4QCN Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
HL_4QCN_001 | 1/A/58:67 | No text annotation | geometric HL_7RQB_001 NA | |
HL_4QCN_002 | 1/A/86:94 | No text annotation | geometric HL_7RQB_002 NA | |
HL_4QCN_003 | 1/A/121:126 | No text annotation | geometric HL_7RQB_003 NA | |
HL_4QCN_004 | 1/A/136:141 | No text annotation | geometric HL_7RQB_004 NA | |
HL_4QCN_005 | 1/A/183:190 | No text annotation | geometric HL_7RQB_006 NA | |
HL_4QCN_006 | 1/A/214:219 | No text annotation | geometric HL_7RQB_007 NA | |
HL_4QCN_007 | 1/A/235:241 | No text annotation | geometric HL_7RQB_008 NA | |
HL_4QCN_008 | 1/A/269:275 | No text annotation | geometric HL_5J7L_018 HL_37344.1 | |
HL_4QCN_009 | 1/A/329:336 | No text annotation | geometric HL_7RQB_010 NA | |
HL_4QCN_010 | 1/A/343:347 | No text annotation | geometric HL_7RQB_011 NA | |
HL_4QCN_011 | 1/A/351:359 | T-loop with unstacked turn | geometric HL_7RQB_012 NA | |
HL_4QCN_012 | 1/A/409:419 | No text annotation | geometric HL_7RQB_013 NA | |
HL_4QCN_013 | 1/A/437:444 | No text annotation | geometric HL_7RQB_014 NA | |
HL_4QCN_014 | 1/A/488:493 | GNRA | geometric HL_7RQB_015 NA | |
HL_4QCN_015 | 1/A/513:518 | GNRA | geometric HL_7RQB_016 NA | |
HL_4QCN_017 | 1/A/589:598 | No text annotation | geometric HL_7RQB_018 NA | |
HL_4QCN_018 | 1/A/635:641 | No text annotation | geometric HL_7RQB_019 NA | |
HL_4QCN_019 | 1/A/654:659 | GNRA | geometric HL_7RQB_020 NA | |
HL_4QCN_020 | 1/A/666:672 | GNRA | geometric HL_6VMY_001 HL_37824.6 | |
HL_4QCN_021 | 1/A/759:766 | No text annotation | geometric HL_7RQB_022 NA | |
HL_4QCN_022 | 1/A/791:800 | No text annotation | geometric HL_7RQB_023 NA | |
HL_4QCN_023 | 1/A/826:832 | No text annotation | geometric HL_7RQB_024 NA | |
HL_4QCN_024 | 1/A/873:878 | No text annotation | geometric HL_7RQB_025 NA | |
HL_4QCN_026 | 1/A/1000:1007 | GNRA | geometric HL_7RQB_027 NA | |
HL_4QCN_027 | 1/A/1024:1031 | No text annotation | geometric HL_7RQB_028 NA | |
HL_4QCN_030 | 1/A/1268:1273 | GNRA | geometric HL_7RQB_032 NA | |
HL_4QCN_031 | 1/A/1327:1335 | No text annotation | geometric HL_7RQB_033 NA | |
HL_4QCN_032 | 1/A/1370:1376 | No text annotation | geometric HL_7RQB_034 NA | |
HL_4QCN_033 | 1/A/1409:1414 | GNRA | geometric HL_7RQB_035 NA | |
HL_4QCN_034 | 1/A/1435:1444 | No text annotation | geometric HL_7RQB_036 NA | |
HL_4QCN_035 | 1/A/1499:1506 | No text annotation | geometric HL_7RQB_037 NA | |
HL_4QCN_036 | 1/A/1538:1544 | No text annotation | geometric HL_7RQB_038 NA | |
HL_4QCN_037 | 1/A/1612:1615 | No text annotation | geometric HL_7RQB_039 NA | |
HL_4QCN_038 | 1/A/1658:1665 | No text annotation | geometric HL_7RQB_040 NA | |
HL_4QCN_039 | 1/A/1677:1682 | No text annotation | geometric HL_7RQB_041 NA | |
HL_4QCN_040 | 1/A/1738:1743 | No text annotation | geometric HL_7RQB_042 NA | |
HL_4QCN_041 | 1/A/1765:1771 | No text annotation | geometric HL_7RQB_043 NA | |
HL_4QCN_042 | 1/A/1783:1787 | No text annotation | geometric HL_7RQB_044 NA | |
HL_4QCN_043 | 1/A/1808:1818 | No text annotation | geometric HL_7RQB_045 NA | |
HL_4QCN_044 | 1/A/1837:1842 | GNRA | geometric HL_7RQB_046 NA | |
HL_4QCN_045 | 1/A/1895:1900 | GNRA | geometric HL_7RQB_047 NA | |
HL_4QCN_046 | 1/A/1932:1942 | No text annotation | geometric HL_5TBW_049 NA | |
HL_4QCN_047 | 1/A/1971:1979 | No text annotation | geometric HL_7RQB_049 NA | |
HL_4QCN_048 | 1/A/2049:2058 | No text annotation | geometric HL_7RQB_050 NA | |
HL_4QCN_051 | 1/A/2260:2268 | No text annotation | geometric HL_4V9F_055 HL_85367.2 | |
HL_4QCN_052 | 1/A/2276:2288 | No text annotation | geometric HL_7RQB_054 NA | |
HL_4QCN_054 | 1/A/2336:2343 | Pseudoknot geometry | geometric HL_7RQB_056 NA | |
HL_4QCN_055 | 1/A/2367:2374 | No text annotation | geometric HL_7RQB_057 NA | |
HL_4QCN_056 | 1/A/2386:2391 | GNRA | geometric HL_7RQB_058 NA | |
HL_4QCN_057 | 1/A/2416:2425 | No text annotation | geometric HL_7RQB_059 NA | |
HL_4QCN_058 | 1/A/2483:2491 | No text annotation | geometric HL_7RQB_060 NA | |
HL_4QCN_059 | 1/A/2540:2547 | No text annotation | geometric HL_7RQB_061 NA | |
HL_4QCN_060 | 1/A/2563:2569 | No text annotation | geometric HL_4WF9_058 HL_30068.2 | |
HL_4QCN_061 | 1/A/2606:2611 | GNRA | geometric HL_7RQB_063 NA | |
HL_4QCN_062 | 1/A/2670:2675 | GNRA | geometric HL_7RQB_064 NA | |
HL_4QCN_063 | 1/A/2713:2718 | No text annotation | geometric HL_7RQB_065 NA | |
HL_4QCN_064 | 1/A/2758:2772 | No text annotation | geometric HL_7RQB_066 NA | |
HL_4QCN_066 | 1/A/2829:2837 | No text annotation | geometric HL_7RQB_068 NA | |
HL_4QCN_067 | 1/A/2866:2871 | GNRA | geometric HL_7RQB_069 NA | |
HL_4QCN_068 | 1/B/38:44 | No text annotation | geometric HL_7RQB_070 NA | |
HL_4QCN_069 | 1/B/86:91 | GNRA | geometric HL_7RQB_071 NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_4QCN_016 | No text annotation | ||
HL_4QCN_025 | No text annotation | ||
HL_4QCN_028 | No text annotation | ||
HL_4QCN_029 | No text annotation | ||
HL_4QCN_049 | UNCG | ||
HL_4QCN_050 | No text annotation | ||
HL_4QCN_053 | No text annotation | ||
HL_4QCN_065 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
IL_4QCN_001 | 1/A/24:30, 1/A/535:541 | Triple sheared with non-canonical cWW | geometric IL_7RQB_001 NA | |
IL_4QCN_002 | 1/A/36:37, 1/A/468:470 | Single bulged A | geometric IL_7RQB_002 NA | |
IL_4QCN_003 | 1/A/42:43, 1/A/461:463 | Minor groove platform | geometric IL_7RQB_003 NA | |
IL_4QCN_004 | 1/A/80:84, 1/A/96:103 | Kink-turn | geometric IL_7RQB_004 NA | |
IL_4QCN_005 | 1/A/172:173, 1/A/201:203 | Single stack bend | geometric IL_7RQB_005 NA | |
IL_4QCN_006 | 1/A/177:183, 1/A/190:197 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7RQB_006 NA | |
IL_4QCN_007 | 1/A/228:234, 1/A/242:247 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_7RQB_007 NA | |
IL_4QCN_008 | 1/A/291:292, 1/A/392:394 | Major groove platform | geometric IL_7RQB_009 NA | |
IL_4QCN_010 | 1/A/304:308, 1/A/381:384 | tSH-tHW | geometric IL_7RQB_011 NA | |
IL_4QCN_011 | 1/A/312:314, 1/A/374:377 | Isolated tHS basepair with bulges | geometric IL_7RQB_012 NA | |
IL_4QCN_012 | 1/A/317:319, 1/A/367:371 | No text annotation | geometric IL_7RQB_013 NA | |
IL_4QCN_013 | 1/A/507:510, 1/A/521:534 | No text annotation | geometric IL_7RQB_014 NA | |
IL_4QCN_014 | 1/A/587:589, 1/A/598:600 | No text annotation | geometric IL_7RQB_015 NA | |
IL_4QCN_015 | 1/A/629:633, 1/A/643:647 | AAA cross-strand stack | geometric IL_7RQB_016 NA | |
IL_4QCN_017 | 1/A/719:721, 1/A/853:855 | No text annotation | geometric IL_7RQB_017 NA | |
IL_4QCN_018 | 1/A/721:725, 1/A/846:853 | tHW-tHW cross-strand stack | geometric IL_7RQB_018 NA | |
IL_4QCN_019 | 1/A/744:745, 1/A/810:812 | Single bulged A | geometric IL_7RQB_019 NA | |
IL_4QCN_020 | 1/A/749:750, 1/A/775:777 | Single bulged G | geometric IL_7RQB_020 NA | |
IL_4QCN_021 | 1/A/750:754, 1/A/771:775 | Triple sheared | geometric IL_7RQB_021 NA | |
IL_4QCN_022 | 1/A/785:788, 1/A/803:805 | Major groove platform with extra cWW | geometric IL_7RQB_022 NA | |
IL_4QCN_023 | 1/A/822:824, 1/A/834:838 | Multiple bulged bases | geometric IL_7RQB_023 NA | |
IL_4QCN_024 | 1/A/884:885, 1/A/985:987 | Single stack bend | geometric IL_7RQB_024 NA | |
IL_4QCN_025 | 1/A/891:893, 1/A/976:979 | Intercalated cWW | geometric IL_7RQB_025 NA | |
IL_4QCN_026 | 1/A/893:897, 1/A/973:976 | No text annotation | geometric IL_7RQB_026 NA | |
IL_4QCN_027 | 1/A/905:909, 1/A/961:965 | 5x5 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_7RQB_027 NA | |
IL_4QCN_028 | 1/A/909:910, 1/A/959:961 | Minor groove platform | geometric IL_4V9F_034 IL_51454.1 | |
IL_4QCN_029 | 1/A/911:915, 1/A/955:958 | C-loop | geometric IL_7RQB_029 NA | |
IL_4QCN_030 | 1/A/917:919, 1/A/951:953 | Isolated cWS basepair | geometric IL_4WF9_034 NA | |
IL_4QCN_031 | 1/A/922:926, 1/A/944:948 | No text annotation | ||
IL_4QCN_033 | 1/A/997:999, 1/A/1008:1010 | No text annotation | geometric IL_7RQB_034 NA | |
IL_4QCN_034 | 1/A/1040:1042, 1/A/1205:1206 | Single bulged C | geometric IL_7RQB_035 NA | |
IL_4QCN_035 | 1/A/1044:1048, 1/A/1199:1203 | UAA/GAN | geometric IL_7RQB_036 NA | |
IL_4QCN_036 | 1/A/1050:1057, 1/A/1196:1197 | SSU/LSU pseudoknot | geometric IL_7RQB_037 NA | |
IL_4QCN_037 | 1/A/1057:1059, 1/A/1195:1196 | Single bulged U | geometric IL_7RQB_038 NA | |
IL_4QCN_038 | 1/A/1064:1070, 1/A/1185:1190 | Kink-turn related | geometric IL_4WF9_039 IL_57188.5 | |
IL_4QCN_039 | 1/A/1070:1076, 1/A/1170:1185 | No text annotation | geometric IL_7RQB_040 NA | |
IL_4QCN_040 | 1/A/1077:1080, 1/A/1167:1169 | Isolated non-canonical cWW pair | geometric IL_7RQB_041 NA | |
IL_4QCN_041 | 1/A/1241:1243, 1/A/1293:1296 | Isolated cWS basepair | geometric IL_7RQB_045 NA | |
IL_4QCN_042 | 1/A/1247:1251, 1/A/1286:1289 | No text annotation | geometric IL_7RQB_046 NA | |
IL_4QCN_043 | 1/A/1253:1260, 1/A/1280:1284 | Kink-turn | geometric IL_7RQB_047 NA | |
IL_4QCN_044 | 1/A/1264:1266, 1/A/1275:1276 | Single bulged A | geometric IL_7RQB_048 NA | |
IL_4QCN_045 | 1/A/1308:1315, 1/A/2033:2039 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7RQB_049 NA | |
IL_4QCN_046 | 1/A/1356:1359, 1/A/1649:1650 | Major groove platform; stack outside cWW | geometric IL_7RQB_050 NA | |
IL_4QCN_047 | 1/A/1365:1369, 1/A/1377:1379 | C-loop | geometric IL_7RQB_051 NA | |
IL_4QCN_048 | 1/A/1397:1401, 1/A/1422:1426 | UAA/GAN | geometric IL_7RQB_052 NA | |
IL_4QCN_049 | 1/A/1403:1407, 1/A/1416:1420 | tSH-tHW-tHS | geometric IL_7RQB_053 NA | |
IL_4QCN_050 | 1/A/1461:1462, 1/A/1629:1633 | No text annotation | geometric IL_7RQB_054 NA | |
IL_4QCN_051 | 1/A/1463:1467, 1/A/1624:1628 | UAA/GAN | geometric IL_7RQB_055 NA | |
IL_4QCN_052 | 1/A/1479:1481, 1/A/1604:1607 | Isolated tWW turn | geometric IL_7RQB_056 NA | |
IL_4QCN_053 | 1/A/1483:1486, 1/A/1598:1602 | tSH-tHW | geometric IL_7RQB_057 NA | |
IL_4QCN_054 | 1/A/1495:1497, 1/A/1509:1510 | Single stack bend | geometric IL_7RQB_058 NA | |
IL_4QCN_055 | 1/A/1498:1499, 1/A/1506:1508 | Single bulged A | geometric IL_7RQB_059 NA | |
IL_4QCN_056 | 1/A/1516:1520, 1/A/1566:1569 | UAA/GAN | geometric IL_7RQB_060 NA | |
IL_4QCN_057 | 1/A/1528:1529, 1/A/1552:1558 | No text annotation | geometric IL_7RQB_061 NA | |
IL_4QCN_058 | 1/A/1535:1537, 1/A/1545:1546 | Single bulged A | geometric IL_7RQB_062 NA | |
IL_4QCN_060 | 1/A/1698:1703, 1/A/2026:2028 | No text annotation | geometric IL_7RQB_064 NA | |
IL_4QCN_061 | 1/A/1710:1712, 1/A/2017:2019 | Isolated tWW turn | geometric IL_7RQB_065 NA | |
IL_4QCN_062 | 1/A/1713:1716, 1/A/2015:2016 | Major groove platform; stack outside cWW | geometric IL_7RQB_066 NA | |
IL_4QCN_063 | 1/A/1716:1721, 1/A/2012:2015 | Intercalated tWH | geometric IL_7RQB_067 NA | |
IL_4QCN_064 | 1/A/1733:1738, 1/A/1743:1749 | tSH-tSH-tHH-tHS | geometric IL_7RQB_068 NA | |
IL_4QCN_065 | 1/A/1801:1802, 1/A/2002:2004 | Single bulged A | geometric IL_7RQB_069 NA | |
IL_4QCN_066 | 1/A/1829:1835, 1/A/1844:1852 | Kink-turn related | geometric IL_7RQB_070 NA | |
IL_4QCN_067 | 1/A/1868:1871, 1/A/1924:1925 | Minor groove platform, major groove intercalation | geometric IL_7RQB_071 NA | |
IL_4QCN_068 | 1/A/1872:1873, 1/A/1920:1923 | Major groove intercalation | geometric IL_7RQB_072 NA | |
IL_4QCN_069 | 1/A/1877:1880, 1/A/1915:1916 | Minor groove platform | geometric IL_7RQB_073 NA | |
IL_4QCN_070 | 1/A/1882:1886, 1/A/1909:1913 | UAA/GAN with extra pair | geometric IL_7RQB_074 NA | |
IL_4QCN_071 | 1/A/1887:1891, 1/A/1904:1908 | Triple sheared | geometric IL_7RQB_075 NA | |
IL_4QCN_072 | 1/A/1955:1956, 1/A/1986:1989 | Bulged stacked bases | geometric IL_7RQB_076 NA | |
IL_4QCN_073 | 1/A/1956:1967, 1/A/1983:1986 | No text annotation | geometric IL_4WF9_077 IL_42218.2 | |
IL_4QCN_074 | 1/A/2072:2074, 1/A/2629:2630 | Major groove platform | geometric IL_7RQB_078 NA | |
IL_4QCN_075 | 1/A/2076:2079, 1/A/2623:2627 | No text annotation | geometric IL_7RQB_079 NA | |
IL_4QCN_076 | 1/A/2089:2091, 1/A/2454:2455 | Single bulged U | geometric IL_7RQB_080 NA | |
IL_4QCN_077 | 1/A/2092:2093, 1/A/2450:2453 | Minor groove platform | geometric IL_7RQB_081 NA | |
IL_4QCN_078 | 1/A/2103:2105, 1/A/2248:2251 | Isolated tHS basepair with bulges | geometric IL_7RQB_082 NA | |
IL_4QCN_079 | 1/A/2107:2109, 1/A/2244:2246 | No text annotation | geometric IL_7RQB_083 NA | |
IL_4QCN_085 | 1/A/2309:2311, 1/A/2329:2333 | Isolated tHS basepair with bulges | geometric IL_7RQB_088 NA | |
IL_4QCN_086 | 1/A/2362:2365, 1/A/2376:2379 | Double sheared | geometric IL_7RQB_089 NA | |
IL_4QCN_087 | 1/A/2413:2415, 1/A/2426:2427 | Major groove platform | geometric IL_7RQB_090 NA | |
IL_4QCN_088 | 1/A/2465:2466, 1/A/2510:2512 | Single stack bend | geometric IL_7RQB_091 NA | |
IL_4QCN_089 | 1/A/2466:2467, 1/A/2508:2510 | Major groove platform | geometric IL_7RQB_092 NA | |
IL_4QCN_091 | 1/A/2471:2473, 1/A/2501:2505 | Major groove minor groove platform with extra cWW | geometric IL_7RQB_094 NA | |
IL_4QCN_092 | 1/A/2478:2482, 1/A/2492:2496 | Triple sheared | geometric IL_7RQB_095 NA | |
IL_4QCN_093 | 1/A/2519:2520, 1/A/2592:2594 | Major groove platform | geometric IL_7RQB_096 NA | |
IL_4QCN_094 | 1/A/2522:2524, 1/A/2586:2590 | Isolated non-canonical cWW with bulges | geometric IL_7RQB_097 NA | |
IL_4QCN_095 | 1/A/2524:2525, 1/A/2583:2586 | Multiple bulged bases | geometric IL_7RQB_098 NA | |
IL_4QCN_096 | 1/A/2534:2535, 1/A/2552:2555 | Major groove platform with intercalation | geometric IL_7RQB_099 NA | |
IL_4QCN_098 | 1/A/2603:2604, 1/A/2613:2615 | Single bulged A | geometric IL_7RQB_101 NA | |
IL_4QCN_099 | 1/A/2648:2652, 1/A/2787:2795 | tSH-tHS-tHW | geometric IL_7RQB_102 NA | |
IL_4QCN_100 | 1/A/2664:2670, 1/A/2675:2680 | Sarcin-Ricin target in LSU H95; G-bulge | geometric IL_7RQB_103 NA | |
IL_4QCN_101 | 1/A/2692:2696, 1/A/2738:2740 | C-loop | geometric IL_7RQB_104 NA | |
IL_4QCN_102 | 1/A/2699:2703, 1/A/2731:2735 | No text annotation | geometric IL_7RQB_105 NA | |
IL_4QCN_103 | 1/A/2707:2708, 1/A/2723:2727 | Multiple bulged bases | geometric IL_7RQB_106 NA | |
IL_4QCN_104 | 1/A/2750:2755, 1/A/2775:2780 | UAA/GAN with extra cWW | geometric IL_7RQB_107 NA | |
IL_4QCN_105 | 1/A/2848:2849, 1/A/2888:2890 | Major groove intercalation | geometric IL_5J7L_315 IL_82107.3 | |
IL_4QCN_106 | 1/A/2853:2856, 1/A/2880:2884 | No text annotation | geometric IL_7RQB_109 NA | |
IL_4QCN_107 | 1/A/2857:2862, 1/A/2875:2879 | tHS double platform | geometric IL_7RQB_110 NA | |
IL_4QCN_108 | 1/B/17:18, 1/B/65:67 | Major groove intercalation | geometric IL_7RQB_111 NA | |
IL_4QCN_109 | 1/B/23:28, 1/B/56:60 | No text annotation | geometric IL_5J7L_356 IL_18472.4 | |
IL_4QCN_110 | 1/B/30:31, 1/B/51:54 | Major groove minor groove platform; mini C-loop | geometric IL_7RQB_113 NA | |
IL_4QCN_111 | 1/B/34:38, 1/B/44:48 | Symmetric double minor groove platform | geometric IL_7RQB_114 NA | |
IL_4QCN_112 | 1/B/71:79, 1/B/98:106 | Bacterial 5S Loop E | geometric IL_7RQB_115 NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_4QCN_009 | No text annotation | ||
IL_4QCN_032 | No text annotation | ||
IL_4QCN_059 | No text annotation | ||
IL_4QCN_080 | Isolated non-canonical cWW pair | ||
IL_4QCN_081 | Multiple bulged bases | ||
IL_4QCN_082 | No text annotation | ||
IL_4QCN_083 | Kink-turn | ||
IL_4QCN_090 | Major groove platform with extra pair |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
J3_4QCN_001 | 1/A/730:736, 1/A/820:822, 1/A/838:841 | No text annotation | geometric J3_9DFE_007 J3_64189.2 | |
J3_4QCN_002 | 1/A/745:747, 1/A/779:783, 1/A/807:810 | No text annotation | geometric J3_9DFE_008 J3_44724.7 | |
J3_4QCN_003 | 1/A/1344:1349, 1/A/1671:1673, 1/A/1686:1689 | No text annotation | geometric J3_9DFE_010 J3_32852.6 | |
J3_4QCN_004 | 1/A/1352:1355, 1/A/1651:1657, 1/A/1666:1668 | No text annotation | geometric J3_9DFE_011 J3_71677.1 | |
J3_4QCN_005 | 1/A/2113:2115, 1/A/2218:2222, 1/A/2235:2240 | No text annotation | geometric J3_9DFE_014 J3_89368.5 | |
J3_4QCN_006 | 1/A/2307:2309, 1/A/2333:2335, 1/A/2344:2349 | No text annotation | geometric J3_9DFE_016 J3_61124.2 | |
J3_4QCN_007 | 1/A/2529:2532, 1/A/2557:2559, 1/A/2573:2579 | No text annotation | geometric J3_9DFE_017 J3_32601.5 |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
J3_4QCN_008 | No text annotation |
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