9HFO Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9HFO_001 | 1/5/13:22 | tRNA D-loop | geometric HL_3FOZ_004 HL_45175.1 | |
| HL_9HFO_002 | 1/5/31:39 | tRNA anticodon loop | geometric HL_9DFC_104 NA | |
| HL_9HFO_003 | 1/A/654:664 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_9HFO_004 | 1/A/701:708 | No text annotation | ||
| HL_9HFO_005 | 1/A/734:740 | No text annotation | ||
| HL_9HFO_006 | 1/A/768:773 | GNRA | geometric HL_5FJC_002 HL_34789.1 | |
| HL_9HFO_007 | 1/A/792:796 | No text annotation | geometric HL_8P9A_116 HL_32346.5 | |
| HL_9HFO_008 | 1/A/804:809 | No text annotation | ||
| HL_9HFO_009 | 1/A/842:847 | GNRA | homologous HL_4LFB_010 HL_34789.1 | |
| HL_9HFO_010 | 1/A/894:899 | GNRA variation | homologous HL_5J7L_205 NA | |
| HL_9HFO_011 | 1/A/989:998 | No text annotation | geometric HL_4LFB_015 HL_38491.1 | |
| HL_9HFO_012 | 1/A/1023:1028 | GNRA | geometric HL_5J7L_016 NA | |
| HL_9HFO_013 | 1/A/1074:1084 | No text annotation | homologous HL_4LFB_017 HL_38491.1 | |
| HL_9HFO_014 | 1/A/1115:1126 | No text annotation | ||
| HL_9HFO_015 | 1/A/1150:1155 | No text annotation | ||
| HL_9HFO_016 | 1/A/1217:1226 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_9HFO_017 | 1/A/1281:1287 | GNRA related | geometric HL_8G9Z_003 HL_37569.1 | |
| HL_9HFO_018 | 1/A/1310:1315 | No text annotation | ||
| HL_9HFO_019 | 1/A/1373:1379 | No text annotation | geometric HL_7VTI_001 NA | |
| HL_9HFO_020 | 1/A/1399:1407 | T-loop with 2 stacked bulged bases | geometric HL_4YCP_003 HL_33597.1 | |
| HL_9HFO_021 | 1/A/1440:1450 | No text annotation | homologous HL_5J7L_029 NA | |
| HL_9HFO_022 | 1/A/1580:1585 | GNRA | homologous HL_6CZR_103 NA |
Problematic loops
No problematic loops
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9HFO_003 | 1/A/649:651, 1/A/667:668 | No text annotation | ||
| IL_9HFO_004 | 1/A/674:676, 1/A/921:923 | No text annotation | geometric IL_5E81_401 IL_42997.4 | |
| IL_9HFO_005 | 1/A/685:686, 1/A/859:861 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_9HFO_006 | 1/A/690:692, 1/A/822:823 | Single bulged A | geometric IL_6WPI_001 IL_14190.1 | |
| IL_9HFO_007 | 1/A/694:696, 1/A/819:820 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_9HFO_008 | 1/A/727:729, 1/A/744:747 | No text annotation | geometric IL_9DFE_030 IL_82096.1 | |
| IL_9HFO_009 | 1/A/729:732, 1/A/742:744 | No text annotation | geometric IL_9DFE_030 IL_82096.1 | |
| IL_9HFO_010 | 1/A/756:761, 1/A/779:786 | Kink-turn with non-sequential stacking | geometric IL_4LFB_011 IL_46174.4 | |
| IL_9HFO_011 | 1/A/762:765, 1/A/777:778 | Major groove platform; stack outside cWW | geometric IL_3DIL_004 IL_74641.1 | |
| IL_9HFO_012 | 1/A/762:766, 1/A/775:778 | No text annotation | ||
| IL_9HFO_013 | 1/A/765:766, 1/A/775:777 | No text annotation | ||
| IL_9HFO_014 | 1/A/830:832, 1/A/855:856 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_9HFO_015 | 1/A/834:838, 1/A/852:853 | C-loop | homologous IL_5J7L_018 NA | |
| IL_9HFO_016 | 1/A/838:839, 1/A/850:852 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_9HFO_017 | 1/A/876:885, 1/A/910:913 | No text annotation | ||
| IL_9HFO_018 | 1/A/887:893, 1/A/900:908 | Kink-turn related | homologous IL_4LFB_021 IL_52042.1 | |
| IL_9HFO_019 | 1/A/935:941, 1/A/1133:1134 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_9HFO_020 | 1/A/946:950, 1/A/1044:1049 | No text annotation | ||
| IL_9HFO_021 | 1/A/952:968, 1/A/1036:1042 | No text annotation | ||
| IL_9HFO_022 | 1/A/974:980, 1/A/1008:1014 | No text annotation | ||
| IL_9HFO_023 | 1/A/982:984, 1/A/1004:1006 | Isolated non-canonical cWW pair | geometric IL_8CRE_023 NA | |
| IL_9HFO_024 | 1/A/986:988, 1/A/999:1002 | No text annotation | ||
| IL_9HFO_025 | 1/A/1020:1022, 1/A/1029:1030 | Other IL | geometric IL_3WBM_004 NA | |
| IL_9HFO_026 | 1/A/1062:1066, 1/A/1092:1093 | Left turn | homologous IL_5J7L_036 NA | |
| IL_9HFO_027 | 1/A/1067:1071, 1/A/1087:1091 | tSH-tHW-tHS | geometric IL_6CZR_135 NA | |
| IL_9HFO_028 | 1/A/1109:1111, 1/A/1130:1132 | Isolated non-canonical cWW pair | geometric IL_8CRE_425 IL_01003.1 | |
| IL_9HFO_029 | 1/A/1139:1147, 1/A/1158:1164 | No text annotation | ||
| IL_9HFO_030 | 1/A/1175:1176, 1/A/1477:1479 | Single bulged A | homologous IL_6CZR_147 NA | |
| IL_9HFO_031 | 1/A/1178:1180, 1/A/1474:1475 | Single bulged G | homologous IL_6CZR_148 NA | |
| IL_9HFO_032 | 1/A/1186:1190, 1/A/1464:1468 | No text annotation | ||
| IL_9HFO_033 | 1/A/1208:1209, 1/A/1355:1357 | Minor groove platform | homologous IL_4LFB_038 IL_34520.1 | |
| IL_9HFO_034 | 1/A/1244:1252, 1/A/1340:1345 | No text annotation | ||
| IL_9HFO_035 | 1/A/1253:1255, 1/A/1338:1339 | Single bulged U | homologous IL_4LFB_042 IL_97561.1 | |
| IL_9HFO_036 | 1/A/1257:1261, 1/A/1334:1336 | No text annotation | homologous IL_6CZR_154 NA | |
| IL_9HFO_037 | 1/A/1262:1263, 1/A/1329:1333 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_9HFO_038 | 1/A/1265:1266, 1/A/1325:1327 | Single bulged A | homologous IL_5J7L_049 NA | |
| IL_9HFO_039 | 1/A/1266:1268, 1/A/1323:1325 | Isolated non-canonical cWW pair | homologous IL_5J7L_050 NA | |
| IL_9HFO_040 | 1/A/1274:1277, 1/A/1298:1301 | Double sheared | geometric IL_8CRE_402 IL_58355.1 | |
| IL_9HFO_041 | 1/A/1278:1279, 1/A/1289:1297 | No text annotation | ||
| IL_9HFO_042 | 1/A/1388:1393, 1/A/1413:1418 | No text annotation | ||
| IL_9HFO_043 | 1/A/1483:1485, 1/A/1566:1569 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_9HFO_044 | 1/A/1485:1488, 1/A/1562:1566 | No text annotation | homologous IL_4LFB_068 IL_25873.1 | |
| IL_9HFO_045 | 1/A/1489:1491, 1/A/1559:1561 | Isolated non-canonical cWW pair | homologous IL_5J7L_363 NA | |
| IL_9HFO_046 | 1/A/1491:1495, 1/A/1554:1559 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9HFO_001 | Isolated non-canonical cWW pair | ||
| IL_9HFO_002 | Tandem non-canonical cWW pairs |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9HFO_001 | 1/A/677:680, 1/A/866:872, 1/A/917:920 | No text annotation | ||
| J3_9HFO_002 | 1/A/687:690, 1/A/823:830, 1/A/856:858 | No text annotation | ||
| J3_9HFO_003 | 1/A/973:974, 1/A/1014:1020, 1/A/1030:1031 | No text annotation | ||
| J3_9HFO_004 | 1/A/1192:1194, 1/A/1428:1434, 1/A/1456:1462 | No text annotation | ||
| J3_9HFO_005 | 1/A/1198:1201, 1/A/1364:1366, 1/A/1421:1424 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_9HFO_006 | 1/A/1210:1216, 1/A/1227:1238, 1/A/1351:1354 | No text annotation | ||
| J3_9HFO_007 | 1/A/1268:1273, 1/A/1302:1308, 1/A/1317:1323 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
| J3_9HFO_008 | 1/A/1366:1370, 1/A/1382:1388, 1/A/1418:1421 | No text annotation | ||
| J4_9HFO_001 | 1/5/7:10, 1/5/25:27, 1/5/43:49, 1/5/65:66 | No text annotation | ||
| J4_9HFO_002 | 1/A/698:701, 1/A/708:715, 1/A/800:802, 1/A/811:817 | No text annotation | ||
| J4_9HFO_003 | 1/A/717:724, 1/A/750:753, 1/A/789:791, 1/A/797:798 | No text annotation | ||
| J4_9HFO_004 | 1/A/941:943, 1/A/1052:1057, 1/A/1098:1109, 1/A/1132:1133 | No text annotation | homologous J4_5J7L_003 NA |
Problematic loops
No problematic loops
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