9K0Z Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9K0Z_002 | 1/2/30:40 | No text annotation | geometric HL_5IB8_208 HL_36684.4 | |
| HL_9K0Z_004 | 1/A/16:26 | No text annotation | geometric HL_4LFB_001 HL_89881.5 | |
| HL_9K0Z_010 | 1/A/296:301 | GNRA | geometric HL_4LFB_007 HL_37824.8 | |
| HL_9K0Z_011 | 1/A/320:333 | No text annotation | ||
| HL_9K0Z_020 | 1/A/766:776 | No text annotation | geometric HL_4LFB_017 HL_75293.5 | |
| HL_9K0Z_024 | 1/A/945:954 | No text annotation | geometric HL_4LFB_021 HL_50779.4 | |
| HL_9K0Z_035 | 1/B/35:49 | No text annotation | geometric HL_5NS3_003 HL_97756.2 | |
| HL_9K0Z_036 | 1/B/39:45 | No text annotation | geometric HL_1MJI_002 HL_47787.2 | |
| HL_9K0Z_038 | 1/h/56:65 | No text annotation | ||
| HL_9K0Z_039 | 1/h/84:93 | No text annotation | ||
| HL_9K0Z_040 | 1/h/120:125 | No text annotation | geometric HL_9DFE_003 HL_82710.2 | |
| HL_9K0Z_043 | 1/h/193:200 | No text annotation | geometric HL_4WF9_006 HL_30068.2 | |
| HL_9K0Z_045 | 1/h/246:252 | No text annotation | geometric HL_4WF9_008 HL_37369.2 | |
| HL_9K0Z_048 | 1/h/387:394 | T-loop with 2 stacked bulged bases | geometric HL_4V9F_010 HL_01609.3 | |
| HL_9K0Z_049 | 1/h/401:405 | No text annotation | geometric HL_5J7L_143 HL_75660.5 | |
| HL_9K0Z_050 | 1/h/409:417 | T-loop with unstacked turn | geometric HL_5J7L_144 HL_27670.2 | |
| HL_9K0Z_051 | 1/h/470:480 | No text annotation | geometric HL_5J7L_145 HL_91503.7 | |
| HL_9K0Z_053 | 1/h/550:555 | GNRA | geometric HL_4WFL_003 HL_37824.8 | |
| HL_9K0Z_054 | 1/h/575:580 | GNRA | geometric HL_9DFE_015 HL_37824.8 | |
| HL_9K0Z_056 | 1/h/658:667 | T-loop with 2 stacked bulged bases | geometric HL_9DFE_016 HL_28252.9 | |
| HL_9K0Z_058 | 1/h/723:728 | GNRA | geometric HL_9DFE_018 HL_37824.8 | |
| HL_9K0Z_059 | 1/h/735:741 | GNRA | geometric HL_9DFE_019 HL_37824.8 | |
| HL_9K0Z_060 | 1/h/755:760 | No text annotation | ||
| HL_9K0Z_062 | 1/h/859:868 | No text annotation | geometric HL_7A0S_022 HL_88205.2 | |
| HL_9K0Z_063 | 1/h/894:900 | No text annotation | geometric HL_5J7L_156 HL_87954.2 | |
| HL_9K0Z_064 | 1/h/941:946 | No text annotation | geometric HL_5J7L_157 HL_55195.3 | |
| HL_9K0Z_066 | 1/h/1072:1079 | GNRA | geometric HL_7A0S_026 HL_37824.8 | |
| HL_9K0Z_067 | 1/h/1096:1103 | No text annotation | geometric HL_5J7L_160 HL_42998.2 | |
| HL_9K0Z_071 | 1/h/1336:1341 | GNRA | geometric HL_4WF9_031 HL_37824.8 | |
| HL_9K0Z_072 | 1/h/1396:1404 | T-loop with 2 stacked bulged bases | geometric HL_8CRE_030 HL_28252.9 | |
| HL_9K0Z_073 | 1/h/1439:1445 | Pseudoknot geometry with 3' bulge | geometric HL_4V9F_035 HL_57176.2 | |
| HL_9K0Z_074 | 1/h/1478:1483 | GNRA | geometric HL_5J7L_167 HL_37824.8 | |
| HL_9K0Z_075 | 1/h/1504:1513 | No text annotation | geometric HL_4V9F_037 HL_81545.2 | |
| HL_9K0Z_079 | 1/h/1785:1788 | Mini UNCG | geometric HL_7ZO1_002 HL_48778.2 | |
| HL_9K0Z_080 | 1/h/1830:1837 | No text annotation | geometric HL_5J7L_173 HL_89567.2 | |
| HL_9K0Z_081 | 1/h/1848:1854 | GNRA | geometric HL_5J7L_174 HL_37824.8 | |
| HL_9K0Z_082 | 1/h/1909:1914 | UNCG | geometric HL_4WF9_040 HL_34617.5 | |
| HL_9K0Z_085 | 1/h/1994:2004 | No text annotation | geometric HL_5J7L_178 HL_01962.2 | |
| HL_9K0Z_086 | 1/h/2023:2028 | GNRA | geometric HL_4Y1M_003 HL_37824.8 | |
| HL_9K0Z_088 | 1/h/2134:2144 | No text annotation | geometric HL_9DFE_046 HL_25847.2 | |
| HL_9K0Z_089 | 1/h/2173:2181 | No text annotation | geometric HL_5J7L_182 HL_20167.2 | |
| HL_9K0Z_090 | 1/h/2251:2260 | No text annotation | geometric HL_5J7L_183 HL_61996.3 | |
| HL_9K0Z_092 | 1/h/2432:2439 | No text annotation | ||
| HL_9K0Z_093 | 1/h/2472:2480 | No text annotation | geometric HL_4WF9_049 HL_85367.2 | |
| HL_9K0Z_094 | 1/h/2488:2500 | No text annotation | geometric HL_5J7L_187 HL_91939.2 | |
| HL_9K0Z_096 | 1/h/2548:2555 | Pseudoknot geometry | geometric HL_5J7L_189 HL_93324.4 | |
| HL_9K0Z_099 | 1/h/2628:2637 | No text annotation | geometric HL_5J7L_192 HL_53454.2 | |
| HL_9K0Z_100 | 1/h/2695:2703 | No text annotation | geometric HL_4WF9_056 HL_32735.2 | |
| HL_9K0Z_101 | 1/h/2752:2759 | GNRA variation | geometric HL_5J7L_194 HL_31585.4 | |
| HL_9K0Z_102 | 1/h/2775:2781 | No text annotation | geometric HL_4WF9_058 HL_30068.2 | |
| HL_9K0Z_103 | 1/h/2818:2823 | GNRA | geometric HL_2Z75_004 HL_37824.8 | |
| HL_9K0Z_106 | 1/h/2969:2983 | No text annotation | geometric HL_4WF9_062 HL_74055.2 | |
| HL_9K0Z_108 | 1/h/3040:3048 | No text annotation | geometric HL_5J7L_201 HL_64690.6 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9K0Z_001 | tRNA D-loop | ||
| HL_9K0Z_003 | T-loop with 2 stacked bulged bases | ||
| HL_9K0Z_005 | UNCG | ||
| HL_9K0Z_006 | GNRA | ||
| HL_9K0Z_007 | No text annotation | ||
| HL_9K0Z_008 | No text annotation | ||
| HL_9K0Z_009 | GNRA related | ||
| HL_9K0Z_012 | UNCG | ||
| HL_9K0Z_013 | GNRA | ||
| HL_9K0Z_014 | UNCG | ||
| HL_9K0Z_015 | No text annotation | ||
| HL_9K0Z_016 | GNRA variation | ||
| HL_9K0Z_017 | GNRA-like with tWH | ||
| HL_9K0Z_018 | No text annotation | ||
| HL_9K0Z_019 | GNRA | ||
| HL_9K0Z_021 | No text annotation | ||
| HL_9K0Z_022 | GNRA | ||
| HL_9K0Z_023 | GNRA | ||
| HL_9K0Z_025 | GNRA | ||
| HL_9K0Z_026 | GNRA | ||
| HL_9K0Z_027 | T-loop related | ||
| HL_9K0Z_028 | No text annotation | ||
| HL_9K0Z_029 | No text annotation | ||
| HL_9K0Z_030 | GNRA | ||
| HL_9K0Z_031 | T-loop with 3 stacked bulged bases | ||
| HL_9K0Z_032 | No text annotation | ||
| HL_9K0Z_033 | No text annotation | ||
| HL_9K0Z_034 | GNRA | ||
| HL_9K0Z_037 | No text annotation | ||
| HL_9K0Z_041 | GNRA wlth tandem sheared | ||
| HL_9K0Z_042 | No text annotation | ||
| HL_9K0Z_044 | No text annotation | ||
| HL_9K0Z_046 | No text annotation | ||
| HL_9K0Z_047 | No text annotation | ||
| HL_9K0Z_052 | Pseudoknot geometry | ||
| HL_9K0Z_055 | No text annotation | ||
| HL_9K0Z_057 | No text annotation | ||
| HL_9K0Z_061 | GNRA wlth tandem sheared | ||
| HL_9K0Z_065 | No text annotation | ||
| HL_9K0Z_068 | No text annotation | ||
| HL_9K0Z_069 | GNRA wlth tandem sheared | ||
| HL_9K0Z_070 | No text annotation | ||
| HL_9K0Z_076 | No text annotation | ||
| HL_9K0Z_077 | Pseudoknot geometry with 3' bulge | ||
| HL_9K0Z_078 | No text annotation | ||
| HL_9K0Z_083 | No text annotation | ||
| HL_9K0Z_084 | No text annotation | ||
| HL_9K0Z_087 | tRNA D-loop | ||
| HL_9K0Z_091 | No text annotation | ||
| HL_9K0Z_095 | No text annotation | ||
| HL_9K0Z_097 | GNRA with extra cWW | ||
| HL_9K0Z_098 | GNRA | ||
| HL_9K0Z_104 | GNRA | ||
| HL_9K0Z_105 | Ribsomal LSU H95 | ||
| HL_9K0Z_107 | No text annotation | ||
| HL_9K0Z_109 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9K0Z_001 | 1/A/34:36, 1/A/532:533 | Single bulged G | geometric IL_5J7L_001 IL_00225.14 | |
| IL_9K0Z_003 | 1/A/51:56, 1/A/359:361 | No text annotation | geometric IL_5J7L_003 IL_14177.2 | |
| IL_9K0Z_005 | 1/A/67:70, 1/A/99:100 | Multiple bulged bases | geometric IL_5J7L_005 IL_82107.5 | |
| IL_9K0Z_015 | 1/A/292:293, 1/A/304:308 | C-loop | geometric IL_4LFB_013 IL_03109.3 | |
| IL_9K0Z_024 | 1/A/495:501, 1/A/508:516 | No text annotation | geometric IL_8P9A_404 IL_54177.4 | |
| IL_9K0Z_025 | 1/A/549:555, 1/A/862:863 | No text annotation | geometric IL_5J7L_026 IL_38186.6 | |
| IL_9K0Z_026 | 1/A/560:564, 1/A/737:741 | tSH-tHW-tHS | geometric IL_5J7L_027 IL_17136.7 | |
| IL_9K0Z_030 | 1/A/634:635, 1/A/731:734 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_50694.7 | |
| IL_9K0Z_032 | 1/A/642:646, 1/A/720:723 | Tandem non-canonical cWW pairs | geometric IL_5J7L_033 IL_85033.2 | |
| IL_9K0Z_037 | 1/A/869:876, 1/A/887:892 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | geometric IL_5J7L_038 IL_41756.4 | |
| IL_9K0Z_038 | 1/A/904:905, 1/A/1376:1378 | Single bulged A | geometric IL_5J7L_039 IL_31462.7 | |
| IL_9K0Z_057 | 1/A/1382:1384, 1/A/1485:1488 | No text annotation | geometric IL_4LFB_056 IL_61438.4 | |
| IL_9K0Z_058 | 1/A/1384:1387, 1/A/1481:1485 | No text annotation | geometric IL_4LFB_068 IL_65718.4 | |
| IL_9K0Z_062 | 1/A/1399:1402, 1/A/1465:1468 | Double sheared | geometric IL_5J7L_062 IL_09705.15 | |
| IL_9K0Z_063 | 1/A/1407:1410, 1/A/1457:1460 | Tandem non-canonical cWW pairs | geometric IL_8P9A_327 IL_85033.2 | |
| IL_9K0Z_064 | 1/A/1413:1418, 1/A/1450:1454 | Triple sheared related | geometric IL_5J7L_063 IL_80231.1 | |
| IL_9K0Z_071 | 1/B/24:30, 1/B/56:61 | No text annotation | ||
| IL_9K0Z_073 | 1/B/35:39, 1/B/45:49 | Symmetric double minor groove platform | geometric IL_5NS3_002 IL_58103.11 | |
| IL_9K0Z_074 | 1/B/72:80, 1/B/95:103 | Bacterial 5S Loop E | geometric IL_9DFE_114 IL_56455.6 | |
| IL_9K0Z_075 | 1/h/21:27, 1/h/597:603 | Triple sheared with non-canonical cWW | geometric IL_4WF9_001 IL_04021.2 | |
| IL_9K0Z_076 | 1/h/33:34, 1/h/530:532 | Single bulged A | geometric IL_7A0S_002 IL_31462.7 | |
| IL_9K0Z_080 | 1/h/187:193, 1/h/200:207 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7A0S_006 IL_04346.10 | |
| IL_9K0Z_081 | 1/h/239:245, 1/h/253:258 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_9DFE_007 IL_26307.2 | |
| IL_9K0Z_085 | 1/h/374:376, 1/h/425:429 | No text annotation | geometric IL_5J7L_254 IL_69440.3 | |
| IL_9K0Z_087 | 1/h/569:572, 1/h/583:596 | No text annotation | geometric IL_8P9A_243 IL_81516.2 | |
| IL_9K0Z_088 | 1/h/623:626, 1/h/646:649 | Double sheared | geometric IL_8CRE_402 IL_09705.15 | |
| IL_9K0Z_090 | 1/h/656:658, 1/h/667:669 | Isolated non-canonical cWW pair | geometric IL_4WF9_017 IL_07785.1 | |
| IL_9K0Z_091 | 1/h/683:685, 1/h/780:781 | Single bulged G | geometric IL_9DFE_018 IL_00225.14 | |
| IL_9K0Z_092 | 1/h/699:703, 1/h/712:716 | AAA cross-strand stack | geometric IL_7A0S_013 IL_66798.2 | |
| IL_9K0Z_093 | 1/h/787:789, 1/h/921:923 | Isolated non-canonical cWW pair | geometric IL_7A0S_014 IL_87907.2 | |
| IL_9K0Z_094 | 1/h/789:793, 1/h/914:921 | tHW-tHW cross-strand stack | geometric IL_5J7L_260 IL_54041.2 | |
| IL_9K0Z_095 | 1/h/812:813, 1/h/878:880 | Single bulged A | geometric IL_5J7L_261 IL_31462.7 | |
| IL_9K0Z_096 | 1/h/817:818, 1/h/843:845 | Single bulged G | geometric IL_4V9F_026 IL_00225.14 | |
| IL_9K0Z_097 | 1/h/818:822, 1/h/839:843 | Triple sheared | geometric IL_8CRE_033 IL_50730.2 | |
| IL_9K0Z_098 | 1/h/853:855, 1/h/872:873 | Major groove platform | geometric IL_5J7L_264 IL_48076.6 | |
| IL_9K0Z_099 | 1/h/890:892, 1/h/902:906 | No text annotation | ||
| IL_9K0Z_100 | 1/h/952:953, 1/h/1057:1059 | Single stack bend | geometric IL_7A0S_022 IL_90729.1 | |
| IL_9K0Z_101 | 1/h/959:961, 1/h/1048:1051 | Other IL | geometric IL_9DFE_023 IL_44465.1 | |
| IL_9K0Z_102 | 1/h/959:964, 1/h/1043:1051 | No text annotation | ||
| IL_9K0Z_103 | 1/h/961:964, 1/h/1043:1048 | No text annotation | ||
| IL_9K0Z_104 | 1/h/971:977, 1/h/1030:1036 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 IL_29198.2 | |
| IL_9K0Z_105 | 1/h/977:978, 1/h/1028:1030 | Minor groove platform | geometric IL_4V9F_034 IL_51454.3 | |
| IL_9K0Z_106 | 1/h/979:984, 1/h/1024:1027 | C-loop | geometric IL_4WF9_033 IL_26222.2 | |
| IL_9K0Z_107 | 1/h/986:988, 1/h/1020:1022 | No text annotation | geometric IL_8CRE_412 IL_42997.3 | |
| IL_9K0Z_110 | 1/h/1066:1067, 1/h/1084:1086 | Single bulged G | geometric IL_4LVW_002 IL_00225.14 | |
| IL_9K0Z_111 | 1/h/1112:1114, 1/h/1278:1279 | Single bulged C | geometric IL_5J7L_276 IL_61258.15 | |
| IL_9K0Z_112 | 1/h/1116:1120, 1/h/1272:1276 | UAA/GAN | geometric IL_4WF9_036 IL_38507.2 | |
| IL_9K0Z_113 | 1/h/1122:1129, 1/h/1269:1270 | SSU/LSU pseudoknot | geometric IL_9DFE_036 IL_41203.4 | |
| IL_9K0Z_114 | 1/h/1129:1131, 1/h/1268:1269 | Single bulged C | geometric IL_3W3S_001 IL_61258.15 | |
| IL_9K0Z_115 | 1/h/1136:1142, 1/h/1258:1263 | Kink-turn related | geometric IL_4V9F_040 IL_57188.5 | |
| IL_9K0Z_116 | 1/h/1142:1148, 1/h/1242:1258 | No text annotation | geometric IL_5J7L_281 IL_50715.3 | |
| IL_9K0Z_117 | 1/h/1149:1152, 1/h/1239:1241 | Isolated non-canonical cWW pair | geometric IL_7A0S_038 IL_57744.1 | |
| IL_9K0Z_121 | 1/h/1311:1313, 1/h/1362:1365 | Isolated cWS basepair | geometric IL_4WF9_044 IL_42997.3 | |
| IL_9K0Z_122 | 1/h/1322:1329, 1/h/1349:1353 | Kink-turn | geometric IL_4V9F_048 IL_70923.9 | |
| IL_9K0Z_123 | 1/h/1333:1334, 1/h/1343:1345 | Single bulged A | geometric IL_2VPL_002 IL_31462.7 | |
| IL_9K0Z_124 | 1/h/1377:1384, 1/h/2235:2241 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_289 IL_04346.10 | |
| IL_9K0Z_125 | 1/h/1425:1428, 1/h/1821:1822 | Major groove platform; stack outside cWW | geometric IL_5J7L_290 IL_50694.7 | |
| IL_9K0Z_126 | 1/h/1434:1438, 1/h/1446:1448 | No text annotation | ||
| IL_9K0Z_127 | 1/h/1466:1470, 1/h/1491:1495 | UAA/GAN | geometric IL_5J7L_292 IL_89021.2 | |
| IL_9K0Z_133 | 1/h/1653:1656, 1/h/1777:1781 | tWW and near cWH | geometric IL_6DLR_005 IL_04785.1 | |
| IL_9K0Z_139 | 1/h/1869:1874, 1/h/2228:2230 | No text annotation | ||
| IL_9K0Z_140 | 1/h/1881:1883, 1/h/2219:2221 | Isolated tWW turn | geometric IL_4WF9_063 IL_67095.2 | |
| IL_9K0Z_141 | 1/h/1884:1887, 1/h/2217:2218 | Major groove platform; stack outside cWW | geometric IL_5J7L_306 IL_50694.7 | |
| IL_9K0Z_142 | 1/h/1884:1892, 1/h/2214:2218 | No text annotation | geometric IL_4WF9_117 IL_22854.4 | |
| IL_9K0Z_143 | 1/h/1887:1892, 1/h/2214:2217 | Intercalated tWH | geometric IL_4WF9_065 IL_76758.2 | |
| IL_9K0Z_144 | 1/h/1904:1909, 1/h/1914:1920 | No text annotation | geometric IL_8CRE_084 IL_47346.2 | |
| IL_9K0Z_148 | 1/h/1987:1988, 1/h/2204:2206 | Single bulged A | geometric IL_5J7L_312 IL_31462.7 | |
| IL_9K0Z_149 | 1/h/2015:2021, 1/h/2030:2038 | Kink-turn related | geometric IL_7A0S_065 IL_17069.5 | |
| IL_9K0Z_150 | 1/h/2054:2057, 1/h/2126:2127 | Minor groove platform, major groove intercalation | geometric IL_1U9S_005 IL_95583.2 | |
| IL_9K0Z_151 | 1/h/2057:2059, 1/h/2122:2126 | No text annotation | geometric IL_6CK5_011 IL_95570.1 | |
| IL_9K0Z_153 | 1/h/2068:2072, 1/h/2111:2115 | UAA/GAN with extra stack | geometric IL_9DFE_074 IL_89021.2 | |
| IL_9K0Z_154 | 1/h/2073:2078, 1/h/2105:2110 | No text annotation | geometric IL_5LR4_002 IL_06136.2 | |
| IL_9K0Z_156 | 1/h/2157:2158, 1/h/2188:2191 | Bulged stacked bases | geometric IL_5J7L_318 IL_22551.4 | |
| IL_9K0Z_157 | 1/h/2158:2169, 1/h/2185:2188 | No text annotation | geometric IL_5J7L_319 IL_42218.2 | |
| IL_9K0Z_158 | 1/h/2274:2276, 1/h/2841:2842 | Major groove platform | geometric IL_5J7L_320 IL_48076.6 | |
| IL_9K0Z_159 | 1/h/2278:2280, 1/h/2836:2839 | No text annotation | geometric IL_4WF9_079 IL_83389.2 | |
| IL_9K0Z_160 | 1/h/2293:2294, 1/h/2662:2665 | Minor groove platform | geometric IL_7A0S_076 IL_51454.3 | |
| IL_9K0Z_161 | 1/h/2304:2306, 1/h/2460:2463 | No text annotation | geometric IL_9DFE_082 IL_85599.2 | |
| IL_9K0Z_162 | 1/h/2308:2310, 1/h/2456:2458 | Isolated non-canonical cWW pair | geometric IL_5J7L_326 IL_28037.2 | |
| IL_9K0Z_163 | 1/h/2317:2319, 1/h/2416:2418 | Isolated non-canonical cWW pair | geometric IL_8CRE_023 IL_87907.2 | |
| IL_9K0Z_168 | 1/h/2425:2427, 1/h/2444:2445 | Single bulged C | geometric IL_6XKO_001 IL_61258.15 | |
| IL_9K0Z_169 | 1/h/2521:2523, 1/h/2541:2545 | No text annotation | geometric IL_9DFE_088 IL_61476.2 | |
| IL_9K0Z_170 | 1/h/2574:2577, 1/h/2588:2591 | Double sheared | geometric IL_5J7L_333 IL_09705.15 | |
| IL_9K0Z_172 | 1/h/2677:2678, 1/h/2722:2724 | Single stack bend | geometric IL_4WF9_089 IL_26793.1 | |
| IL_9K0Z_173 | 1/h/2678:2679, 1/h/2720:2722 | Major groove platform | geometric IL_5J7L_392 IL_48076.6 | |
| IL_9K0Z_174 | 1/h/2681:2683, 1/h/2717:2718 | Major groove platform | geometric IL_9DFE_093 IL_48076.6 | |
| IL_9K0Z_175 | 1/h/2683:2685, 1/h/2713:2717 | Major groove minor groove platform with extra cWW | geometric IL_4WF9_092 IL_51387.3 | |
| IL_9K0Z_176 | 1/h/2685:2687, 1/h/2711:2713 | Isolated non-canonical cWW pair | geometric IL_3BNN_005 IL_28037.2 | |
| IL_9K0Z_177 | 1/h/2690:2694, 1/h/2704:2708 | Double sheared with non-canonical cWW | geometric IL_4WF9_093 IL_17948.2 | |
| IL_9K0Z_178 | 1/h/2731:2732, 1/h/2804:2806 | No text annotation | geometric IL_8P9A_334 IL_07039.3 | |
| IL_9K0Z_179 | 1/h/2734:2736, 1/h/2798:2802 | Isolated non-canonical cWW with bulges | geometric IL_5J7L_340 IL_07785.1 | |
| IL_9K0Z_180 | 1/h/2736:2737, 1/h/2795:2798 | No text annotation | geometric IL_4WF9_096 IL_42626.2 | |
| IL_9K0Z_181 | 1/h/2746:2747, 1/h/2764:2767 | Major groove platform with intercalation | geometric IL_5J7L_342 IL_02555.1 | |
| IL_9K0Z_182 | 1/h/2815:2816, 1/h/2825:2827 | Single bulged A | geometric IL_8P9A_399 IL_31462.7 | |
| IL_9K0Z_183 | 1/h/2860:2864, 1/h/2998:3006 | No text annotation | geometric IL_9DFE_101 IL_04638.3 | |
| IL_9K0Z_185 | 1/h/2904:2908, 1/h/2949:2951 | C-loop | geometric IL_4WF9_101 IL_63596.11 | |
| IL_9K0Z_186 | 1/h/2911:2915, 1/h/2942:2946 | UAA/GAN related, with intercalation | geometric IL_4WF9_102 IL_23774.1 | |
| IL_9K0Z_187 | 1/h/2919:2920, 1/h/2935:2938 | Multiple bulged bases | geometric IL_5J7L_349 IL_42626.2 | |
| IL_9K0Z_188 | 1/h/2961:2966, 1/h/2986:2991 | UAA/GAN with extra cWW | geometric IL_5J7L_350 IL_49767.8 | |
| IL_9K0Z_189 | 1/h/3059:3061, 1/h/3098:3101 | Isolated non-canonical cWW with bulges | geometric IL_7DLZ_003 IL_07785.1 | |
| IL_9K0Z_190 | 1/h/3064:3066, 1/h/3092:3095 | Decoding loop related | geometric IL_7A0S_100 IL_31531.3 | |
| IL_9K0Z_191 | 1/h/3068:3073, 1/h/3086:3090 | tHS double platform | geometric IL_4WF9_108 IL_70411.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9K0Z_002 | Single bulged A | ||
| IL_9K0Z_004 | Minor groove platform | ||
| IL_9K0Z_006 | Minor groove platform with extra cWW | ||
| IL_9K0Z_007 | Minor groove platform | ||
| IL_9K0Z_008 | Major groove platform | ||
| IL_9K0Z_009 | Multiple bulged bases | ||
| IL_9K0Z_010 | No text annotation | ||
| IL_9K0Z_011 | tWH-tWH-tHW-tHW | ||
| IL_9K0Z_012 | No text annotation | ||
| IL_9K0Z_013 | Kink-turn with non-sequential stacking | ||
| IL_9K0Z_014 | No text annotation | ||
| IL_9K0Z_016 | Single bulged U | ||
| IL_9K0Z_017 | C-loop | ||
| IL_9K0Z_018 | Single bulged G | ||
| IL_9K0Z_019 | No text annotation | ||
| IL_9K0Z_020 | No text annotation | ||
| IL_9K0Z_021 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_9K0Z_022 | No text annotation | ||
| IL_9K0Z_023 | SSU/LSU pseudoknot | ||
| IL_9K0Z_027 | Major groove platform | ||
| IL_9K0Z_028 | Major groove minor groove platform; mini C-loop | ||
| IL_9K0Z_029 | No text annotation | ||
| IL_9K0Z_031 | Major groove platform | ||
| IL_9K0Z_033 | Triple non-canonical cWW pairs | ||
| IL_9K0Z_034 | Kink-turn | ||
| IL_9K0Z_035 | Left turn | ||
| IL_9K0Z_036 | tSH-tHW-tHS | ||
| IL_9K0Z_039 | Single bulged G | ||
| IL_9K0Z_040 | Minor groove platform | ||
| IL_9K0Z_041 | Minor groove platform | ||
| IL_9K0Z_042 | Minor groove platform | ||
| IL_9K0Z_043 | Single stack bend | ||
| IL_9K0Z_044 | No text annotation | ||
| IL_9K0Z_045 | No text annotation | ||
| IL_9K0Z_046 | Isolated cWS basepair | ||
| IL_9K0Z_047 | Minor groove platform | ||
| IL_9K0Z_048 | Single bulged A | ||
| IL_9K0Z_049 | Isolated non-canonical cWW pair | ||
| IL_9K0Z_050 | No text annotation | ||
| IL_9K0Z_051 | Minor groove platform | ||
| IL_9K0Z_052 | No text annotation | ||
| IL_9K0Z_053 | No text annotation | ||
| IL_9K0Z_054 | 180 degree turn | ||
| IL_9K0Z_055 | Triple sheared | ||
| IL_9K0Z_056 | No text annotation | ||
| IL_9K0Z_059 | Isolated non-canonical cWW pair | ||
| IL_9K0Z_060 | Isolated non-canonical cWW pair | ||
| IL_9K0Z_061 | Isolated non-canonical cWW pair | ||
| IL_9K0Z_065 | Isolated non-canonical cWW pair | ||
| IL_9K0Z_066 | Isolated tHS basepair with bulges | ||
| IL_9K0Z_067 | No text annotation | ||
| IL_9K0Z_068 | No text annotation | ||
| IL_9K0Z_069 | Single bulged A | ||
| IL_9K0Z_070 | Major groove intercalation | ||
| IL_9K0Z_072 | Major groove minor groove platform; mini C-loop | ||
| IL_9K0Z_077 | Minor groove platform | ||
| IL_9K0Z_078 | Kink-turn | ||
| IL_9K0Z_079 | Single stack bend | ||
| IL_9K0Z_082 | No text annotation | ||
| IL_9K0Z_083 | No text annotation | ||
| IL_9K0Z_084 | Single bulged U | ||
| IL_9K0Z_086 | Single bulged U | ||
| IL_9K0Z_089 | Single bulged U | ||
| IL_9K0Z_108 | No text annotation | ||
| IL_9K0Z_109 | Minor groove platform | ||
| IL_9K0Z_118 | Kink-turn | ||
| IL_9K0Z_119 | No text annotation | ||
| IL_9K0Z_120 | Major groove platform with extra cWW | ||
| IL_9K0Z_128 | tSH-tHW-tHS | ||
| IL_9K0Z_129 | Isolated non-canonical cWW pair | ||
| IL_9K0Z_130 | No text annotation | ||
| IL_9K0Z_131 | No text annotation | ||
| IL_9K0Z_132 | No text annotation | ||
| IL_9K0Z_134 | No text annotation | ||
| IL_9K0Z_135 | No text annotation | ||
| IL_9K0Z_136 | No text annotation | ||
| IL_9K0Z_137 | No text annotation | ||
| IL_9K0Z_138 | Major groove intercalation | ||
| IL_9K0Z_145 | tWW and near cWH | ||
| IL_9K0Z_146 | No text annotation | ||
| IL_9K0Z_147 | Single bulged C | ||
| IL_9K0Z_152 | Major groove minor groove platform; mini C-loop | ||
| IL_9K0Z_155 | UAA/GAN related | ||
| IL_9K0Z_164 | No text annotation | ||
| IL_9K0Z_165 | No text annotation | ||
| IL_9K0Z_166 | No text annotation | ||
| IL_9K0Z_167 | No text annotation | ||
| IL_9K0Z_171 | Single bulged U | ||
| IL_9K0Z_184 | Sarcin-Ricin target in LSU H95; G-bulge |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9K0Z_001 | 1/A/50:51, 1/A/361:367, 1/A/393:395 | No text annotation | geometric J3_4LFB_010 J3_67856.4 | |
| J3_9K0Z_002 | 1/A/50:56, 1/A/359:367, 1/A/393:395 | No text annotation | ||
| J3_9K0Z_003 | 1/A/566:568, 1/A/631:634, 1/A/734:735 | No text annotation | ||
| J3_9K0Z_004 | 1/A/566:568, 1/A/631:635, 1/A/731:735 | No text annotation | ||
| J3_9K0Z_005 | 1/A/652:653, 1/A/697:705, 1/A/712:714 | No text annotation | geometric J3_4LFB_012 J3_11934.4 | |
| J3_9K0Z_006 | 1/A/806:809, 1/A/839:843, 1/A/850:856 | No text annotation | geometric J3_5J7L_004 J3_85054.4 | |
| J3_9K0Z_008 | 1/A/925:928, 1/A/1216:1218, 1/A/1319:1322 | No text annotation | geometric J3_4LFB_003 J3_52655.4 | |
| J3_9K0Z_009 | 1/A/937:944, 1/A/955:966, 1/A/1202:1206 | No text annotation | geometric J3_4LFB_004 J3_83516.4 | |
| J3_9K0Z_012 | 1/A/1043:1048, 1/A/1087:1093, 1/A/1168:1174 | No text annotation | geometric J3_4LFB_007 J3_08394.3 | |
| J3_9K0Z_017 | 1/B/11:17, 1/B/69:71, 1/B/104:107 | No text annotation | ||
| J3_9K0Z_018 | 1/h/27:28, 1/h/562:569, 1/h/596:597 | No text annotation | geometric J3_8P9A_046 J3_60031.2 | |
| J3_9K0Z_019 | 1/h/27:28, 1/h/562:572, 1/h/583:597 | No text annotation | geometric J3_8P9A_047 J3_92134.2 | |
| J3_9K0Z_020 | 1/h/29:32, 1/h/533:549, 1/h/556:561 | No text annotation | geometric J3_5J7L_067 J3_30040.2 | |
| J3_9K0Z_021 | 1/h/53:54, 1/h/67:73, 1/h/107:111 | No text annotation | geometric J3_4V9F_014 J3_35667.2 | |
| J3_9K0Z_022 | 1/h/317:319, 1/h/457:463, 1/h/487:492 | No text annotation | ||
| J3_9K0Z_024 | 1/h/378:382, 1/h/398:407, 1/h/419:423 | No text annotation | geometric J3_4WF9_015 J3_46299.2 | |
| J3_9K0Z_025 | 1/h/798:804, 1/h/888:890, 1/h/906:909 | No text annotation | geometric J3_5J7L_038 J3_64189.2 | |
| J3_9K0Z_026 | 1/h/813:815, 1/h/847:851, 1/h/875:878 | No text annotation | geometric J3_5J7L_039 J3_44724.7 | |
| J3_9K0Z_028 | 1/h/1413:1418, 1/h/1843:1845, 1/h/1857:1860 | No text annotation | geometric J3_5J7L_041 J3_32852.6 | |
| J3_9K0Z_029 | 1/h/1421:1424, 1/h/1823:1829, 1/h/1838:1840 | No text annotation | geometric J3_7A0S_007 J3_71677.1 | |
| J3_9K0Z_030 | 1/h/1459:1465, 1/h/1496:1500, 1/h/1517:1518 | No text annotation | geometric J3_7A0S_018 J3_31965.2 | |
| J3_9K0Z_033 | 1/h/2314:2316, 1/h/2419:2423, 1/h/2447:2452 | Kink-turn 3-way junction | geometric J3_5J7L_044 J3_89368.5 | |
| J3_9K0Z_034 | 1/h/2506:2508, 1/h/2608:2619, 1/h/2645:2651 | No text annotation | ||
| J3_9K0Z_035 | 1/h/2519:2521, 1/h/2545:2547, 1/h/2556:2561 | No text annotation | geometric J3_4WF9_008 J3_61124.2 | |
| J3_9K0Z_036 | 1/h/2741:2744, 1/h/2769:2771, 1/h/2785:2791 | No text annotation | geometric J3_4WF9_009 J3_32601.5 | |
| J3_9K0Z_037 | 1/h/3035:3037, 1/h/3051:3057, 1/h/3103:3107 | No text annotation | ||
| J4_9K0Z_002 | 1/A/111:119, 1/A/238:240, 1/A/286:289, 1/A/311:312 | No text annotation | ||
| J4_9K0Z_004 | 1/A/555:557, 1/A/744:749, 1/A/790:801, 1/A/861:862 | No text annotation | ||
| J4_9K0Z_007 | 1/h/1385:1391, 1/h/1409:1410, 1/h/1863:1866, 1/h/2233:2234 | No text annotation | ||
| J4_9K0Z_008 | 1/h/1425:1429, 1/h/1453:1458, 1/h/1519:1520, 1/h/1815:1822 | No text annotation | ||
| J4_9K0Z_009 | 1/h/1428:1429, 1/h/1453:1458, 1/h/1519:1520, 1/h/1815:1821 | No text annotation | ||
| J4_9K0Z_011 | 1/h/1989:1993, 1/h/2005:2009, 1/h/2044:2047, 1/h/2199:2203 | No text annotation | ||
| J4_9K0Z_012 | 1/h/2050:2052, 1/h/2129:2130, 1/h/2148:2157, 1/h/2191:2196 | No text annotation | ||
| J4_9K0Z_013 | 1/h/2509:2513, 1/h/2567:2571, 1/h/2594:2596, 1/h/2605:2607 | No text annotation | ||
| J4_9K0Z_014 | 1/h/2867:2870, 1/h/2898:2900, 1/h/2955:2959, 1/h/2993:2995 | No text annotation | ||
| J5_9K0Z_001 | 1/A/40:43, 1/A/403:406, 1/A/436:440, 1/A/477:480, 1/A/525:528 | No text annotation | ||
| J5_9K0Z_002 | 1/A/40:43, 1/A/403:406, 1/A/436:442, 1/A/472:480, 1/A/525:528 | No text annotation | ||
| J5_9K0Z_003 | 1/A/62:65, 1/A/102:109, 1/A/314:316, 1/A/337:339, 1/A/350:354 | No text annotation | ||
| J5_9K0Z_004 | 1/h/44:51, 1/h/113:118, 1/h/127:128, 1/h/147:149, 1/h/175:177 | No text annotation | ||
| J5_9K0Z_005 | 1/h/269:274, 1/h/312:319, 1/h/457:463, 1/h/487:494, 1/h/509:512 | No text annotation | ||
| J5_9K0Z_006 | 1/h/618:620, 1/h/652:656, 1/h/669:671, 1/h/1376:1377, 1/h/2241:2242 | No text annotation | ||
| J5_9K0Z_007 | 1/h/676:681, 1/h/783:786, 1/h/924:927, 1/h/1310:1311, 1/h/1365:1371 | No text annotation | ||
| J5_9K0Z_008 | 1/h/694:697, 1/h/718:722, 1/h/729:732, 1/h/744:749, 1/h/766:771 | No text annotation | ||
| J5_9K0Z_009 | 1/h/1892:1900, 1/h/1924:1925, 1/h/1968:1969, 1/h/1973:1981, 1/h/2212:2214 | No text annotation | ||
| J5_9K0Z_010 | 1/h/2281:2288, 1/h/2670:2677, 1/h/2724:2730, 1/h/2807:2812, 1/h/2830:2835 | No text annotation | ||
| J5_9K0Z_011 | 1/h/2297:2300, 1/h/2467:2470, 1/h/2482:2483, 1/h/2505:2506, 1/h/2651:2659 | No text annotation | ||
| J6_9K0Z_001 | 1/h/42:43, 1/h/178:182, 1/h/213:223, 1/h/231:235, 1/h/262:267, 1/h/514:521 | No text annotation | ||
| J6_9K0Z_002 | 1/h/2297:2300, 1/h/2467:2470, 1/h/2482:2483, 1/h/2505:2508, 1/h/2608:2619, 1/h/2645:2659 | No text annotation | ||
| J7_9K0Z_001 | 1/h/932:937, 1/h/950:951, 1/h/1060:1063, 1/h/1089:1094, 1/h/1105:1109, 1/h/1282:1283, 1/h/1300:1305 | No text annotation | ||
| J8_9K0Z_001 | 1/h/5:12, 1/h/612:618, 1/h/2242:2247, 1/h/2264:2267, 1/h/2849:2854, 1/h/3012:3015, 1/h/3027:3032, 1/h/3110:3115 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_9K0Z_007 | No text annotation | ||
| J3_9K0Z_010 | No text annotation | ||
| J3_9K0Z_011 | No text annotation | ||
| J3_9K0Z_013 | No text annotation | ||
| J3_9K0Z_014 | No text annotation | ||
| J3_9K0Z_015 | No text annotation | ||
| J3_9K0Z_016 | No text annotation | ||
| J3_9K0Z_023 | No text annotation | ||
| J3_9K0Z_027 | No text annotation | ||
| J3_9K0Z_031 | No text annotation | ||
| J3_9K0Z_032 | No text annotation | ||
| J4_9K0Z_001 | No text annotation | ||
| J4_9K0Z_003 | No text annotation | ||
| J4_9K0Z_005 | No text annotation | ||
| J4_9K0Z_006 | No text annotation | ||
| J4_9K0Z_010 | No text annotation |
Coloring options: