6SJ6 Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6SJ6_001 | 1/A/67:74 | No text annotation Not in a motif group | geometric HL_4WF9_001 HL_86769.3 | |
| HL_6SJ6_002 | 1/A/87:95 | No text annotation Not in a motif group | geometric HL_5TBW_004 HL_98426.1 | |
| HL_6SJ6_003 | 1/A/122:127 | No text annotation Not in a motif group | homologous HL_4WF9_003 HL_75407.1 | |
| HL_6SJ6_004 | 1/A/135:144 | No text annotation Not in a motif group | geometric HL_5TBW_028 HL_09136.1 | |
| HL_6SJ6_005 | 1/A/153:175 | No text annotation Not in a motif group | ||
| HL_6SJ6_006 | 1/A/190:212 | No text annotation Not in a motif group | ||
| HL_6SJ6_008 | 1/A/249:255 | No text annotation Not in a motif group | homologous HL_5J7L_141 HL_67216.7 | |
| HL_6SJ6_009 | 1/A/283:288 | No text annotation Not in a motif group | ||
| HL_6SJ6_010 | 1/A/345:358 | No text annotation Not in a motif group | ||
| HL_6SJ6_011 | 1/A/362:366 | No text annotation Not in a motif group | homologous HL_7RQB_011 HL_75407.1 | |
| HL_6SJ6_012 | 1/A/370:378 | No text annotation Not in a motif group | homologous HL_5J7L_144 HL_08002.9 | |
| HL_6SJ6_013 | 1/A/426:440 | No text annotation Not in a motif group | ||
| HL_6SJ6_014 | 1/A/456:463 | No text annotation Not in a motif group | homologous HL_5J7L_146 HL_96598.1 | |
| HL_6SJ6_015 | 1/A/508:513 | GNRA Not in a motif group | homologous HL_4WF9_015 HL_42097.2 | |
| HL_6SJ6_016 | 1/A/533:538 | No text annotation Not in a motif group | homologous HL_7RQB_016 HL_42097.2 | |
| HL_6SJ6_017 | 1/A/587:594 | No text annotation Not in a motif group | homologous HL_4WF9_017 HL_50318.1 | |
| HL_6SJ6_018 | 1/A/609:618 | T-loop with 2 stacked bulged bases Not in a motif group | geometric HL_4WF9_018 HL_89380.2 | |
| HL_6SJ6_019 | 1/A/655:661 | No text annotation Not in a motif group | geometric HL_2ZNI_001 HL_75407.1 | |
| HL_6SJ6_020 | 1/A/674:679 | No text annotation Not in a motif group | homologous HL_7RQB_020 HL_42097.2 | |
| HL_6SJ6_022 | 1/A/789:798 | No text annotation Not in a motif group | homologous HL_4WF9_023 HL_39334.6 | |
| HL_6SJ6_023 | 1/A/824:830 | No text annotation Not in a motif group | homologous HL_5J7L_156 HL_74322.1 | |
| HL_6SJ6_024 | 1/A/871:876 | No text annotation Not in a motif group | homologous HL_7A0S_024 HL_64365.1 | |
| HL_6SJ6_026 | 1/A/999:1006 | No text annotation Not in a motif group | homologous HL_7RQB_027 HL_42097.2 | |
| HL_6SJ6_027 | 1/A/1022:1029 | No text annotation Not in a motif group | homologous HL_5J7L_160 HL_64430.2 | |
| HL_6SJ6_029 | 1/A/1213:1219 | No text annotation Not in a motif group | geometric HL_5J7L_151 HL_90617.2 | |
| HL_6SJ6_030 | 1/A/1260:1265 | No text annotation Not in a motif group | homologous HL_4WF9_031 HL_87030.2 | |
| HL_6SJ6_031 | 1/A/1318:1326 | T-loop with 2 stacked bulged bases Not in a motif group | homologous HL_4WF9_032 HL_89380.2 | |
| HL_6SJ6_032 | 1/A/1361:1367 | No text annotation Not in a motif group | homologous HL_4WF9_033 HL_46680.1 | |
| HL_6SJ6_033 | 1/A/1400:1405 | No text annotation Not in a motif group | homologous HL_7RQB_035 HL_87030.2 | |
| HL_6SJ6_034 | 1/A/1425:1436 | No text annotation Not in a motif group | ||
| HL_6SJ6_036 | 1/A/1656:1663 | No text annotation Not in a motif group | homologous HL_7RQB_040 HL_64430.2 | |
| HL_6SJ6_037 | 1/A/1673:1681 | No text annotation Not in a motif group | homologous HL_4WF9_039 HL_92229.2 | |
| HL_6SJ6_038 | 1/A/1735:1740 | No text annotation Not in a motif group | homologous HL_7RQB_042 HL_03562.2 | |
| HL_6SJ6_039 | 1/A/1760:1769 | No text annotation Not in a motif group | ||
| HL_6SJ6_040 | 1/A/1779:1783 | No text annotation Not in a motif group | homologous HL_7RQB_044 HL_76539.2 | |
| HL_6SJ6_041 | 1/A/1804:1814 | No text annotation Not in a motif group | homologous HL_4WF9_043 HL_43613.5 | |
| HL_6SJ6_042 | 1/A/1833:1838 | No text annotation Not in a motif group | homologous HL_7RQB_046 HL_42097.2 | |
| HL_6SJ6_044 | 1/A/1975:1985 | No text annotation Not in a motif group | ||
| HL_6SJ6_045 | 1/A/2054:2063 | No text annotation Not in a motif group | homologous HL_4WF9_047 HL_90642.6 | |
| HL_6SJ6_048 | 1/A/2275:2283 | No text annotation Not in a motif group | homologous HL_5J7L_186 NA | |
| HL_6SJ6_049 | 1/A/2291:2303 | No text annotation Not in a motif group | homologous HL_4WF9_050 HL_19870.6 | |
| HL_6SJ6_050 | 1/A/2350:2359 | No text annotation Not in a motif group | geometric HL_6JXM_002 HL_77232.1 | |
| HL_6SJ6_051 | 1/A/2382:2389 | No text annotation Not in a motif group | homologous HL_4WF9_053 HL_09136.1 | |
| HL_6SJ6_052 | 1/A/2399:2408 | No text annotation Not in a motif group | ||
| HL_6SJ6_053 | 1/A/2431:2440 | No text annotation Not in a motif group | ||
| HL_6SJ6_054 | 1/A/2498:2506 | No text annotation Not in a motif group | geometric HL_5TBW_012 HL_86373.2 | |
| HL_6SJ6_055 | 1/A/2554:2563 | No text annotation Not in a motif group | geometric HL_7RQB_068 HL_27930.1 | |
| HL_6SJ6_056 | 1/A/2578:2584 | No text annotation Not in a motif group | homologous HL_4WF9_058 HL_43656.2 | |
| HL_6SJ6_057 | 1/A/2621:2626 | GNRA Not in a motif group | homologous HL_5J7L_196 HL_42097.2 | |
| HL_6SJ6_058 | 1/A/2685:2690 | No text annotation Not in a motif group | homologous HL_7RQB_064 HL_42097.2 | |
| HL_6SJ6_059 | 1/A/2727:2734 | No text annotation Not in a motif group | ||
| HL_6SJ6_060 | 1/A/2769:2789 | No text annotation Not in a motif group | ||
| HL_6SJ6_061 | 1/A/2838:2848 | No text annotation Not in a motif group | ||
| HL_6SJ6_062 | 1/A/2874:2883 | No text annotation Not in a motif group | ||
| HL_6SJ6_064 | 1/B/83:88 | No text annotation Not in a motif group | geometric HL_5TBW_002 HL_02862.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6SJ6_007 | No text annotation | ||
| HL_6SJ6_021 | No text annotation | ||
| HL_6SJ6_025 | No text annotation | ||
| HL_6SJ6_028 | No text annotation | ||
| HL_6SJ6_035 | No text annotation | ||
| HL_6SJ6_043 | No text annotation | ||
| HL_6SJ6_046 | No text annotation | ||
| HL_6SJ6_047 | No text annotation | ||
| HL_6SJ6_063 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6SJ6_001 | 1/A/24:30, 1/A/555:561 | Triple sheared with non-canonical cWW Not in a motif group | homologous IL_4WF9_001 IL_66414.6 | |
| IL_6SJ6_002 | 1/A/36:37, 1/A/488:490 | Single bulged A Not in a motif group | homologous IL_7A0S_002 IL_37497.3 | |
| IL_6SJ6_003 | 1/A/42:45, 1/A/479:483 | No text annotation Not in a motif group | ||
| IL_6SJ6_004 | 1/A/80:85, 1/A/97:105 | Kink-turn Not in a motif group | geometric IL_4LFB_031 IL_37722.1 | |
| IL_6SJ6_005 | 1/A/152:153, 1/A/175:177 | Major groove platform Not in a motif group | geometric IL_4WF9_078 IL_27635.2 | |
| IL_6SJ6_006 | 1/A/186:189, 1/A/213:217 | No text annotation Not in a motif group | geometric IL_1J2B_001 IL_58686.2 | |
| IL_6SJ6_007 | 1/A/241:248, 1/A/256:262 | 8x7 Sarcin-Ricin; G-bulge Not in a motif group | homologous IL_4WF9_009 IL_04346.7 | |
| IL_6SJ6_008 | 1/A/334:338, 1/A/386:392 | No text annotation Not in a motif group | ||
| IL_6SJ6_009 | 1/A/527:530, 1/A/541:554 | No text annotation Not in a motif group | homologous IL_4WF9_015 IL_60992.6 | |
| IL_6SJ6_010 | 1/A/581:584, 1/A/597:600 | Double sheared Not in a motif group | homologous IL_4WF9_016 IL_09705.9 | |
| IL_6SJ6_011 | 1/A/607:609, 1/A/618:620 | No text annotation Not in a motif group | homologous IL_7A0S_011 IL_95997.1 | |
| IL_6SJ6_012 | 1/A/638:640, 1/A/704:707 | No text annotation Not in a motif group | homologous IL_4WF9_018 IL_51629.2 | |
| IL_6SJ6_013 | 1/A/649:653, 1/A/663:667 | AAA cross-strand stack Not in a motif group | homologous IL_4WF9_019 IL_17136.1 | |
| IL_6SJ6_014 | 1/A/717:719, 1/A/851:853 | No text annotation Not in a motif group | geometric IL_5J7L_259 IL_95997.1 | |
| IL_6SJ6_015 | 1/A/719:723, 1/A/844:851 | tHW-tHW cross-strand stack Not in a motif group | homologous IL_4WF9_021 IL_17470.6 | |
| IL_6SJ6_016 | 1/A/742:743, 1/A/808:810 | Single bulged A Not in a motif group | homologous IL_5J7L_261 IL_37497.3 | |
| IL_6SJ6_017 | 1/A/746:753, 1/A/768:776 | No text annotation Not in a motif group | ||
| IL_6SJ6_018 | 1/A/783:785, 1/A/802:803 | Major groove platform Not in a motif group | homologous IL_4WF9_026 IL_27635.2 | |
| IL_6SJ6_019 | 1/A/820:822, 1/A/832:836 | Multiple bulged bases Not in a motif group | geometric IL_4V9F_030 IL_90991.6 | |
| IL_6SJ6_020 | 1/A/882:883, 1/A/984:986 | Single stack bend Not in a motif group | homologous IL_7A0S_022 IL_92001.1 | |
| IL_6SJ6_021 | 1/A/888:895, 1/A/973:979 | No text annotation Not in a motif group | ||
| IL_6SJ6_022 | 1/A/897:898, 1/A/969:971 | No text annotation Not in a motif group | ||
| IL_6SJ6_023 | 1/A/901:907, 1/A/960:966 | 7x7 Sarcin-Ricin with intercalated A; G-bulge Not in a motif group | geometric IL_4WF9_031 IL_93830.3 | |
| IL_6SJ6_024 | 1/A/907:909, 1/A/957:960 | No text annotation Not in a motif group | ||
| IL_6SJ6_025 | 1/A/909:915, 1/A/952:957 | No text annotation Not in a motif group | ||
| IL_6SJ6_026 | 1/A/1038:1040, 1/A/1203:1204 | Single bulged C Not in a motif group | homologous IL_7RQB_035 IL_61258.12 | |
| IL_6SJ6_027 | 1/A/1042:1046, 1/A/1197:1201 | UAA/GAN Not in a motif group | homologous IL_7A0S_033 IL_89002.2 | |
| IL_6SJ6_028 | 1/A/1048:1055, 1/A/1194:1195 | SSU/LSU pseudoknot Not in a motif group | homologous IL_4WF9_037 IL_15861.7 | |
| IL_6SJ6_029 | 1/A/1055:1057, 1/A/1193:1194 | Single bulged U Not in a motif group | geometric IL_5J7L_279 IL_83039.14 | |
| IL_6SJ6_030 | 1/A/1061:1068, 1/A/1184:1189 | No text annotation Not in a motif group | ||
| IL_6SJ6_031 | 1/A/1068:1074, 1/A/1168:1184 | No text annotation Not in a motif group | geometric IL_4WF9_040 IL_50715.1 | |
| IL_6SJ6_032 | 1/A/1235:1238, 1/A/1284:1288 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_3WBM_002 IL_30621.3 | |
| IL_6SJ6_033 | 1/A/1243:1245, 1/A/1277:1279 | Isolated cWH basepair Not in a motif group | homologous IL_4WF9_045 IL_51629.2 | |
| IL_6SJ6_034 | 1/A/1246:1253, 1/A/1272:1276 | Kink-turn Not in a motif group | homologous IL_5J7L_288 IL_70923.2 | |
| IL_6SJ6_035 | 1/A/1257:1259, 1/A/1266:1268 | Intercalated cWW Not in a motif group | homologous IL_4WF9_047 IL_82842.2 | |
| IL_6SJ6_036 | 1/A/1300:1307, 1/A/2038:2044 | 8x7 Sarcin-Ricin; G-bulge Not in a motif group | homologous IL_7RQB_049 IL_04346.7 | |
| IL_6SJ6_037 | 1/A/1347:1350, 1/A/1647:1648 | Major groove platform; stack outside cWW Not in a motif group | homologous IL_4WF9_049 IL_50694.2 | |
| IL_6SJ6_038 | 1/A/1356:1360, 1/A/1368:1370 | Major groove minor groove platform with tHH Not in a motif group | homologous IL_4WF9_050 IL_37712.2 | |
| IL_6SJ6_039 | 1/A/1388:1392, 1/A/1413:1417 | UAA/GAN Not in a motif group | homologous IL_4WF9_051 IL_89002.2 | |
| IL_6SJ6_040 | 1/A/1393:1398, 1/A/1407:1412 | No text annotation Not in a motif group | ||
| IL_6SJ6_041 | 1/A/1461:1467, 1/A/1622:1627 | tSH-tHW-tHS-cWW Not in a motif group | geometric IL_6DVK_004 IL_76308.4 | |
| IL_6SJ6_042 | 1/A/1693:1700, 1/A/2031:2035 | No text annotation Not in a motif group | ||
| IL_6SJ6_043 | 1/A/1707:1709, 1/A/2022:2024 | Isolated tWW turn Not in a motif group | homologous IL_7A0S_060 IL_54997.7 | |
| IL_6SJ6_044 | 1/A/1710:1713, 1/A/2020:2021 | Major groove platform; stack outside cWW Not in a motif group | homologous IL_4WF9_064 IL_50694.2 | |
| IL_6SJ6_045 | 1/A/1713:1718, 1/A/2017:2020 | Intercalated tWH Not in a motif group | geometric IL_4WF9_065 IL_82842.2 | |
| IL_6SJ6_046 | 1/A/1730:1735, 1/A/1740:1746 | tSH-tSH-tHH-tHS Not in a motif group | geometric IL_4V9F_063 IL_65969.2 | |
| IL_6SJ6_047 | 1/A/1756:1759, 1/A/1770:1773 | No text annotation Not in a motif group | ||
| IL_6SJ6_048 | 1/A/1797:1798, 1/A/2007:2009 | Single bulged A Not in a motif group | homologous IL_4WF9_068 IL_37497.3 | |
| IL_6SJ6_049 | 1/A/1825:1831, 1/A/1840:1848 | Kink-turn related Not in a motif group | homologous IL_7RQB_070 IL_17069.3 | |
| IL_6SJ6_050 | 1/A/1960:1961, 1/A/1991:1994 | Multiple bulged bases Not in a motif group | geometric IL_6IV9_001 IL_16396.2 | |
| IL_6SJ6_051 | 1/A/1961:1975, 1/A/1985:1991 | No text annotation Not in a motif group | ||
| IL_6SJ6_052 | 1/A/2077:2079, 1/A/2644:2645 | Major groove platform Not in a motif group | homologous IL_7RQB_078 IL_27635.2 | |
| IL_6SJ6_053 | 1/A/2081:2083, 1/A/2639:2642 | No text annotation Not in a motif group | homologous IL_5J7L_321 IL_54678.5 | |
| IL_6SJ6_054 | 1/A/2094:2096, 1/A/2469:2470 | Single bulged U Not in a motif group | homologous IL_7RQB_080 IL_83039.14 | |
| IL_6SJ6_055 | 1/A/2097:2099, 1/A/2464:2468 | No text annotation Not in a motif group | geometric IL_4V8Q_188 IL_95997.1 | |
| IL_6SJ6_056 | 1/A/2108:2110, 1/A/2263:2266 | Isolated tHS basepair with bulges Not in a motif group | homologous IL_7RQB_082 IL_38958.7 | |
| IL_6SJ6_057 | 1/A/2228:2231, 1/A/2247:2249 | No text annotation Not in a motif group | geometric IL_5UNE_001 IL_53251.2 | |
| IL_6SJ6_058 | 1/A/2319:2350, 1/A/2359:2367 | No text annotation Not in a motif group | ||
| IL_6SJ6_059 | 1/A/2377:2380, 1/A/2391:2394 | Double sheared Not in a motif group | homologous IL_4WF9_087 IL_09705.9 | |
| IL_6SJ6_060 | 1/A/2428:2430, 1/A/2441:2442 | Single bulged U Not in a motif group | homologous IL_4WF9_088 IL_83039.14 | |
| IL_6SJ6_061 | 1/A/2480:2481, 1/A/2525:2527 | Single stack bend Not in a motif group | homologous IL_4WF9_089 IL_76488.2 | |
| IL_6SJ6_062 | 1/A/2481:2482, 1/A/2523:2525 | Major groove platform Not in a motif group | geometric IL_4V9F_082 IL_27635.2 | |
| IL_6SJ6_063 | 1/A/2484:2486, 1/A/2520:2521 | Major groove platform Not in a motif group | homologous IL_4WF9_091 IL_27635.2 | |
| IL_6SJ6_064 | 1/A/2486:2488, 1/A/2516:2520 | Major groove minor groove platform with extra cWW Not in a motif group | geometric IL_7RQB_094 IL_92788.2 | |
| IL_6SJ6_065 | 1/A/2493:2498, 1/A/2506:2511 | No text annotation Not in a motif group | geometric IL_5TBW_026 IL_19954.2 | |
| IL_6SJ6_066 | 1/A/2534:2536, 1/A/2606:2609 | Major groove platform with extra pair Not in a motif group | geometric IL_7RQB_093 IL_63450.2 | |
| IL_6SJ6_067 | 1/A/2537:2539, 1/A/2601:2605 | Isolated non-canonical cWW with bulges Not in a motif group | homologous IL_4WF9_095 IL_90933.2 | |
| IL_6SJ6_068 | 1/A/2539:2540, 1/A/2598:2601 | Multiple bulged bases Not in a motif group | geometric IL_7RQB_098 IL_71530.2 | |
| IL_6SJ6_069 | 1/A/2548:2550, 1/A/2567:2571 | No text annotation Not in a motif group | ||
| IL_6SJ6_070 | 1/A/2618:2619, 1/A/2628:2630 | Major groove platform Not in a motif group | geometric IL_7A0S_088 IL_76223.2 | |
| IL_6SJ6_071 | 1/A/2663:2667, 1/A/2801:2809 | tSH-tHS-tHW Not in a motif group | homologous IL_4WF9_099 IL_04638.1 | |
| IL_6SJ6_072 | 1/A/2678:2685, 1/A/2690:2696 | No text annotation Not in a motif group | ||
| IL_6SJ6_073 | 1/A/2707:2711, 1/A/2752:2754 | C-loop Not in a motif group | homologous IL_4WF9_101 IL_63596.6 | |
| IL_6SJ6_074 | 1/A/2714:2718, 1/A/2745:2749 | No text annotation Not in a motif group | homologous IL_4WF9_102 IL_08296.3 | |
| IL_6SJ6_075 | 1/A/2722:2725, 1/A/2736:2741 | No text annotation Not in a motif group | ||
| IL_6SJ6_076 | 1/A/2764:2769, 1/A/2789:2794 | UAA/GAN with extra cWW Not in a motif group | geometric IL_4WF9_104 IL_49767.5 | |
| IL_6SJ6_078 | 1/A/2858:2859, 1/A/2898:2900 | Single bulged C Not in a motif group | homologous IL_7RQB_108 IL_61258.12 | |
| IL_6SJ6_079 | 1/A/2863:2865, 1/A/2891:2894 | No text annotation Not in a motif group | homologous IL_4WF9_107 IL_02284.5 | |
| IL_6SJ6_080 | 1/A/2867:2874, 1/A/2883:2889 | No text annotation Not in a motif group | ||
| IL_6SJ6_081 | 1/B/21:27, 1/B/53:58 | No text annotation Not in a motif group | ||
| IL_6SJ6_082 | 1/B/28:30, 1/B/48:52 | No text annotation Not in a motif group | homologous IL_4WF9_114 IL_10810.1 | |
| IL_6SJ6_083 | 1/B/77:80, 1/B/91:94 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6JDV_002 IL_30621.3 | |
| IL_6SJ6_084 | 1/B/80:82, 1/B/90:91 | Single stack bend Not in a motif group | geometric IL_7KGA_003 IL_76488.2 | |
| IL_6SJ6_085 | 1/B/82:83, 1/B/88:90 | Single base bend Not in a motif group | geometric IL_5IBB_340 IL_92001.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6SJ6_077 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6SJ6_001 | 1/A/30:31, 1/A/520:527, 1/A/554:555 | No text annotation Not in a motif group | ||
| J3_6SJ6_002 | 1/A/55:67, 1/A/74:76, 1/A/109:114 | No text annotation Not in a motif group | ||
| J3_6SJ6_003 | 1/A/727:734, 1/A/818:820, 1/A/836:840 | No text annotation Not in a motif group | ||
| J3_6SJ6_004 | 1/A/743:745, 1/A/777:781, 1/A/805:808 | No text annotation Not in a motif group | ||
| J3_6SJ6_005 | 1/A/1335:1340, 1/A/1669:1672, 1/A/1682:1686 | No text annotation Not in a motif group | ||
| J3_6SJ6_006 | 1/A/1341:1346, 1/A/1649:1655, 1/A/1664:1668 | No text annotation Not in a motif group | ||
| J3_6SJ6_007 | 1/A/1350:1351, 1/A/1375:1382, 1/A/1645:1647 | No text annotation Not in a motif group | ||
| J3_6SJ6_009 | 1/A/2118:2123, 1/A/2220:2228, 1/A/2249:2255 | No text annotation Not in a motif group | ||
| J3_6SJ6_010 | 1/A/2309:2312, 1/A/2410:2423, 1/A/2447:2454 | No text annotation Not in a motif group | ||
| J3_6SJ6_011 | 1/A/2544:2547, 1/A/2572:2574, 1/A/2588:2594 | No text annotation Not in a motif group | ||
| J3_6SJ6_012 | 1/A/2831:2835, 1/A/2851:2856, 1/A/2902:2909 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6SJ6_008 | No text annotation |
Coloring options: