged U | ||
| IL_6WNV_047 | Tandem non-canonical cWW pairs | ||
| IL_6WNV_174 | No text annotation | ||
| IL_6WNV_048 | Minor groove platform | ||
| IL_6WNV_049 | Single bulged A | ||
| IL_6WNV_050 | Isolated non-canonical cWW pair | ||
| IL_6WNV_051 | No text annotation | ||
| IL_6WNV_052 | Minor groove platform | ||
| IL_6WNV_175 | No text annotation | ||
| IL_6WNV_054 | No text annotation | ||
| IL_6WNV_055 | 180 degree turn | ||
| IL_6WNV_056 | Double sheared with non-canonical cWW | ||
| IL_6WNV_057 | No text annotation | ||
| IL_6WNV_062 | Tandem non-canonical cWW pairs | ||
| IL_6WNV_177 | No text annotation | ||
| IL_6WNV_075 | No text annotation | ||
| IL_6WNV_179 | Isolated non-canonical cWW pair | ||
| IL_6WNV_094 | Tandem non-canonical cWW pairs | ||
| IL_6WNV_095 | No text annotation | ||
| IL_6WNV_096 | No text annotation | ||
| IL_6WNV_103 | Major groove intercalation | ||
| IL_6WNV_105 | Major groove minor groove platform; mini C-loop | ||
| IL_6WNV_108 | Tandem non-canonical cWW pairs | ||
| IL_6WNV_110 | No text annotation | ||
| IL_6WNV_125 | 5x5 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_6WNV_183 | No text annotation | ||
| IL_6WNV_150 | No text annotation | ||
| IL_6WNV_151 | No text annotation | ||
| IL_6WNV_184 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6WNV_001 | 1/3/46:47, 1/3/361:367, 1/3/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_6WNV_027 | 1/3/46:52, 1/3/359:367, 1/3/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_6WNV_002 | 1/3/586:588, 1/3/651:654, 1/3/754:755 | No text annotation | geometric J3_5J7L_002 NA | |
| J3_6WNV_028 | 1/3/586:588, 1/3/651:655, 1/3/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_6WNV_003 | 1/3/672:673, 1/3/717:725, 1/3/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_6WNV_004 | 1/3/826:829, 1/3/857:861, 1/3/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_6WNV_009 | 1/3/1063:1068, 1/3/1107:1113, 1/3/1187:1193 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
| J3_6WNV_030 | 1/3/1073:1074, 1/3/1083:1086, 1/3/1099:1102 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_6WNV_011 | 1/3/1116:1118, 1/3/1155:1158, 1/3/1181:1184 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_6WNV_031 | 1/3/1116:1118, 1/3/1155:1161, 1/3/1175:1184 | No text annotation | homologous J3_5J7L_054 NA | |
| J3_6WNV_013 | 1/4/30:31, 1/4/474:481, 1/4/509:510 | No text annotation | geometric J3_8VTW_036 NA | |
| J3_6WNV_032 | 1/4/30:31, 1/4/474:484, 1/4/496:510 | No text annotation | geometric J3_5J7L_066 NA | |
| J3_6WNV_033 | 1/4/32:35, 1/4/445:461, 1/4/468:473 | No text annotation | geometric J3_5J7L_067 NA | |
| J3_6WNV_014 | 1/4/56:57, 1/4/70:76, 1/4/110:114 | No text annotation | geometric J3_5J7L_037 NA | |
| J3_6WNV_034 | 1/4/297:301, 1/4/316:325, 1/4/337:341 | No text annotation | geometric J3_5J7L_068 NA | |
| J3_6WNV_015 | 1/4/683:689, 1/4/773:775, 1/4/791:794 | No text annotation | geometric J3_5J7L_038 NA | |
| J3_6WNV_016 | 1/4/698:700, 1/4/732:736, 1/4/760:763 | No text annotation | geometric J3_8VTW_002 NA | |
| J3_6WNV_035 | 1/4/1024:1032, 1/4/1152:1158, 1/4/1252:1268 | No text annotation | ||
| J3_6WNV_017 | 1/4/1048:1052, 1/4/1076:1082, 1/4/1134:1136 | No text annotation | homologous J3_5J7L_049 NA | |
| J3_6WNV_019 | 1/4/1426:1431, 1/4/1753:1755, 1/4/1767:1770 | No text annotation | geometric J3_5J7L_041 NA | |
| J3_6WNV_020 | 1/4/1434:1437, 1/4/1733:1739, 1/4/1748:1750 | No text annotation | geometric J3_7A0S_007 J3_47341.1 | |
| J3_6WNV_021 | 1/4/1472:1477, 1/4/1510:1513, 1/4/1530:1531 | No text annotation | geometric J3_5J7L_043 NA | |
| J3_6WNV_036 | 1/4/1552:1557, 1/4/1692:1693, 1/4/1696:1702 | No text annotation | geometric J3_8VTW_044 NA | |
| J3_6WNV_022 | 1/4/2219:2221, 1/4/2324:2328, 1/4/2351:2356 | Kink-turn 3-way junction | geometric J3_5J7L_044 NA | |
| J3_6WNV_037 | 1/4/2410:2412, 1/4/2512:2523, 1/4/2549:2555 | No text annotation | geometric J3_5J7L_070 NA | |
| J3_6WNV_023 | 1/4/2423:2427, 1/4/2445:2451, 1/4/2460:2465 | No text annotation | ||
| J3_6WNV_024 | 1/4/2645:2648, 1/4/2673:2675, 1/4/2689:2695 | No text annotation | geometric J3_5J7L_046 NA | |
| J3_6WNV_025 | 1/4/2917:2919, 1/4/2933:2934, 1/4/3020:3022 | No text annotation | geometric J3_5J7L_047 NA | |
| J3_6WNV_026 | 1/4/2940:2943, 1/4/2959:2964, 1/4/3010:3016 | No text annotation | geometric J3_5J7L_048 NA | |
| J4_6WNV_001 | 1/3/115:122, 1/3/239:240, 1/3/286:289, 1/3/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_6WNV_002 | 1/3/142:144, 1/3/178:184, 1/3/193:198, 1/3/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_6WNV_003 | 1/3/575:577, 1/3/764:769, 1/3/810:821, 1/3/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J4_6WNV_004 | 1/4/268:269, 1/4/370:375, 1/4/399:406, 1/4/421:424 | No text annotation | homologous J4_5J7L_018 NA | |
| J4_6WNV_005 | 1/4/601:604, 1/4/624:628, 1/4/635:638, 1/4/650:656 | No text annotation | homologous J4_5J7L_020 NA | |
| J4_6WNV_006 | 1/4/1398:1404, 1/4/1422:1423, 1/4/1773:1776, 1/4/2137:2138 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_6WNV_007 | 1/4/1438:1442, 1/4/1466:1471, 1/4/1532:1533, 1/4/1725:1732 | No text annotation | homologous J4_7A0S_005 J4_77353.1 | |
| J4_6WNV_008 | 1/4/1441:1442, 1/4/1466:1471, 1/4/1532:1533, 1/4/1725:1731 | No text annotation | homologous J4_5J7L_023 NA | |
| J4_6WNV_009 | 1/4/1572:1573, 1/4/1594:1595, 1/4/1653:1654, 1/4/1674:1675 | No text annotation | homologous J4_5J7L_024 NA | |
| J4_6WNV_010 | 1/4/1900:1904, 1/4/1916:1920, 1/4/1955:1958, 1/4/2103:2107 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_6WNV_011 | 1/4/1961:1963, 1/4/2033:2034, 1/4/2052:2061, 1/4/2095:2100 | No text annotation | homologous J4_9DFE_008 J4_42306.1 | |
| J4_6WNV_012 | 1/4/2413:2417, 1/4/2471:2475, 1/4/2498:2500, 1/4/2509:2511 | No text annotation | homologous J4_9DFE_009 J4_98139.1 | |
| J4_6WNV_013 | 1/4/2771:2774, 1/4/2802:2804, 1/4/2859:2863, 1/4/2897:2899 | No text annotation | homologous J4_5J7L_028 NA | |
| J5_6WNV_001 | 1/3/36:39, 1/3/403:406, 1/3/436:440, 1/3/497:500, 1/3/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_6WNV_002 | 1/3/36:39, 1/3/403:406, 1/3/436:442, 1/3/492:500, 1/3/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_6WNV_003 | 1/3/58:61, 1/3/106:113, 1/3/314:316, 1/3/337:339, 1/3/350:354 | No text annotation | homologous J5_5J7L_003 NA | |
| J5_6WNV_004 | 1/4/47:54, 1/4/116:121, 1/4/130:131, 1/4/148:150, 1/4/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_6WNV_005 | 1/4/531:533, 1/4/560:564, 1/4/577:579, 1/4/1389:1390, 1/4/2145:2146 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_6WNV_006 | 1/4/584:589, 1/4/668:671, 1/4/809:812, 1/4/1323:1324, 1/4/1378:1384 | No text annotation | homologous J5_5J7L_015 NA | |
| J5_6WNV_007 | 1/4/1802:1810, 1/4/1834:1835, 1/4/1879:1880, 1/4/1884:1892, 1/4/2116:2118 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_6WNV_008 | 1/4/2202:2205, 1/4/2371:2374, 1/4/2386:2387, 1/4/2409:2410, 1/4/2555:2563 | No text annotation | homologous J5_4WF9_007 J5_39529.2 | |
| J6_6WNV_001 | 1/4/45:46, 1/4/179:183, 1/4/214:224, 1/4/231:235, 1/4/262:266, 1/4/426:433 | No text annotation | ||
| J6_6WNV_002 | 1/4/2202:2205, 1/4/2371:2374, 1/4/2386:2387, 1/4/2409:2412, 1/4/2512:2523, 1/4/2549:2563 | No text annotation | ||
| J7_6WNV_001 | 1/4/8:15, 1/4/525:531, 1/4/2146:2151, 1/4/2168:2171, 1/4/2753:2758, 1/4/2916:2917, 1/4/3022:3023 | No text annotation | ||
| J7_6WNV_002 | 1/4/817:822, 1/4/835:838, 1/4/940:946, 1/4/971:976, 1/4/987:991, 1/4/1291:1292, 1/4/1313:1318 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6WNV_005 | No text annotation | ||
| J3_6WNV_006 | No text annotation | ||
| J3_6WNV_007 | No text annotation | ||
| J3_6WNV_008 | No text annotation | ||
| J3_6WNV_029 | No text annotation | ||
| J3_6WNV_010 | No text annotation | ||
| J3_6WNV_012 | No text annotation | ||
| J3_6WNV_038 | No text annotation | ||
| J3_6WNV_018 | No text annotation |
Coloring options: