8VRL Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8VRL_001 | 1/A/56:65 | Pseudoknot with intercalation | homologous HL_4WF9_067 HL_17803.1 | |
| HL_8VRL_002 | 1/A/84:93 | Pseudoknot geometry | homologous HL_4WF9_002 HL_00911.1 | |
| HL_8VRL_003 | 1/A/120:125 | No text annotation | homologous HL_9DFE_003 HL_82710.3 | |
| HL_8VRL_004 | 1/A/134:141 | GNRA wlth tandem sheared | homologous HL_4WF9_004 HL_98423.1 | |
| HL_8VRL_005 | 1/A/157:167 | No text annotation | homologous HL_5J7L_138 NA | |
| HL_8VRL_006 | 1/A/193:200 | No text annotation | homologous HL_4WF9_006 HL_48677.1 | |
| HL_8VRL_007 | 1/A/224:230 | No text annotation | homologous HL_4WF9_007 HL_51020.1 | |
| HL_8VRL_008 | 1/A/246:252 | No text annotation | homologous HL_9DFE_007 HL_76371.1 | |
| HL_8VRL_011 | 1/A/387:394 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_142 NA | |
| HL_8VRL_012 | 1/A/401:405 | No text annotation | geometric HL_5J7L_143 NA | |
| HL_8VRL_013 | 1/A/409:417 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_8VRL_014 | 1/A/469:481 | No text annotation | homologous HL_4WF9_013 HL_69139.1 | |
| HL_8VRL_015 | 1/A/498:505 | Pseudoknot geometry | homologous HL_4WF9_014 HL_30680.4 | |
| HL_8VRL_016 | 1/A/550:555 | GNRA | homologous HL_4WF9_015 HL_34789.1 | |
| HL_8VRL_017 | 1/A/575:580 | GNRA | homologous HL_7A0S_016 HL_34789.1 | |
| HL_8VRL_019 | 1/A/658:667 | T-loop with 2 stacked bulged bases | homologous HL_7A0S_018 HL_33597.1 | |
| HL_8VRL_020 | 1/A/705:710 | No text annotation | ||
| HL_8VRL_021 | 1/A/723:728 | GNRA | homologous HL_7A0S_020 HL_34789.1 | |
| HL_8VRL_022 | 1/A/735:741 | GNRA | homologous HL_9DFE_019 HL_34789.1 | |
| HL_8VRL_023 | 1/A/755:760 | tRNA D-loop | geometric HL_5UD5_001 HL_89167.1 | |
| HL_8VRL_025 | 1/A/859:868 | No text annotation | homologous HL_4WF9_023 HL_50204.1 | |
| HL_8VRL_026 | 1/A/894:900 | No text annotation | homologous HL_5J7L_156 NA | |
| HL_8VRL_027 | 1/A/941:946 | No text annotation | homologous HL_5J7L_157 NA | |
| HL_8VRL_029 | 1/A/1072:1079 | GNRA | homologous HL_7A0S_026 HL_34789.1 | |
| HL_8VRL_030 | 1/A/1096:1103 | No text annotation | homologous HL_5J7L_160 NA | |
| HL_8VRL_034 | 1/A/1336:1341 | GNRA | homologous HL_4WF9_031 HL_34789.1 | |
| HL_8VRL_035 | 1/A/1396:1404 | T-loop with 2 stacked bulged bases | homologous HL_4WF9_032 HL_33597.1 | |
| HL_8VRL_036 | 1/A/1439:1445 | Pseudoknot geometry with 3' bulge | homologous HL_7A0S_033 HL_49081.1 | |
| HL_8VRL_037 | 1/A/1478:1483 | GNRA | homologous HL_5J7L_167 NA | |
| HL_8VRL_038 | 1/A/1504:1513 | No text annotation | homologous HL_5J7L_168 NA | |
| HL_8VRL_040 | 1/A/1671:1682 | Pseudoknot | homologous HL_7A0S_036 HL_00824.1 | |
| HL_8VRL_041 | 1/A/1712:1718 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 NA | |
| HL_8VRL_042 | 1/A/1753:1760 | No text annotation | ||
| HL_8VRL_043 | 1/A/1785:1788 | Mini UNCG | homologous HL_7A0S_039 HL_90436.1 | |
| HL_8VRL_044 | 1/A/1830:1837 | No text annotation | homologous HL_5J7L_173 NA | |
| HL_8VRL_045 | 1/A/1848:1854 | GNRA | homologous HL_5J7L_174 NA | |
| HL_8VRL_046 | 1/A/1909:1914 | UNCG | homologous HL_7A0S_042 HL_61337.1 | |
| HL_8VRL_047 | 1/A/1944:1950 | No text annotation | geometric HL_5WTI_001 NA | |
| HL_8VRL_048 | 1/A/1969:1973 | No text annotation | homologous HL_9DFE_042 HL_80709.4 | |
| HL_8VRL_049 | 1/A/1994:2004 | No text annotation | homologous HL_4WF9_043 HL_87681.1 | |
| HL_8VRL_050 | 1/A/2023:2028 | GNRA | homologous HL_9DFE_044 HL_34789.1 | |
| HL_8VRL_052 | 1/A/2173:2181 | No text annotation | homologous HL_5J7L_182 NA | |
| HL_8VRL_053 | 1/A/2251:2260 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_8VRL_055 | 1/A/2432:2439 | No text annotation | homologous HL_5J7L_185 NA | |
| HL_8VRL_056 | 1/A/2472:2480 | No text annotation | homologous HL_7A0S_052 HL_11974.1 | |
| HL_8VRL_057 | 1/A/2488:2500 | No text annotation | homologous HL_5J7L_187 NA | |
| HL_8VRL_058 | 1/A/2527:2537 | No text annotation | homologous HL_5J7L_188 NA | |
| HL_8VRL_059 | 1/A/2548:2555 | Pseudoknot geometry | homologous HL_4WF9_052 HL_52651.1 | |
| HL_8VRL_060 | 1/A/2579:2586 | GNRA with extra cWW | homologous HL_4WF9_053 HL_45359.1 | |
| HL_8VRL_061 | 1/A/2598:2603 | GNRA | homologous HL_9DFE_056 HL_34789.1 | |
| HL_8VRL_062 | 1/A/2628:2637 | No text annotation | homologous HL_5J7L_192 NA | |
| HL_8VRL_063 | 1/A/2695:2703 | No text annotation | homologous HL_9DFE_058 HL_52011.1 | |
| HL_8VRL_064 | 1/A/2752:2759 | GNRA variation | homologous HL_5J7L_194 NA | |
| HL_8VRL_065 | 1/A/2775:2781 | No text annotation | homologous HL_5J7L_195 NA | |
| HL_8VRL_066 | 1/A/2818:2823 | GNRA | homologous HL_7A0S_062 HL_34789.1 | |
| HL_8VRL_067 | 1/A/2882:2887 | GNRA | homologous HL_9DFE_062 HL_34789.1 | |
| HL_8VRL_068 | 1/A/2925:2930 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_8VRL_069 | 1/A/2969:2983 | No text annotation | homologous HL_5J7L_199 NA | |
| HL_8VRL_071 | 1/A/3040:3048 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_8VRL_072 | 1/A/3077:3082 | GNRA | homologous HL_7A0S_068 HL_34789.1 | |
| HL_8VRL_073 | 1/B/35:49 | No text annotation | geometric HL_5NS3_003 HL_97756.3 | |
| HL_8VRL_074 | 1/B/39:45 | No text annotation | homologous HL_5J7L_203 NA | |
| HL_8VRL_075 | 1/B/85:90 | UNCG variation | geometric HL_2CZJ_007 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8VRL_009 | No text annotation | ||
| HL_8VRL_010 | No text annotation | ||
| HL_8VRL_018 | No text annotation | ||
| HL_8VRL_024 | GNRA wlth tandem sheared | ||
| HL_8VRL_028 | No text annotation | ||
| HL_8VRL_031 | No text annotation | ||
| HL_8VRL_032 | GNRA wlth tandem sheared | ||
| HL_8VRL_033 | No text annotation | ||
| HL_8VRL_039 | No text annotation | ||
| HL_8VRL_051 | No text annotation | ||
| HL_8VRL_054 | No text annotation | ||
| HL_8VRL_070 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8VRL_001 | 1/A/21:27, 1/A/597:603 | Triple sheared with non-canonical cWW | homologous IL_4WF9_001 IL_22311.1 | |
| IL_8VRL_002 | 1/A/33:34, 1/A/530:532 | Single bulged A | homologous IL_7A0S_002 IL_14190.1 | |
| IL_8VRL_003 | 1/A/40:41, 1/A/522:524 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_8VRL_004 | 1/A/78:82, 1/A/95:102 | Kink-turn | homologous IL_9DFE_004 IL_54465.1 | |
| IL_8VRL_005 | 1/A/182:183, 1/A/211:213 | Single stack bend | homologous IL_5J7L_249 NA | |
| IL_8VRL_006 | 1/A/187:193, 1/A/200:207 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7A0S_006 IL_62167.1 | |
| IL_8VRL_007 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_8VRL_009 | 1/A/356:364, 1/A/438:439 | No text annotation | ||
| IL_8VRL_010 | 1/A/369:371, 1/A/432:433 | Single bulged U | geometric IL_7PMM_002 IL_97561.1 | |
| IL_8VRL_011 | 1/A/374:376, 1/A/425:429 | No text annotation | homologous IL_9DFE_011 IL_76658.1 | |
| IL_8VRL_012 | 1/A/382:384, 1/A/397:398 | No text annotation | ||
| IL_8VRL_013 | 1/A/569:573, 1/A/582:596 | No text annotation | ||
| IL_8VRL_014 | 1/A/623:626, 1/A/646:649 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_8VRL_015 | 1/A/630:631, 1/A/640:642 | Single bulged U | geometric IL_1S03_005 IL_97561.1 | |
| IL_8VRL_016 | 1/A/656:658, 1/A/667:669 | Isolated non-canonical cWW pair | homologous IL_4WF9_017 IL_71625.1 | |
| IL_8VRL_017 | 1/A/683:685, 1/A/780:781 | Single bulged A | homologous IL_7A0S_012 IL_14190.1 | |
| IL_8VRL_018 | 1/A/699:703, 1/A/712:716 | No text annotation | homologous IL_9DFE_014 IL_66798.3 | |
| IL_8VRL_019 | 1/A/787:789, 1/A/921:923 | Isolated non-canonical cWW pair | homologous IL_4WF9_020 IL_01003.1 | |
| IL_8VRL_020 | 1/A/789:793, 1/A/914:921 | tHW-tHW cross-strand stack | homologous IL_7A0S_015 IL_73855.1 | |
| IL_8VRL_021 | 1/A/812:813, 1/A/878:880 | Single bulged A | homologous IL_5J7L_261 NA | |
| IL_8VRL_022 | 1/A/817:818, 1/A/843:845 | Single bulged G | homologous IL_5J7L_262 NA | |
| IL_8VRL_023 | 1/A/818:822, 1/A/839:843 | Triple sheared | homologous IL_4WF9_024 IL_15190.1 | |
| IL_8VRL_024 | 1/A/853:855, 1/A/872:873 | Major groove platform | homologous IL_5J7L_264 NA | |
| IL_8VRL_025 | 1/A/890:892, 1/A/902:906 | Multiple bulged bases | geometric IL_5J7L_265 NA | |
| IL_8VRL_026 | 1/A/952:953, 1/A/1057:1059 | Single stack bend | homologous IL_7A0S_022 IL_15011.1 | |
| IL_8VRL_027 | 1/A/959:961, 1/A/1048:1051 | Isolated cWH basepair | geometric IL_8VTW_024 NA | |
| IL_8VRL_028 | 1/A/959:964, 1/A/1043:1051 | No text annotation | ||
| IL_8VRL_029 | 1/A/961:964, 1/A/1043:1048 | No text annotation | ||
| IL_8VRL_030 | 1/A/971:977, 1/A/1030:1036 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | homologous IL_5J7L_270 NA | |
| IL_8VRL_031 | 1/A/977:978, 1/A/1028:1030 | Minor groove platform | homologous IL_4WF9_032 IL_34520.1 | |
| IL_8VRL_032 | 1/A/979:984, 1/A/1024:1027 | C-loop | homologous IL_4WF9_033 IL_16301.1 | |
| IL_8VRL_033 | 1/A/986:988, 1/A/1020:1022 | Isolated cWS basepair | homologous IL_4WF9_034 NA | |
| IL_8VRL_034 | 1/A/991:996, 1/A/1012:1017 | Triple sheared related | geometric IL_4V88_421 NA | |
| IL_8VRL_036 | 1/A/1066:1067, 1/A/1084:1086 | Single bulged G | geometric IL_4LVW_002 IL_28408.1 | |
| IL_8VRL_037 | 1/A/1112:1114, 1/A/1278:1279 | Single bulged C | homologous IL_5J7L_276 NA | |
| IL_8VRL_038 | 1/A/1116:1120, 1/A/1272:1276 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_8VRL_039 | 1/A/1122:1129, 1/A/1269:1270 | SSU/LSU pseudoknot | homologous IL_4WF9_037 IL_11411.1 | |
| IL_8VRL_040 | 1/A/1129:1131, 1/A/1268:1269 | Single bulged U | homologous IL_4WF9_038 IL_97561.1 | |
| IL_8VRL_041 | 1/A/1136:1142, 1/A/1258:1263 | Kink-turn related | homologous IL_5J7L_280 NA | |
| IL_8VRL_042 | 1/A/1142:1148, 1/A/1242:1258 | No text annotation | homologous IL_5J7L_281 NA | |
| IL_8VRL_043 | 1/A/1149:1152, 1/A/1239:1241 | Isolated non-canonical cWW pair | homologous IL_4WF9_041 IL_30229.1 | |
| IL_8VRL_044 | 1/A/1153:1156, 1/A/1234:1238 | Tandem non-canonical cWW pairs | homologous IL_5J7L_283 NA | |
| IL_8VRL_045 | 1/A/1156:1158, 1/A/1232:1234 | Isolated non-canonical cWW pair | geometric IL_5ED1_002 IL_01003.1 | |
| IL_8VRL_046 | 1/A/1158:1161, 1/A/1230:1232 | No text annotation | geometric IL_4N0T_004 IL_32983.1 | |
| IL_8VRL_047 | 1/A/1161:1169, 1/A/1226:1230 | No text annotation | ||
| IL_8VRL_049 | 1/A/1311:1313, 1/A/1362:1365 | Isolated cWS basepair | homologous IL_4WF9_044 IL_42997.4 | |
| IL_8VRL_050 | 1/A/1322:1329, 1/A/1349:1353 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_8VRL_051 | 1/A/1333:1334, 1/A/1343:1345 | Single bulged A | geometric IL_2VPL_002 IL_14190.1 | |
| IL_8VRL_052 | 1/A/1377:1384, 1/A/2235:2241 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_8VRL_053 | 1/A/1425:1428, 1/A/1821:1822 | Major groove platform; stack outside cWW | geometric IL_5J7L_290 NA | |
| IL_8VRL_054 | 1/A/1434:1438, 1/A/1446:1448 | Major groove minor groove platform with tHH | homologous IL_4WF9_050 IL_06671.1 | |
| IL_8VRL_055 | 1/A/1466:1470, 1/A/1491:1495 | UAA/GAN | homologous IL_7A0S_048 IL_89021.3 | |
| IL_8VRL_056 | 1/A/1472:1476, 1/A/1485:1489 | tSH-tHW-tHS | homologous IL_5J7L_293 NA | |
| IL_8VRL_057 | 1/A/1529:1531, 1/A/1804:1806 | Isolated near basepair | geometric IL_4V88_406 NA | |
| IL_8VRL_058 | 1/A/1540:1545, 1/A/1625:1632 | No text annotation | ||
| IL_8VRL_059 | 1/A/1545:1557, 1/A/1614:1625 | No text annotation | ||
| IL_8VRL_060 | 1/A/1560:1562, 1/A/1609:1611 | Isolated non-canonical cWW pair | geometric IL_3GM7_002 IL_01003.1 | |
| IL_8VRL_061 | 1/A/1562:1567, 1/A/1605:1609 | No text annotation | ||
| IL_8VRL_062 | 1/A/1567:1568, 1/A/1603:1605 | Single stack bend | geometric IL_7MLX_001 NA | |
| IL_8VRL_064 | 1/A/1638:1642, 1/A/1797:1800 | Other IL | homologous IL_4WF9_054 IL_74317.1 | |
| IL_8VRL_065 | 1/A/1653:1656, 1/A/1777:1781 | tWW and near cWH | geometric IL_6DLR_005 IL_40706.1 | |
| IL_8VRL_066 | 1/A/1658:1661, 1/A/1771:1775 | No text annotation | homologous IL_9DFE_056 IL_74317.1 | |
| IL_8VRL_067 | 1/A/1689:1692, 1/A/1742:1746 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_8VRL_068 | 1/A/1694:1699, 1/A/1735:1740 | No text annotation | ||
| IL_8VRL_069 | 1/A/1702:1703, 1/A/1726:1732 | No text annotation | ||
| IL_8VRL_070 | 1/A/1709:1711, 1/A/1719:1720 | No text annotation | ||
| IL_8VRL_071 | 1/A/1869:1874, 1/A/2228:2230 | No text annotation | ||
| IL_8VRL_072 | 1/A/1881:1883, 1/A/2219:2221 | Isolated tWW turn | homologous IL_5J7L_305 NA | |
| IL_8VRL_073 | 1/A/1884:1887, 1/A/2217:2218 | Major groove platform; stack outside cWW | geometric IL_4WF9_064 IL_74641.1 | |
| IL_8VRL_074 | 1/A/1884:1892, 1/A/2214:2218 | No text annotation | geometric IL_4WF9_117 IL_80252.1 | |
| IL_8VRL_075 | 1/A/1887:1892, 1/A/2214:2217 | Intercalated tWH | homologous IL_4WF9_065 IL_28217.1 | |
| IL_8VRL_076 | 1/A/1904:1909, 1/A/1914:1920 | tSH-tSH-tHH-tHS | homologous IL_7A0S_063 IL_20700.1 | |
| IL_8VRL_077 | 1/A/1930:1934, 1/A/1960:1963 | tWW and near cWH | geometric IL_6DLR_005 IL_40706.1 | |
| IL_8VRL_078 | 1/A/1937:1942, 1/A/1952:1957 | No text annotation | geometric IL_8ZA4_001 NA | |
| IL_8VRL_079 | 1/A/1987:1988, 1/A/2204:2206 | Single bulged A | homologous IL_5J7L_312 NA | |
| IL_8VRL_080 | 1/A/2015:2021, 1/A/2030:2038 | Kink-turn related | homologous IL_7A0S_065 IL_17069.6 | |
| IL_8VRL_081 | 1/A/2054:2057, 1/A/2126:2127 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_8VRL_082 | 1/A/2058:2059, 1/A/2122:2125 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_8VRL_083 | 1/A/2063:2066, 1/A/2117:2118 | Major groove minor groove platform; mini C-loop | homologous IL_4WF9_072 IL_73108.1 | |
| IL_8VRL_084 | 1/A/2067:2072, 1/A/2111:2116 | No text annotation | geometric IL_4V9F_057 IL_34822.1 | |
| IL_8VRL_085 | 1/A/2073:2078, 1/A/2105:2110 | No text annotation | geometric IL_4V88_462 NA | |
| IL_8VRL_086 | 1/A/2081:2084, 1/A/2098:2102 | UAA/GAN related | homologous IL_5J7L_317 NA | |
| IL_8VRL_087 | 1/A/2157:2158, 1/A/2188:2191 | Bulged stacked bases | homologous IL_5J7L_318 NA | |
| IL_8VRL_088 | 1/A/2158:2169, 1/A/2185:2188 | No text annotation | homologous IL_5J7L_319 NA | |
| IL_8VRL_089 | 1/A/2274:2276, 1/A/2841:2842 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_8VRL_090 | 1/A/2278:2280, 1/A/2836:2839 | No text annotation | homologous IL_4WF9_079 IL_80025.1 | |
| IL_8VRL_091 | 1/A/2293:2294, 1/A/2662:2665 | Minor groove platform | homologous IL_5J7L_324 NA | |
| IL_8VRL_092 | 1/A/2304:2306, 1/A/2460:2463 | No text annotation | homologous IL_9DFE_082 IL_87316.1 | |
| IL_8VRL_093 | 1/A/2308:2310, 1/A/2456:2458 | Isolated non-canonical cWW pair | homologous IL_5J7L_326 NA | |
| IL_8VRL_094 | 1/A/2317:2319, 1/A/2416:2418 | Isolated non-canonical cWW pair | geometric IL_5TBW_042 NA | |
| IL_8VRL_097 | 1/A/2425:2427, 1/A/2444:2445 | Single bulged G | homologous IL_4WF9_125 IL_28408.1 | |
| IL_8VRL_098 | 1/A/2521:2523, 1/A/2541:2545 | No text annotation | homologous IL_9DFE_088 IL_14250.1 | |
| IL_8VRL_099 | 1/A/2574:2577, 1/A/2588:2591 | Double sheared | homologous IL_7A0S_081 IL_58355.1 | |
| IL_8VRL_100 | 1/A/2625:2627, 1/A/2638:2639 | Single bulged U | homologous IL_4WF9_088 IL_97561.1 | |
| IL_8VRL_101 | 1/A/2677:2678, 1/A/2722:2724 | Single stack bend | homologous IL_4WF9_089 IL_15011.1 | |
| IL_8VRL_102 | 1/A/2678:2679, 1/A/2720:2722 | Major groove platform | homologous IL_5J7L_392 NA | |
| IL_8VRL_103 | 1/A/2681:2683, 1/A/2717:2718 | Major groove platform | homologous IL_7A0S_085 IL_48076.7 | |
| IL_8VRL_104 | 1/A/2683:2685, 1/A/2713:2717 | Major groove minor groove platform with extra cWW | homologous IL_4WF9_092 IL_36931.1 | |
| IL_8VRL_105 | 1/A/2685:2687, 1/A/2711:2713 | Isolated non-canonical cWW pair | geometric IL_5TBW_016 NA | |
| IL_8VRL_106 | 1/A/2690:2694, 1/A/2704:2708 | Double sheared with non-canonical cWW | homologous IL_4WF9_093 IL_87767.1 | |
| IL_8VRL_107 | 1/A/2731:2732, 1/A/2804:2806 | Major groove platform | homologous IL_7A0S_088 IL_46637.1 | |
| IL_8VRL_108 | 1/A/2734:2736, 1/A/2798:2802 | Isolated non-canonical cWW with bulges | homologous IL_9DFE_097 IL_68118.1 | |
| IL_8VRL_109 | 1/A/2736:2737, 1/A/2795:2798 | No text annotation | homologous IL_5J7L_341 NA | |
| IL_8VRL_110 | 1/A/2746:2747, 1/A/2764:2767 | Major groove platform with intercalation | homologous IL_4WF9_097 IL_94991.1 | |
| IL_8VRL_111 | 1/A/2815:2816, 1/A/2825:2827 | Single bulged A | geometric IL_8C3A_122 NA | |
| IL_8VRL_112 | 1/A/2860:2864, 1/A/2998:3006 | tSH-tHS-tHW | homologous IL_5J7L_345 NA | |
| IL_8VRL_113 | 1/A/2876:2882, 1/A/2887:2892 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_7A0S_094 IL_16458.5 | |
| IL_8VRL_114 | 1/A/2904:2908, 1/A/2949:2951 | C-loop | homologous IL_5J7L_347 NA | |
| IL_8VRL_115 | 1/A/2911:2915, 1/A/2942:2946 | UAA/GAN related, with intercalation | homologous IL_4WF9_102 IL_82016.1 | |
| IL_8VRL_116 | 1/A/2919:2920, 1/A/2935:2938 | Multiple bulged bases | homologous IL_5J7L_349 NA | |
| IL_8VRL_117 | 1/A/2961:2966, 1/A/2986:2991 | UAA/GAN with extra cWW | homologous IL_5J7L_350 NA | |
| IL_8VRL_118 | 1/A/3059:3061, 1/A/3098:3101 | No text annotation | ||
| IL_8VRL_119 | 1/A/3064:3066, 1/A/3092:3095 | No text annotation | homologous IL_4WF9_107 IL_05502.1 | |
| IL_8VRL_120 | 1/A/3068:3073, 1/A/3086:3090 | tHS double platform | homologous IL_4WF9_108 IL_48489.1 | |
| IL_8VRL_121 | 1/B/5:6, 1/B/111:113 | No text annotation | ||
| IL_8VRL_122 | 1/B/6:8, 1/B/110:111 | Single stack bend | geometric IL_4LFB_041 IL_15011.1 | |
| IL_8VRL_123 | 1/B/18:19, 1/B/66:68 | Major groove intercalation | homologous IL_9DFE_110 IL_14190.1 | |
| IL_8VRL_124 | 1/B/24:30, 1/B/56:61 | No text annotation | ||
| IL_8VRL_125 | 1/B/31:32, 1/B/52:55 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_357 NA | |
| IL_8VRL_126 | 1/B/35:39, 1/B/45:49 | No text annotation | homologous IL_8P9A_368 IL_58103.12 | |
| IL_8VRL_127 | 1/B/72:80, 1/B/95:103 | Bacterial 5S Loop E | homologous IL_5J7L_359 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8VRL_008 | No text annotation | ||
| IL_8VRL_035 | No text annotation | ||
| IL_8VRL_048 | No text annotation | ||
| IL_8VRL_063 | No text annotation | ||
| IL_8VRL_095 | No text annotation | ||
| IL_8VRL_096 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8VRL_001 | 1/A/27:28, 1/A/562:569, 1/A/596:597 | No text annotation | geometric J3_5TBW_002 NA | |
| J3_8VRL_002 | 1/A/27:28, 1/A/562:573, 1/A/582:597 | No text annotation | geometric J3_4V9F_012 J3_24879.1 | |
| J3_8VRL_003 | 1/A/29:32, 1/A/533:549, 1/A/556:561 | No text annotation | homologous J3_9DFE_003 J3_07616.1 | |
| J3_8VRL_004 | 1/A/53:54, 1/A/67:73, 1/A/107:111 | No text annotation | homologous J3_5J7L_037 NA | |
| J3_8VRL_005 | 1/A/317:319, 1/A/457:463, 1/A/487:492 | No text annotation | ||
| J3_8VRL_006 | 1/A/322:331, 1/A/350:352, 1/A/443:454 | No text annotation | ||
| J3_8VRL_007 | 1/A/378:382, 1/A/398:407, 1/A/419:423 | No text annotation | homologous J3_4WF9_015 J3_77124.1 | |
| J3_8VRL_008 | 1/A/798:804, 1/A/888:890, 1/A/906:909 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_8VRL_009 | 1/A/813:815, 1/A/847:851, 1/A/875:878 | No text annotation | homologous J3_5J7L_039 NA | |
| J3_8VRL_011 | 1/A/1413:1418, 1/A/1843:1845, 1/A/1857:1860 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_8VRL_012 | 1/A/1421:1424, 1/A/1823:1829, 1/A/1838:1840 | No text annotation | homologous J3_9DFE_011 J3_47341.1 | |
| J3_8VRL_013 | 1/A/1459:1465, 1/A/1496:1500, 1/A/1517:1518 | No text annotation | homologous J3_7A0S_018 J3_94309.1 | |
| J3_8VRL_014 | 1/A/1531:1537, 1/A/1635:1637, 1/A/1801:1804 | No text annotation | ||
| J3_8VRL_015 | 1/A/1646:1650, 1/A/1784:1785, 1/A/1788:1793 | No text annotation | geometric J3_4V9F_017 J3_08594.1 | |
| J3_8VRL_016 | 1/A/2050:2052, 1/A/2129:2157, 1/A/2191:2196 | No text annotation | ||
| J3_8VRL_017 | 1/A/2314:2316, 1/A/2419:2423, 1/A/2447:2452 | Kink-turn 3-way junction | homologous J3_5J7L_044 NA | |
| J3_8VRL_018 | 1/A/2506:2508, 1/A/2608:2619, 1/A/2645:2651 | No text annotation | homologous J3_5J7L_070 NA | |
| J3_8VRL_019 | 1/A/2519:2521, 1/A/2545:2547, 1/A/2556:2561 | No text annotation | homologous J3_4WF9_008 J3_05327.1 | |
| J3_8VRL_020 | 1/A/2741:2744, 1/A/2769:2771, 1/A/2785:2791 | No text annotation | homologous J3_4WF9_009 J3_32601.6 | |
| J3_8VRL_021 | 1/A/3035:3037, 1/A/3051:3057, 1/A/3103:3107 | No text annotation | ||
| J3_8VRL_022 | 1/B/11:17, 1/B/69:71, 1/B/104:107 | No text annotation | ||
| J4_8VRL_001 | 1/A/269:274, 1/A/312:317, 1/A/492:494, 1/A/509:512 | No text annotation | ||
| J4_8VRL_002 | 1/A/378:382, 1/A/398:401, 1/A/405:407, 1/A/419:423 | No text annotation | homologous J4_4WF9_002 J4_16174.1 | |
| J4_8VRL_003 | 1/A/1385:1391, 1/A/1409:1410, 1/A/1863:1866, 1/A/2233:2234 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_8VRL_004 | 1/A/1425:1429, 1/A/1453:1458, 1/A/1519:1520, 1/A/1815:1822 | No text annotation | homologous J4_4WF9_005 J4_77353.1 | |
| J4_8VRL_005 | 1/A/1428:1429, 1/A/1453:1458, 1/A/1519:1520, 1/A/1815:1821 | No text annotation | homologous J4_4WF9_006 J4_48150.1 | |
| J4_8VRL_006 | 1/A/1664:1667, 1/A/1686:1688, 1/A/1747:1751, 1/A/1762:1768 | No text annotation | ||
| J4_8VRL_007 | 1/A/1989:1993, 1/A/2005:2009, 1/A/2044:2047, 1/A/2199:2203 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_8VRL_008 | 1/A/2509:2513, 1/A/2567:2571, 1/A/2594:2596, 1/A/2605:2607 | No text annotation | homologous J4_9DFE_009 J4_98139.1 | |
| J4_8VRL_009 | 1/A/2867:2870, 1/A/2898:2900, 1/A/2955:2959, 1/A/2993:2995 | No text annotation | homologous J4_4WF9_009 J4_77044.5 | |
| J5_8VRL_001 | 1/A/44:51, 1/A/113:118, 1/A/127:128, 1/A/147:149, 1/A/175:177 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_8VRL_002 | 1/A/618:620, 1/A/652:656, 1/A/669:671, 1/A/1376:1377, 1/A/2241:2242 | No text annotation | homologous J5_9DFE_003 J5_43153.6 | |
| J5_8VRL_003 | 1/A/676:681, 1/A/783:786, 1/A/924:927, 1/A/1310:1311, 1/A/1365:1371 | No text annotation | homologous J5_4WF9_004 J5_74302.6 | |
| J5_8VRL_004 | 1/A/694:697, 1/A/718:722, 1/A/729:732, 1/A/744:749, 1/A/766:771 | No text annotation | ||
| J5_8VRL_005 | 1/A/1892:1900, 1/A/1924:1925, 1/A/1968:1969, 1/A/1973:1981, 1/A/2212:2214 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_8VRL_006 | 1/A/2281:2288, 1/A/2670:2677, 1/A/2724:2731, 1/A/2806:2812, 1/A/2830:2835 | No text annotation | ||
| J5_8VRL_007 | 1/A/2297:2300, 1/A/2467:2470, 1/A/2482:2483, 1/A/2505:2506, 1/A/2651:2659 | No text annotation | homologous J5_4WF9_007 J5_39529.2 | |
| J6_8VRL_001 | 1/A/42:43, 1/A/178:182, 1/A/213:223, 1/A/231:235, 1/A/262:267, 1/A/514:521 | No text annotation | ||
| J6_8VRL_002 | 1/A/2297:2300, 1/A/2467:2470, 1/A/2482:2483, 1/A/2505:2508, 1/A/2608:2619, 1/A/2645:2659 | No text annotation | ||
| J7_8VRL_001 | 1/A/932:937, 1/A/950:951, 1/A/1060:1063, 1/A/1089:1094, 1/A/1105:1109, 1/A/1282:1283, 1/A/1300:1305 | No text annotation | ||
| J8_8VRL_001 | 1/A/5:12, 1/A/612:618, 1/A/2242:2247, 1/A/2264:2267, 1/A/2849:2854, 1/A/3012:3015, 1/A/3027:3032, 1/A/3110:3115 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8VRL_010 | No text annotation |
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