8UQL Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8UQL_007 | 1/D/12:22 | No text annotation | homologous HL_4LFB_001 HL_31940.1 | |
| HL_8UQL_009 | 1/D/158:163 | GNRA | homologous HL_5J7L_003 NA | |
| HL_8UQL_010 | 1/D/186:191 | GNRA | homologous HL_5J7L_004 NA | |
| HL_8UQL_012 | 1/D/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_8UQL_013 | 1/D/296:301 | GNRA | homologous HL_4LFB_007 HL_34789.1 | |
| HL_8UQL_014 | 1/D/320:333 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_8UQL_015 | 1/D/342:347 | UNCG | homologous HL_4LFB_009 HL_61337.1 | |
| HL_8UQL_016 | 1/D/379:384 | GNRA | homologous HL_5J7L_010 NA | |
| HL_8UQL_017 | 1/D/419:424 | UNCG | homologous HL_5J7L_011 NA | |
| HL_8UQL_020 | 1/D/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_8UQL_021 | 1/D/689:698 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_8UQL_022 | 1/D/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_8UQL_023 | 1/D/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_8UQL_025 | 1/D/862:867 | GNRA | homologous HL_5J7L_019 NA | |
| HL_8UQL_026 | 1/D/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.1 | |
| HL_8UQL_028 | 1/D/1012:1017 | GNRA | homologous HL_4LFB_022 HL_34789.1 | |
| HL_8UQL_030 | 1/D/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_8UQL_031 | 1/D/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.1 | |
| HL_8UQL_032 | 1/D/1134:1140 | No text annotation | homologous HL_4LFB_026 HL_92935.1 | |
| HL_8UQL_033 | 1/D/1165:1171 | GNRA | homologous HL_4LFB_027 HL_34789.1 | |
| HL_8UQL_034 | 1/D/1265:1270 | GNRA | homologous HL_4LFB_028 HL_34789.1 | |
| HL_8UQL_035 | 1/D/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_4LFB_029 HL_93658.1 | |
| HL_8UQL_036 | 1/D/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_8UQL_047 | 1/a/305:312 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_142 NA | |
| HL_8UQL_048 | 1/a/319:323 | No text annotation | homologous HL_5J7L_143 NA | |
| HL_8UQL_049 | 1/a/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_8UQL_069 | 1/a/1222:1227 | GNRA | homologous HL_5J7L_164 NA | |
| HL_8UQL_104 | 1/a/2745:2759 | No text annotation | homologous HL_4WF9_062 HL_53269.1 | |
| HL_8UQL_114 | 1/a/2795:2801 | UNCG variation | homologous HL_5J7L_200 NA | |
| HL_8UQL_106 | 1/a/2819:2827 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_8UQL_109 | 1/d/86:90 | Mini UNCG | homologous HL_5J7L_204 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8UQL_001 | No text annotation | ||
| HL_8UQL_002 | tRNA anticodon loop | ||
| HL_8UQL_003 | No text annotation | ||
| HL_8UQL_004 | No text annotation | ||
| HL_8UQL_005 | tRNA anticodon loop | ||
| HL_8UQL_006 | No text annotation | ||
| HL_8UQL_008 | No text annotation | ||
| HL_8UQL_110 | No text annotation | ||
| HL_8UQL_011 | UNCG | ||
| HL_8UQL_018 | GNRA wlth extra near cWW | ||
| HL_8UQL_019 | No text annotation | ||
| HL_8UQL_024 | No text annotation | ||
| HL_8UQL_027 | No text annotation | ||
| HL_8UQL_029 | No text annotation | ||
| HL_8UQL_111 | No text annotation | ||
| HL_8UQL_037 | UNCG | ||
| HL_8UQL_038 | GNRA | ||
| HL_8UQL_039 | No text annotation | ||
| HL_8UQL_040 | No text annotation | ||
| HL_8UQL_041 | No text annotation | ||
| HL_8UQL_042 | UNCG | ||
| HL_8UQL_043 | No text annotation | ||
| HL_8UQL_044 | No text annotation | ||
| HL_8UQL_045 | No text annotation | ||
| HL_8UQL_046 | No text annotation | ||
| HL_8UQL_050 | No text annotation | ||
| HL_8UQL_051 | Pseudoknot geometry | ||
| HL_8UQL_052 | GNRA | ||
| HL_8UQL_053 | GNRA | ||
| HL_8UQL_054 | No text annotation | ||
| HL_8UQL_055 | T-loop with 2 stacked bulged bases | ||
| HL_8UQL_056 | No text annotation | ||
| HL_8UQL_057 | GNRA | ||
| HL_8UQL_058 | No text annotation | ||
| HL_8UQL_059 | GNRA wlth tandem sheared | ||
| HL_8UQL_060 | No text annotation | ||
| HL_8UQL_061 | No text annotation | ||
| HL_8UQL_062 | No text annotation | ||
| HL_8UQL_112 | No text annotation | ||
| HL_8UQL_063 | No text annotation | ||
| HL_8UQL_064 | No text annotation | ||
| HL_8UQL_065 | No text annotation | ||
| HL_8UQL_066 | No text annotation | ||
| HL_8UQL_067 | GNRA wlth tandem sheared | ||
| HL_8UQL_068 | No text annotation | ||
| HL_8UQL_070 | T-loop with 2 stacked bulged bases | ||
| HL_8UQL_071 | Pseudoknot geometry with 3' bulge | ||
| HL_8UQL_072 | GNRA | ||
| HL_8UQL_073 | No text annotation | ||
| HL_8UQL_074 | Mini UNCG with extended bulge | ||
| HL_8UQL_075 | Pseudoknot geometry with 3' bulge | ||
| HL_8UQL_076 | UNCG | ||
| HL_8UQL_077 | Mini UNCG | ||
| HL_8UQL_078 | No text annotation | ||
| HL_8UQL_079 | GNRA | ||
| HL_8UQL_080 | UNCG | ||
| HL_8UQL_113 | No text annotation | ||
| HL_8UQL_081 | No text annotation | ||
| HL_8UQL_082 | No text annotation | ||
| HL_8UQL_083 | No text annotation | ||
| HL_8UQL_084 | GNRA related | ||
| HL_8UQL_085 | GNRA variation | ||
| HL_8UQL_086 | No text annotation | ||
| HL_8UQL_087 | No text annotation | ||
| HL_8UQL_088 | No text annotation | ||
| HL_8UQL_089 | No text annotation | ||
| HL_8UQL_090 | No text annotation | ||
| HL_8UQL_091 | No text annotation | ||
| HL_8UQL_092 | No text annotation | ||
| HL_8UQL_093 | No text annotation | ||
| HL_8UQL_116 | No text annotation | ||
| HL_8UQL_094 | Pseudoknot geometry | ||
| HL_8UQL_095 | GNRA | ||
| HL_8UQL_096 | GNRA | ||
| HL_8UQL_097 | No text annotation | ||
| HL_8UQL_098 | No text annotation | ||
| HL_8UQL_099 | GNRA variation | ||
| HL_8UQL_100 | No text annotation | ||
| HL_8UQL_101 | GNRA | ||
| HL_8UQL_102 | GNRA | ||
| HL_8UQL_103 | Ribsomal LSU H95 | ||
| HL_8UQL_105 | No text annotation | ||
| HL_8UQL_107 | GNRA | ||
| HL_8UQL_115 | No text annotation | ||
| HL_8UQL_108 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8UQL_001 | 1/D/30:32, 1/D/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_8UQL_002 | 1/D/44:45, 1/D/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_8UQL_003 | 1/D/47:52, 1/D/359:361 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_8UQL_004 | 1/D/54:56, 1/D/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_8UQL_005 | 1/D/63:66, 1/D/103:104 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_8UQL_006 | 1/D/67:69, 1/D/99:102 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
| IL_8UQL_009 | 1/D/128:131, 1/D/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_8UQL_010 | 1/D/132:136, 1/D/227:230 | Minor groove platform related | homologous IL_5J7L_010 NA | |
| IL_8UQL_011 | 1/D/144:146, 1/D/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_8UQL_012 | 1/D/147:153, 1/D/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_8UQL_014 | 1/D/242:247, 1/D/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_8UQL_015 | 1/D/249:252, 1/D/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_8UQL_016 | 1/D/292:293, 1/D/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_8UQL_017 | 1/D/367:369, 1/D/392:393 | Single bulged U | homologous IL_4LFB_014 IL_97561.1 | |
| IL_8UQL_018 | 1/D/371:375, 1/D/389:390 | C-loop | homologous IL_5J7L_018 NA | |
| IL_8UQL_019 | 1/D/375:376, 1/D/387:389 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_8UQL_020 | 1/D/409:416, 1/D/427:433 | No text annotation | geometric IL_6CZR_359 NA | |
| IL_8UQL_021 | 1/D/440:442, 1/D/492:497 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_8UQL_022 | 1/D/446:450, 1/D/483:488 | tSH-tHW-tWW | geometric IL_5J7L_022 NA | |
| IL_8UQL_023 | 1/D/450:455, 1/D/477:483 | No text annotation | homologous IL_5J7L_023 NA | |
| IL_8UQL_024 | 1/D/504:511, 1/D/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_8UQL_026 | 1/D/569:575, 1/D/880:881 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_8UQL_027 | 1/D/580:584, 1/D/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_8UQL_028 | 1/D/594:596, 1/D/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_8UQL_029 | 1/D/597:598, 1/D/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_8UQL_030 | 1/D/605:612, 1/D/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_8UQL_031 | 1/D/654:655, 1/D/751:754 | Major groove platform; stack outside cWW | homologous IL_5J7L_031 NA | |
| IL_8UQL_032 | 1/D/658:659, 1/D/746:748 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_8UQL_033 | 1/D/662:666, 1/D/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_8UQL_202 | 1/D/673:677, 1/D/713:717 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.1 | |
| IL_8UQL_035 | 1/D/684:688, 1/D/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_8UQL_036 | 1/D/774:778, 1/D/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_8UQL_037 | 1/D/779:783, 1/D/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_8UQL_038 | 1/D/887:894, 1/D/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_8UQL_039 | 1/D/922:923, 1/D/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_8UQL_040 | 1/D/925:927, 1/D/1390:1391 | Single bulged G | homologous IL_4LFB_036 IL_28408.1 | |
| IL_8UQL_041 | 1/D/933:935, 1/D/1380:1384 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_8UQL_042 | 1/D/953:954, 1/D/1226:1228 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_8UQL_043 | 1/D/993:997, 1/D/1044:1045 | Minor groove platform | geometric IL_5J7L_043 NA | |
| IL_8UQL_046 | 1/D/1048:1050, 1/D/1208:1209 | Single bulged U | geometric IL_5J7L_046 NA | |
| IL_8UQL_048 | 1/D/1052:1056, 1/D/1204:1206 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_8UQL_049 | 1/D/1057:1058, 1/D/1199:1203 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_8UQL_050 | 1/D/1060:1061, 1/D/1195:1197 | Single bulged A | homologous IL_5J7L_049 NA | |
| IL_8UQL_051 | 1/D/1061:1063, 1/D/1193:1195 | Isolated non-canonical cWW pair | geometric IL_5J7L_050 NA | |
| IL_8UQL_052 | 1/D/1124:1128, 1/D/1144:1149 | No text annotation | homologous IL_5J7L_051 NA | |
| IL_8UQL_054 | 1/D/1158:1161, 1/D/1175:1181 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_8UQL_055 | 1/D/1247:1253, 1/D/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_8UQL_056 | 1/D/1255:1258, 1/D/1277:1282 | 180 degree turn | homologous IL_4LFB_052 IL_08849.1 | |
| IL_8UQL_057 | 1/D/1259:1263, 1/D/1272:1276 | Double sheared with non-canonical cWW | homologous IL_5J7L_056 NA | |
| IL_8UQL_058 | 1/D/1303:1308, 1/D/1329:1334 | No text annotation | geometric IL_5J7L_057 NA | |
| IL_8UQL_059 | 1/D/1399:1401, 1/D/1501:1504 | No text annotation | geometric IL_5J7L_058 NA | |
| IL_8UQL_062 | 1/D/1412:1414, 1/D/1486:1488 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_8UQL_063 | 1/D/1416:1419, 1/D/1481:1484 | Double sheared | homologous IL_5J7L_062 NA | |
| IL_8UQL_064 | 1/D/1430:1435, 1/D/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA | |
| IL_8UQL_065 | 1/D/1440:1442, 1/D/1460:1461 | Single bulged A | homologous IL_5J7L_064 NA | |
| IL_8UQL_066 | 1/D/1445:1448, 1/D/1455:1457 | No text annotation | homologous IL_5J7L_065 NA | |
| IL_8UQL_070 | 1/a/81:85, 1/a/97:105 | No text annotation | homologous IL_5J7L_248 NA | |
| IL_8UQL_078 | 1/a/536:539, 1/a/554:557 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_8UQL_089 | 1/a/844:847, 1/a/933:934 | 90 degree turn | homologous IL_5J7L_267 NA | |
| IL_8UQL_204 | 1/a/844:848, 1/a/930:934 | No text annotation | homologous IL_5J7L_399 NA | |
| IL_8UQL_090 | 1/a/847:848, 1/a/930:933 | Stack outside cWW | geometric IL_5J7L_268 NA | |
| IL_8UQL_091 | 1/a/849:850, 1/a/927:929 | Single stack bend | homologous IL_5J7L_269 NA | |
| IL_8UQL_092 | 1/a/856:862, 1/a/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | homologous IL_5J7L_270 NA | |
| IL_8UQL_094 | 1/a/864:868, 1/a/909:912 | C-loop with bulged stacked A's | homologous IL_5J7L_272 NA | |
| IL_8UQL_099 | 1/a/994:996, 1/a/1159:1160 | Single bulged C | homologous IL_5J7L_276 NA | |
| IL_8UQL_100 | 1/a/998:1002, 1/a/1153:1157 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_8UQL_101 | 1/a/1004:1011, 1/a/1150:1151 | SSU/LSU pseudoknot | homologous IL_5J7L_278 NA | |
| IL_8UQL_102 | 1/a/1011:1013, 1/a/1149:1150 | Single bulged U | geometric IL_5J7L_279 NA | |
| IL_8UQL_103 | 1/a/1018:1024, 1/a/1140:1144 | Kink-turn related | geometric IL_5J7L_280 NA | |
| IL_8UQL_104 | 1/a/1024:1030, 1/a/1124:1140 | No text annotation | geometric IL_5J7L_281 NA | |
| IL_8UQL_105 | 1/a/1031:1034, 1/a/1121:1123 | Isolated non-canonical cWW pair | homologous IL_7RQB_041 NA | |
| IL_8UQL_111 | 1/a/1196:1198, 1/a/1247:1250 | Isolated cWS basepair | homologous IL_4WF9_044 IL_42997.4 | |
| IL_8UQL_112 | 1/a/1202:1206, 1/a/1240:1243 | No text annotation | homologous IL_5J7L_287 NA | |
| IL_8UQL_113 | 1/a/1208:1215, 1/a/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_8UQL_115 | 1/a/1310:1313, 1/a/1603:1604 | Major groove platform; stack outside cWW | homologous IL_4WF9_049 IL_74641.1 | |
| IL_8UQL_178 | 1/a/2636:2640, 1/a/2774:2782 | tSH-tHS-tHW | homologous IL_5J7L_345 NA | |
| IL_8UQL_183 | 1/a/2737:2742, 1/a/2762:2767 | UAA/GAN with extra cWW | homologous IL_5J7L_350 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8UQL_193 | No text annotation | ||
| IL_8UQL_194 | No text annotation | ||
| IL_8UQL_195 | No text annotation | ||
| IL_8UQL_196 | No text annotation | ||
| IL_8UQL_197 | No text annotation | ||
| IL_8UQL_198 | No text annotation | ||
| IL_8UQL_199 | No text annotation | ||
| IL_8UQL_007 | Minor groove platform | ||
| IL_8UQL_200 | Single bulged G | ||
| IL_8UQL_008 | Single bulged G, near cWW | ||
| IL_8UQL_201 | No text annotation | ||
| IL_8UQL_013 | No text annotation | ||
| IL_8UQL_025 | Kink-turn related | ||
| IL_8UQL_034 | No text annotation | ||
| IL_8UQL_209 | Single stack bend | ||
| IL_8UQL_044 | No text annotation | ||
| IL_8UQL_203 | No text annotation | ||
| IL_8UQL_045 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_047 | Stack and bulge | ||
| IL_8UQL_053 | Minor groove platform | ||
| IL_8UQL_060 | No text annotation | ||
| IL_8UQL_061 | Partly complementary | ||
| IL_8UQL_067 | Triple sheared with non-canonical cWW | ||
| IL_8UQL_068 | Single bulged A | ||
| IL_8UQL_069 | Minor groove platform | ||
| IL_8UQL_071 | Single stack bend | ||
| IL_8UQL_072 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_8UQL_073 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_8UQL_074 | No text annotation | ||
| IL_8UQL_075 | No text annotation | ||
| IL_8UQL_076 | No text annotation | ||
| IL_8UQL_077 | No text annotation | ||
| IL_8UQL_079 | Isolated non-canonical cWW pair | ||
| IL_8UQL_080 | AAA cross-strand stack | ||
| IL_8UQL_081 | No text annotation | ||
| IL_8UQL_082 | tHW-tHW cross-strand stack | ||
| IL_8UQL_083 | Single bulged A | ||
| IL_8UQL_084 | Single bulged G | ||
| IL_8UQL_085 | Triple sheared | ||
| IL_8UQL_086 | Major groove platform | ||
| IL_8UQL_087 | Multiple bulged bases | ||
| IL_8UQL_088 | Single stack bend | ||
| IL_8UQL_093 | Single bulged G | ||
| IL_8UQL_095 | Isolated non-canonical cWW pair | ||
| IL_8UQL_096 | Double sheared with non-canonical cWW | ||
| IL_8UQL_205 | No text annotation | ||
| IL_8UQL_210 | Single bulged A | ||
| IL_8UQL_097 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_098 | Single stack bend | ||
| IL_8UQL_106 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_211 | No text annotation | ||
| IL_8UQL_107 | No text annotation | ||
| IL_8UQL_108 | No text annotation | ||
| IL_8UQL_109 | No text annotation | ||
| IL_8UQL_110 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_114 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_8UQL_116 | C-loop | ||
| IL_8UQL_117 | UAA/GAN | ||
| IL_8UQL_118 | tSH-tHW-tHS | ||
| IL_8UQL_119 | No text annotation | ||
| IL_8UQL_120 | Single stack bend | ||
| IL_8UQL_121 | Single stack bend | ||
| IL_8UQL_206 | No text annotation | ||
| IL_8UQL_122 | No text annotation | ||
| IL_8UQL_123 | UAA/GAN | ||
| IL_8UQL_124 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_125 | tSH-tHW | ||
| IL_8UQL_126 | Single bulged U | ||
| IL_8UQL_127 | No text annotation | ||
| IL_8UQL_128 | tSH-tHW-tHS | ||
| IL_8UQL_129 | 180 degree turn | ||
| IL_8UQL_130 | Single bulged A | ||
| IL_8UQL_131 | UAA/GAN variation | ||
| IL_8UQL_132 | No text annotation | ||
| IL_8UQL_133 | Isolated tWW turn | ||
| IL_8UQL_134 | Major groove platform; stack outside cWW | ||
| IL_8UQL_207 | No text annotation | ||
| IL_8UQL_135 | Intercalated tWH | ||
| IL_8UQL_136 | tSH-tSH-tHH-tHS | ||
| IL_8UQL_137 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_8UQL_138 | Triple sheared | ||
| IL_8UQL_139 | Single bulged C | ||
| IL_8UQL_140 | Single bulged A | ||
| IL_8UQL_141 | Kink-turn related | ||
| IL_8UQL_142 | Minor groove platform, major groove intercalation | ||
| IL_8UQL_143 | Major groove intercalation | ||
| IL_8UQL_144 | Major groove minor groove platform; mini C-loop | ||
| IL_8UQL_208 | No text annotation | ||
| IL_8UQL_145 | UAA/GAN related | ||
| IL_8UQL_146 | Intercalated cWW | ||
| IL_8UQL_147 | Bulged stacked bases | ||
| IL_8UQL_148 | No text annotation | ||
| IL_8UQL_149 | Major groove platform | ||
| IL_8UQL_150 | No text annotation | ||
| IL_8UQL_151 | No text annotation | ||
| IL_8UQL_152 | Decoding loop related | ||
| IL_8UQL_153 | Minor groove platform | ||
| IL_8UQL_154 | Isolated tHS basepair with bulges | ||
| IL_8UQL_155 | Isolated non-canonical cWW pair | ||
| IL_8UQL_156 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_157 | Isolated cWH basepair | ||
| IL_8UQL_158 | Isolated non-canonical cWW pair | ||
| IL_8UQL_159 | Tandem non-canonical cWW pairs | ||
| IL_8UQL_160 | Isolated non-canonical cWW pair | ||
| IL_8UQL_161 | Isolated non-canonical cWW pair | ||
| IL_8UQL_162 | No text annotation | ||
| IL_8UQL_163 | Isolated non-canonical cWW pair | ||
| IL_8UQL_164 | Kink-turn | ||
| IL_8UQL_165 | Single bulged U | ||
| IL_8UQL_166 | Double sheared | ||
| IL_8UQL_167 | No text annotation | ||
| IL_8UQL_168 | No text annotation | ||
| IL_8UQL_169 | No text annotation | ||
| IL_8UQL_170 | Major groove minor groove platform with extra cWW | ||
| IL_8UQL_171 | Double sheared with non-canonical cWW | ||
| IL_8UQL_172 | No text annotation | ||
| IL_8UQL_173 | Isolated non-canonical cWW with bulges | ||
| IL_8UQL_174 | No text annotation | ||
| IL_8UQL_175 | Major groove platform with intercalation | ||
| IL_8UQL_176 | No text annotation | ||
| IL_8UQL_177 | Single bulged A | ||
| IL_8UQL_179 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_8UQL_180 | C-loop | ||
| IL_8UQL_181 | UAA/GAN related, with intercalation | ||
| IL_8UQL_182 | Multiple bulged bases | ||
| IL_8UQL_184 | No text annotation | ||
| IL_8UQL_185 | Major groove intercalation | ||
| IL_8UQL_186 | Multiple bulged bases with non-canonical cWW | ||
| IL_8UQL_187 | tHS double platform | ||
| IL_8UQL_188 | Major groove intercalation | ||
| IL_8UQL_189 | No text annotation | ||
| IL_8UQL_190 | Major groove minor groove platform; mini C-loop | ||
| IL_8UQL_191 | Symmetric double minor groove platform | ||
| IL_8UQL_192 | Bacterial 5S Loop E |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8UQL_020 | 1/D/46:47, 1/D/361:367, 1/D/393:395 | No text annotation | geometric J3_5J7L_001 NA | |
| J3_8UQL_021 | 1/D/46:52, 1/D/359:367, 1/D/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_8UQL_022 | 1/D/586:588, 1/D/651:654, 1/D/754:755 | No text annotation | geometric J3_4LFB_011 J3_01633.1 | |
| J3_8UQL_023 | 1/D/586:588, 1/D/651:655, 1/D/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_8UQL_024 | 1/D/672:673, 1/D/717:725, 1/D/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_8UQL_001 | 1/D/826:829, 1/D/857:861, 1/D/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_8UQL_002 | 1/D/936:939, 1/D/1344:1350, 1/D/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_8UQL_025 | 1/D/943:946, 1/D/1235:1237, 1/D/1337:1340 | No text annotation | homologous J3_5J7L_005 NA | |
| J3_8UQL_004 | 1/D/955:962, 1/D/973:984, 1/D/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_8UQL_005 | 1/D/990:993, 1/D/1045:1047, 1/D/1210:1215 | No text annotation | homologous J3_4LFB_005 J3_84394.1 | |
| J3_8UQL_026 | 1/D/990:997, 1/D/1044:1047, 1/D/1210:1215 | No text annotation | homologous J3_5J7L_053 NA | |
| J3_8UQL_007 | 1/D/1063:1068, 1/D/1107:1113, 1/D/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_8UQL_027 | 1/D/1073:1074, 1/D/1083:1087, 1/D/1098:1102 | No text annotation | homologous J3_6CZR_024 NA | |
| J3_8UQL_008 | 1/D/1116:1118, 1/D/1155:1158, 1/D/1181:1184 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_8UQL_028 | 1/D/1116:1118, 1/D/1155:1161, 1/D/1175:1184 | No text annotation | homologous J3_5J7L_054 NA | |
| J3_8UQL_009 | 1/D/1237:1241, 1/D/1296:1303, 1/D/1334:1337 | No text annotation | homologous J3_4LFB_009 J3_03192.1 | |
| J3_8UQL_031 | 1/a/32:35, 1/a/445:461, 1/a/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_8UQL_033 | 1/a/297:301, 1/a/316:325, 1/a/337:341 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_8UQL_017 | 1/a/2517:2520, 1/a/2545:2547, 1/a/2561:2567 | No text annotation | homologous J3_5J7L_046 NA | |
| J3_8UQL_019 | 1/d/10:16, 1/d/68:70, 1/d/106:110 | No text annotation | homologous J3_5J7L_049 NA | |
| J4_8UQL_003 | 1/D/115:122, 1/D/239:240, 1/D/286:289, 1/D/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_8UQL_004 | 1/D/142:144, 1/D/178:184, 1/D/193:198, 1/D/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_8UQL_005 | 1/D/575:577, 1/D/764:769, 1/D/810:821, 1/D/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J4_8UQL_010 | 1/a/1310:1314, 1/a/1338:1343, 1/a/1404:1405, 1/a/1597:1604 | No text annotation | homologous J4_5J7L_022 NA | |
| J4_8UQL_014 | 1/a/2285:2289, 1/a/2343:2347, 1/a/2370:2372, 1/a/2381:2383 | No text annotation | homologous J4_5J7L_027 NA | |
| J5_8UQL_001 | 1/D/36:39, 1/D/403:406, 1/D/436:440, 1/D/497:500, 1/D/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_8UQL_002 | 1/D/36:39, 1/D/403:406, 1/D/436:442, 1/D/492:500, 1/D/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_8UQL_003 | 1/D/58:61, 1/D/106:113, 1/D/314:316, 1/D/337:339, 1/D/350:354 | No text annotation | homologous J5_5J7L_003 NA | |
| J5_8UQL_004 | 1/a/47:54, 1/a/116:121, 1/a/130:131, 1/a/148:150, 1/a/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_8UQL_006 | 1/a/584:589, 1/a/668:671, 1/a/809:812, 1/a/1195:1196, 1/a/1250:1256 | No text annotation | homologous J5_5J7L_015 NA | |
| J7_8UQL_001 | 1/a/8:15, 1/a/525:531, 1/a/2018:2023, 1/a/2040:2043, 1/a/2625:2630, 1/a/2788:2789, 1/a/2894:2895 | No text annotation | ||
| J7_8UQL_002 | 1/a/817:822, 1/a/835:838, 1/a/940:946, 1/a/971:976, 1/a/987:991, 1/a/1163:1164, 1/a/1185:1190 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8UQL_003 | No text annotation | ||
| J3_8UQL_006 | No text annotation | ||
| J3_8UQL_029 | No text annotation | ||
| J3_8UQL_030 | No text annotation | ||
| J3_8UQL_032 | No text annotation | ||
| J3_8UQL_010 | No text annotation | ||
| J3_8UQL_011 | No text annotation | ||
| J3_8UQL_012 | No text annotation | ||
| J3_8UQL_013 | No text annotation | ||
| J3_8UQL_014 | No text annotation | ||
| J3_8UQL_034 | No text annotation | ||
| J3_8UQL_035 | No text annotation | ||
| J3_8UQL_015 | Kink-turn 3-way junction | ||
| J3_8UQL_036 | No text annotation | ||
| J3_8UQL_016 | No text annotation | ||
| J3_8UQL_037 | No text annotation | ||
| J3_8UQL_018 | No text annotation | ||
| J4_8UQL_001 | tRNA junction | ||
| J4_8UQL_002 | tRNA junction | ||
| J4_8UQL_006 | No text annotation | ||
| J4_8UQL_007 | No text annotation | ||
| J4_8UQL_008 | No text annotation | ||
| J4_8UQL_009 | No text annotation | ||
| J4_8UQL_011 | No text annotation | ||
| J4_8UQL_012 | No text annotation | ||
| J4_8UQL_013 | No text annotation | ||
| J4_8UQL_015 | No text annotation | ||
| J5_8UQL_005 | No text annotation | ||
| J5_8UQL_007 | No text annotation | ||
| J6_8UQL_001 | No text annotation |
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