6XIJ Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/A/13:22 | NA | NA | ||
| 1/A/31:39 | NA | NA | ||
| 1/A/53:61 | NA | NA | ||
| 1/B/13:22 | NA | NA | ||
| 1/B/29:41 | NA | NA | ||
| 1/B/53:61 | NA | NA | ||
| 1/D/12:22 | NA | NA | ||
| 1/D/80:89 | NA | NA | ||
| 1/D/158:163 | NA | NA | ||
| 1/D/186:191 | NA | NA | ||
| 1/D/207:212 | NA | NA | ||
| 1/D/259:267 | NA | NA | ||
| 1/D/296:301 | NA | NA | ||
| 1/D/320:333 | NA | NA | ||
| 1/D/342:347 | NA | NA | ||
| 1/D/379:384 | NA | NA | ||
| 1/D/419:424 | NA | NA | ||
| 1/D/462:470 | NA | NA | ||
| 1/D/617:623 | NA | NA | ||
| 1/D/689:698 | NA | NA | ||
| 1/D/726:731 | NA | NA | ||
| 1/D/786:796 | NA | NA | ||
| 1/D/840:846 | NA | NA | ||
| 1/D/862:867 | NA | NA | ||
| 1/D/897:902 | NA | NA | ||
| 1/D/1012:1017 | NA | NA | ||
| 1/D/1076:1081 | NA | NA | ||
| 1/D/1089:1096 | NA | NA | ||
| 1/D/1134:1140 | NA | NA | ||
| 1/D/1165:1171 | NA | NA | ||
| 1/D/1265:1270 | NA | NA | ||
| 1/D/1314:1323 | NA | NA | ||
| 1/D/1356:1366 | NA | NA | ||
| 1/D/1449:1454 | NA | NA | ||
| 1/a/59:68 | geometric HL_4GXY_003 | NA HL_67719.1* | ||
| 1/a/87:95 | geometric HL_5J7L_135 | NA HL_17926.5* | ||
| 1/a/123:128 | homologous HL_7RQB_003 | NA HL_62869.3* | ||
| 1/a/137:142 | UNCG geometric HL_5J7L_030 | NA HL_79299.11* | ||
| 1/a/158:168 | geometric HL_5J7L_138 | NA HL_81820.1* | ||
| 1/a/194:201 | homologous HL_7RQB_006 | NA HL_23481.5* | ||
| 1/a/225:230 | homologous HL_7RQB_007 | NA HL_06569.2* | ||
| 1/a/246:252 | homologous HL_7RQB_008 | NA HL_67216.5* | ||
| 1/a/305:312 | homologous HL_7RQB_010 | NA HL_68493.6* | ||
| 1/a/319:323 | homologous HL_7RQB_011 | NA HL_98557.5* | ||
| 1/a/327:335 | homologous HL_7RQB_012 | NA HL_08002.6* | ||
| 1/a/382:392 | homologous HL_7RQB_013 | NA HL_91503.3* | ||
| 1/a/410:417 | homologous HL_7RQB_014 | NA HL_32512.8* | ||
| 1/a/462:467 | homologous HL_7RQB_015 | NA HL_43074.18* | ||
| 1/a/487:493 | homologous HL_7RQB_016 | NA HL_43074.18* | ||
| 1/a/544:549 | homologous HL_7RQB_017 | NA | ||
| 1/a/566:575 | homologous HL_7RQB_018 | NA HL_33239.17* | ||
| 1/a/611:617 | geometric HL_5J7L_151 | NA HL_25660.1* | ||
| 1/a/629:634 | homologous HL_7RQB_020 | NA HL_43074.18* | ||
| 1/a/641:647 | geometric HL_5J7L_153 | NA HL_16419.1* | ||
| 1/a/712:719 | homologous HL_7RQB_022 | NA HL_93727.5* | ||
| 1/a/779:785 | homologous HL_7RQB_024 | NA HL_16898.3* | ||
| 1/a/826:831 | homologous HL_7RQB_025 | NA HL_15942.5* | ||
| 1/a/885:891 | geometric HL_6DTD_001 | NA HL_69677.1* | ||
| 1/a/978:985 | homologous HL_7RQB_028 | NA HL_72451.5* | ||
| 1/a/1065:1073 | NA | NA | ||
| 1/a/1092:1099 | homologous HL_7RQB_030 | NA | ||
| 1/a/1172:1177 | NA | NA | ||
| 1/a/1222:1227 | homologous HL_7RQB_032 | NA HL_43074.18* | ||
| 1/a/1281:1289 | homologous HL_7RQB_033 | NA HL_33239.17* | ||
| 1/a/1324:1330 | homologous HL_7RQB_034 | NA HL_86880.5* | ||
| 1/a/1363:1368 | homologous HL_7RQB_035 | NA HL_43074.18* | ||
| 1/a/1389:1398 | homologous HL_7RQB_036 | NA HL_78457.4* | ||
| 1/a/1451:1459 | geometric HL_7A0S_017 | NA HL_96283.1* | ||
| 1/a/1492:1498 | homologous HL_7RQB_038 | NA HL_86880.5* | ||
| 1/a/1533:1538 | UNCG geometric HL_5J7L_030 | NA HL_79299.11* | ||
| 1/a/1565:1568 | homologous HL_7RQB_039 | NA HL_69353.7* | ||
| 1/a/1630:1636 | GNRA with one bulged base geometric HL_5J7L_174 | NA HL_02361.6* | ||
| 1/a/1691:1696 | homologous HL_7RQB_042 | NA HL_79299.11* | ||
| 1/a/1728:1731 | geometric HL_5J7L_176 | NA HL_46546.1* | ||
| 1/a/1752:1756 | homologous HL_7RQB_044 | NA HL_79272.3* | ||
| 1/a/1777:1787 | homologous HL_7RQB_045 | NA HL_43613.4* | ||
| 1/a/1806:1811 | homologous HL_7RQB_046 | NA HL_43074.18* | ||
| 1/a/1868:1873 | geometric HL_5U3G_001 | NA HL_40469.1* | ||
| 1/a/1949:1957 | homologous HL_7RQB_049 | NA HL_53760.4* | ||
| 1/a/2143:2148 | homologous HL_7RQB_051 | NA | ||
| 1/a/2209:2215 | geometric HL_5J7L_185 | NA HL_16845.5* | ||
| 1/a/2264:2276 | homologous HL_7RQB_054 | NA HL_19870.5* | ||
| 1/a/2303:2313 | homologous HL_7RQB_055 | NA HL_11805.3* | ||
| 1/a/2324:2331 | homologous HL_7RQB_056 | NA HL_46142.8* | ||
| 1/a/2356:2361 | Other HL geometric HL_5J7L_190 | NA HL_43074.18* | ||
| 1/a/2374:2379 | homologous HL_7RQB_058 | NA HL_43074.18* | ||
| 1/a/2404:2413 | homologous HL_7RQB_059 | NA HL_48376.4* | ||
| 1/a/2471:2479 | homologous HL_7RQB_060 | NA HL_36421.5* | ||
| 1/a/2528:2535 | homologous HL_7RQB_061 | NA HL_92681.5* | ||
| 1/a/2594:2599 | homologous HL_7RQB_063 | NA HL_43074.18* | ||
| 1/a/2658:2663 | homologous HL_7RQB_064 | NA HL_43074.18* | ||
| 1/a/2701:2706 | Ribsomal LSU H95 geometric HL_5J7L_198 | NA HL_67719.1* | ||
| 1/a/2745:2759 | NA | NA | ||
| 1/a/2794:2802 | geometric HL_5TBW_015 | NA HL_80105.3* | ||
| 1/a/2819:2827 | homologous HL_7RQB_068 | NA HL_05018.6* | ||
| 1/a/2856:2861 | homologous HL_7RQB_069 | NA HL_43074.18* | ||
| 1/d/38:44 | geometric HL_5J7L_203 | NA HL_02733.5* | ||
| 1/d/86:90 | geometric HL_6MSF_001 | NA HL_57052.3* |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6XIJ_019 | NA | ||
| HL_6XIJ_027 | NA | ||
| HL_6XIJ_037 | NA | ||
| HL_6XIJ_059 | NA | ||
| HL_6XIJ_063 | NA | ||
| HL_6XIJ_077 | homologous HL_7RQB_040 | ||
| HL_6XIJ_085 | NA | ||
| HL_6XIJ_087 | homologous HL_7RQB_050 | ||
| HL_6XIJ_090 | homologous HL_7RQB_053 | ||
| HL_6XIJ_099 | homologous HL_7RQB_062 |
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/D/30:32, 1/D/552:553 | NA | NA | ||
| 1/D/44:45, 1/D/396:398 | NA | NA | ||
| 1/D/47:52, 1/D/359:361 | NA | NA | ||
| 1/D/54:56, 1/D/356:357 | NA | NA | ||
| 1/D/63:66, 1/D/103:104 | NA | NA | ||
| 1/D/67:69, 1/D/99:102 | NA | NA | ||
| 1/D/70:73, 1/D/97:98 | NA | NA | ||
| 1/D/75:77, 1/D/92:95 | NA | NA | ||
| 1/D/128:131, 1/D/231:233 | NA | NA | ||
| 1/D/132:136, 1/D/227:230 | NA | NA | ||
| 1/D/144:146, 1/D/176:178 | NA | NA | ||
| 1/D/147:153, 1/D/168:175 | NA | NA | ||
| 1/D/203:207, 1/D/212:214 | NA | NA | ||
| 1/D/242:247, 1/D/277:284 | NA | NA | ||
| 1/D/249:252, 1/D/274:275 | NA | NA | ||
| 1/D/292:293, 1/D/304:308 | NA | NA | ||
| 1/D/367:369, 1/D/392:393 | NA | NA | ||
| 1/D/371:375, 1/D/389:390 | NA | NA | ||
| 1/D/375:376, 1/D/387:389 | NA | NA | ||
| 1/D/409:416, 1/D/427:433 | NA | NA | ||
| 1/D/440:442, 1/D/492:497 | NA | NA | ||
| 1/D/446:450, 1/D/483:488 | NA | NA | ||
| 1/D/450:455, 1/D/477:483 | NA | NA | ||
| 1/D/504:511, 1/D/540:541 | NA | NA | ||
| 1/D/569:575, 1/D/880:881 | NA | NA | ||
| 1/D/580:584, 1/D/757:761 | NA | NA | ||
| 1/D/594:596, 1/D/644:645 | NA | NA | ||
| 1/D/597:598, 1/D/640:643 | NA | NA | ||
| 1/D/605:612, 1/D/628:633 | NA | NA | ||
| 1/D/654:655, 1/D/751:754 | NA | NA | ||
| 1/D/658:659, 1/D/746:748 | NA | NA | ||
| 1/D/662:666, 1/D/740:743 | NA | NA | ||
| 1/D/673:678, 1/D/712:717 | NA | NA | ||
| 1/D/684:688, 1/D/699:706 | NA | NA | ||
| 1/D/774:778, 1/D/804:805 | NA | NA | ||
| 1/D/779:783, 1/D/799:803 | NA | NA | ||
| 1/D/887:894, 1/D/905:910 | NA | NA | ||
| 1/D/922:923, 1/D/1393:1395 | NA | NA | ||
| 1/D/925:927, 1/D/1390:1391 | NA | NA | ||
| 1/D/933:935, 1/D/1380:1384 | NA | NA | ||
| 1/D/953:954, 1/D/1226:1228 | NA | NA | ||
| 1/D/993:997, 1/D/1044:1045 | NA | NA | ||
| 1/D/998:1000, 1/D/1040:1043 | NA | NA | ||
| 1/D/1003:1006, 1/D/1023:1037 | NA | NA | ||
| 1/D/1048:1050, 1/D/1208:1209 | NA | NA | ||
| 1/D/1050:1052, 1/D/1206:1208 | NA | NA | ||
| 1/D/1052:1056, 1/D/1204:1206 | NA | NA | ||
| 1/D/1057:1058, 1/D/1199:1203 | NA | NA | ||
| 1/D/1060:1061, 1/D/1195:1197 | NA | NA | ||
| 1/D/1061:1063, 1/D/1193:1195 | NA | NA | ||
| 1/D/1124:1128, 1/D/1144:1149 | NA | NA | ||
| 1/D/1129:1132, 1/D/1142:1143 | NA | NA | ||
| 1/D/1158:1161, 1/D/1175:1181 | NA | NA | ||
| 1/D/1247:1253, 1/D/1284:1290 | NA | NA | ||
| 1/D/1255:1258, 1/D/1277:1282 | NA | NA | ||
| 1/D/1259:1263, 1/D/1272:1276 | NA | NA | ||
| 1/D/1303:1308, 1/D/1329:1334 | NA | NA | ||
| 1/D/1399:1401, 1/D/1501:1504 | NA | NA | ||
| 1/D/1412:1414, 1/D/1486:1488 | NA | NA | ||
| 1/D/1416:1419, 1/D/1481:1484 | NA | NA | ||
| 1/D/1430:1435, 1/D/1466:1470 | NA | NA | ||
| 1/D/1440:1442, 1/D/1460:1461 | NA | NA | ||
| 1/D/1445:1448, 1/D/1455:1457 | NA | NA | ||
| 1/a/24:30, 1/a/510:516 | Triple sheared with non-canonical cWW homologous IL_7RQB_001 | NA IL_66414.5* | ||
| 1/a/36:37, 1/a/442:444 | Single bulged A homologous IL_7RQB_002 | NA IL_80007.16* | ||
| 1/a/43:44, 1/a/434:436 | Minor groove platform homologous IL_7RQB_003 | NA IL_06437.11* | ||
| 1/a/81:85, 1/a/97:105 | Kink-turn homologous IL_7RQB_004 | NA IL_29549.9* | ||
| 1/a/183:184, 1/a/212:214 | Single stack bend homologous IL_7RQB_005 | NA IL_04038.4* | ||
| 1/a/188:194, 1/a/201:208 | 8x7 Sarcin-Ricin; G-bulge geometric IL_5J7L_250 | NA IL_04346.5* | ||
| 1/a/239:245, 1/a/253:258 | 7x6 Sarcin-Ricin; G-bulge homologous IL_7RQB_007 | NA IL_35110.5* | ||
| 1/a/269:271, 1/a/366:370 | geometric IL_5J7L_252 | NA IL_47972.1* | ||
| 1/a/274:281, 1/a/359:363 | geometric IL_5J7L_253 | NA IL_77870.1* | ||
| 1/a/293:295, 1/a/343:347 | homologous IL_7RQB_013 | NA IL_69440.1* | ||
| 1/a/481:484, 1/a/496:509 | geometric IL_5J7L_255 | NA IL_60992.5* | ||
| 1/a/536:539, 1/a/554:557 | Double sheared geometric IL_5J7L_256 | NA IL_09705.7* | ||
| 1/a/564:566, 1/a/575:577 | geometric IL_5J7L_257 | NA IL_01312.13* | ||
| 1/a/606:610, 1/a/618:622 | AAA cross-strand stack homologous IL_7RQB_016 | NA IL_56467.6* | ||
| 1/a/672:674, 1/a/806:808 | homologous IL_7RQB_017 | NA IL_01312.13* | ||
| 1/a/674:678, 1/a/799:806 | geometric IL_7RQB_018 | NA IL_17470.5* | ||
| 1/a/697:698, 1/a/763:765 | Single bulged A geometric IL_5J7L_261 | NA IL_80007.16* | ||
| 1/a/702:703, 1/a/728:730 | Single bulged G homologous IL_7RQB_020 | NA IL_59137.10* | ||
| 1/a/703:707, 1/a/724:728 | Triple sheared geometric IL_7RQB_021 | NA IL_56467.6* | ||
| 1/a/738:740, 1/a/757:758 | Major groove platform geometric IL_5J7L_264 | NA IL_80663.10* | ||
| 1/a/741:742, 1/a/754:756 | Single stack bend geometric IL_4LFB_041 | NA IL_04038.4* | ||
| 1/a/742:744, 1/a/753:754 | Single stack bend geometric IL_4V83_236 | NA IL_04038.4* | ||
| 1/a/775:777, 1/a/787:791 | Multiple bulged bases geometric IL_5J7L_265 | NA IL_90991.5* | ||
| 1/a/844:847, 1/a/933:934 | Other IL geometric IL_5J7L_267 | NA IL_31836.1* | ||
| 1/a/847:848, 1/a/930:933 | Stack outside cWW geometric IL_5J7L_268 | NA IL_37629.1* | ||
| 1/a/849:850, 1/a/927:929 | Single stack bend geometric IL_5J7L_032 | NA IL_04038.4* | ||
| 1/a/856:862, 1/a/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge geometric IL_5J7L_270 | NA IL_93830.2* | ||
| 1/a/862:863, 1/a/913:915 | Single bulged G geometric IL_5J7L_271 | NA IL_59137.10* | ||
| 1/a/864:868, 1/a/909:912 | C-loop homologous IL_7RQB_029 | NA IL_63596.4* | ||
| 1/a/870:872, 1/a/905:907 | geometric IL_5J7L_273 | NA IL_01312.13* | ||
| 1/a/875:879, 1/a/898:902 | Triple sheared geometric IL_5J7L_274 | NA IL_56467.6* | ||
| 1/a/880:883, 1/a/893:897 | NA | NA | ||
| 1/a/994:996, 1/a/1159:1160 | Single bulged C homologous IL_7RQB_035 | NA IL_61258.10* | ||
| 1/a/998:1002, 1/a/1153:1157 | UAA/GAN homologous IL_7RQB_036 | NA IL_53523.5* | ||
| 1/a/1004:1011, 1/a/1150:1151 | SSU/LSU pseudoknot homologous IL_7RQB_037 | NA IL_15861.6* | ||
| 1/a/1011:1013, 1/a/1149:1150 | Single bulged U geometric IL_5J7L_279 | NA IL_83039.11* | ||
| 1/a/1018:1024, 1/a/1140:1144 | homologous IL_7RQB_039 | NA IL_57188.3* | ||
| 1/a/1024:1030, 1/a/1124:1140 | geometric IL_5J7L_281 | NA IL_22615.1* | ||
| 1/a/1031:1034, 1/a/1121:1123 | Isolated non-canonical cWW with bulges homologous IL_7RQB_041 | NA IL_55456.1* | ||
| 1/a/1038:1041, 1/a/1114:1117 | Tandem non-canonical cWW pairs geometric IL_5J7L_283 | NA IL_85877.10* | ||
| 1/a/1043:1051, 1/a/1108:1112 | Kink-turn homologous IL_7RQB_042 | NA IL_90538.3* | ||
| 1/a/1059:1062, 1/a/1076:1079 | geometric IL_5J7L_285 | NA IL_23544.2* | ||
| 1/a/1087:1090, 1/a/1101:1102 | Major groove platform geometric IL_3OXE_003 | NA IL_80663.10* | ||
| 1/a/1196:1198, 1/a/1247:1250 | Isolated cWS basepair homologous IL_7RQB_045 | NA IL_67621.5* | ||
| 1/a/1202:1206, 1/a/1240:1243 | geometric IL_5J7L_287 | NA IL_91920.1* | ||
| 1/a/1208:1215, 1/a/1234:1238 | Kink-turn homologous IL_7RQB_047 | NA IL_29549.9* | ||
| 1/a/1262:1269, 1/a/2011:2017 | 8x7 Sarcin-Ricin; G-bulge homologous IL_7RQB_049 | NA IL_04346.5* | ||
| 1/a/1310:1313, 1/a/1603:1604 | Major groove platform; stack outside cWW homologous IL_7RQB_050 | NA IL_70995.6* | ||
| 1/a/1319:1323, 1/a/1331:1333 | C-loop homologous IL_7RQB_051 | NA IL_63596.4* | ||
| 1/a/1351:1355, 1/a/1376:1380 | UAA/GAN geometric IL_5J7L_292 | NA IL_34907.2* | ||
| 1/a/1357:1361, 1/a/1370:1374 | tSH-tHW-tHS homologous IL_7RQB_053 | NA IL_39521.5* | ||
| 1/a/1410:1411, 1/a/1590:1592 | Single stack bend geometric IL_4LFB_041 | NA IL_04038.4* | ||
| 1/a/1411:1413, 1/a/1589:1590 | Single stack bend geometric IL_4V83_236 | NA IL_04038.4* | ||
| 1/a/1415:1416, 1/a/1582:1587 | geometric IL_5J7L_294 | NA IL_90348.1* | ||
| 1/a/1417:1421, 1/a/1577:1581 | UAA/GAN homologous IL_7RQB_055 | NA IL_53523.5* | ||
| 1/a/1432:1435, 1/a/1557:1561 | Tandem non-canonical cWW pairs geometric IL_5J7L_296 | NA IL_85877.10* | ||
| 1/a/1437:1440, 1/a/1551:1555 | tSH-tHW homologous IL_7RQB_057 | NA IL_08757.3* | ||
| 1/a/1450:1451, 1/a/1459:1461 | Single bulged U geometric IL_5J7L_298 | NA IL_83039.11* | ||
| 1/a/1468:1471, 1/a/1520:1524 | geometric IL_5J7L_299 | NA IL_68574.2* | ||
| 1/a/1474:1478, 1/a/1513:1517 | tSH-tHW-tHS geometric IL_5J7L_300 | NA IL_39521.5* | ||
| 1/a/1480:1482, 1/a/1507:1511 | NA | NA | ||
| 1/a/1489:1491, 1/a/1499:1500 | Single bulged A geometric IL_5J7L_302 | NA IL_80007.16* | ||
| 1/a/1526:1529, 1/a/1542:1546 | UAA/GAN variation geometric IL_5J7L_303 | NA IL_81389.2* | ||
| 1/a/1651:1656, 1/a/2004:2006 | homologous IL_7RQB_064 | NA IL_12566.2* | ||
| 1/a/1663:1665, 1/a/1995:1997 | Isolated tWW turn homologous IL_7RQB_065 | NA IL_54997.5* | ||
| 1/a/1666:1669, 1/a/1993:1994 | Major groove platform; stack outside cWW homologous IL_7RQB_066 | NA IL_80663.10* | ||
| 1/a/1669:1674, 1/a/1990:1993 | Intercalated tWH geometric IL_5J7L_307 | NA IL_01312.13* | ||
| 1/a/1686:1691, 1/a/1696:1702 | tSH-tSH-tHH-tHS geometric IL_5J7L_308 | NA IL_66584.5* | ||
| 1/a/1712:1718, 1/a/1742:1746 | 6x5 Sarcin-Ricin; G-bulge geometric IL_5J7L_309 | NA IL_88269.2* | ||
| 1/a/1720:1724, 1/a/1736:1740 | Triple sheared geometric IL_5J7L_310 | NA IL_56467.6* | ||
| 1/a/1727:1728, 1/a/1731:1733 | Single bulged C geometric IL_5J7L_311 | NA IL_61258.10* | ||
| 1/a/1770:1771, 1/a/1980:1982 | Single bulged A homologous IL_7RQB_069 | NA IL_80007.16* | ||
| 1/a/1798:1804, 1/a/1813:1821 | Kink-turn related homologous IL_7RQB_070 | NA IL_17069.3* | ||
| 1/a/1837:1840, 1/a/1902:1903 | Major groove outside cWW, minor groove, intercalation pocket homologous IL_7RQB_071 | NA IL_31836.1* | ||
| 1/a/1841:1842, 1/a/1898:1901 | Major groove outside cWW, minor groove, intercalation pocket geometric IL_4V9F_067 | NA IL_13730.12* | ||
| 1/a/1846:1849, 1/a/1893:1894 | Major groove minor groove platform; mini C-loop geometric IL_7RQB_113 | NA IL_09061.4* | ||
| 1/a/1864:1867, 1/a/1874:1878 | UAA/GAN related geometric IL_5J7L_317 | NA IL_81389.2* | ||
| 1/a/1933:1934, 1/a/1964:1967 | Multiple bulged bases geometric IL_7RQB_076 | NA IL_69632.1* | ||
| 1/a/2050:2052, 1/a/2617:2618 | Major groove platform homologous IL_7RQB_078 | NA IL_80663.10* | ||
| 1/a/2054:2056, 1/a/2612:2615 | NA | NA | ||
| 1/a/2064:2066, 1/a/2444:2446 | Not an internal loop geometric IL_5VCI_005 | NA IL_04038.4* | ||
| 1/a/2070:2071, 1/a/2438:2441 | Minor groove platform geometric IL_5J7L_324 | NA IL_06437.11* | ||
| 1/a/2081:2083, 1/a/2236:2239 | Isolated tHS basepair with bulges homologous IL_7RQB_082 | NA IL_38958.6* | ||
| 1/a/2085:2087, 1/a/2232:2234 | homologous IL_7RQB_083 | NA IL_01312.13* | ||
| 1/a/2103:2105, 1/a/2184:2186 | geometric IL_7A0S_107 | NA IL_01312.13* | ||
| 1/a/2108:2110, 1/a/2179:2181 | homologous IL_7RQB_084 | NA | ||
| 1/a/2110:2121, 1/a/2177:2179 | NA | NA | ||
| 1/a/2122:2127, 1/a/2161:2176 | NA | NA | ||
| 1/a/2129:2136, 1/a/2155:2159 | homologous IL_7RQB_087 | NA | ||
| 1/a/2202:2204, 1/a/2220:2221 | Single bulged U geometric IL_5J7L_331 | NA IL_21340.1* | ||
| 1/a/2350:2353, 1/a/2364:2367 | Double sheared homologous IL_7RQB_089 | NA IL_09705.7* | ||
| 1/a/2401:2403, 1/a/2414:2415 | NA | NA | ||
| 1/a/2453:2455, 1/a/2496:2500 | NA | NA | ||
| 1/a/2459:2461, 1/a/2489:2493 | Major groove minor groove platform with extra cWW geometric IL_5J7L_337 | NA IL_96042.4* | ||
| 1/a/2466:2470, 1/a/2480:2484 | Triple sheared homologous IL_7RQB_095 | NA IL_56467.6* | ||
| 1/a/2507:2509, 1/a/2579:2582 | NA | NA | ||
| 1/a/2510:2512, 1/a/2574:2578 | Isolated non-canonical cWW with bulges geometric IL_5J7L_340 | NA IL_01312.13* | ||
| 1/a/2512:2513, 1/a/2571:2574 | Multiple bulged bases homologous IL_7RQB_098 | NA IL_13730.12* | ||
| 1/a/2522:2523, 1/a/2540:2543 | Minor groove platform with intercalation homologous IL_7RQB_099 | NA IL_95601.1* | ||
| 1/a/2588:2590, 1/a/2604:2606 | homologous IL_7RQB_100 | NA | ||
| 1/a/2591:2592, 1/a/2601:2603 | Single bulged A homologous IL_7RQB_101 | NA IL_80007.16* | ||
| 1/a/2636:2640, 1/a/2774:2782 | tSH-tHS-tHW homologous IL_7RQB_102 | NA IL_34907.2* | ||
| 1/a/2652:2658, 1/a/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge geometric IL_5J7L_346 | NA IL_35110.5* | ||
| 1/a/2680:2684, 1/a/2725:2727 | C-loop homologous IL_7RQB_104 | NA IL_63596.4* | ||
| 1/a/2687:2691, 1/a/2718:2722 | homologous IL_7RQB_105 | NA IL_08296.3* | ||
| 1/a/2695:2696, 1/a/2711:2714 | Multiple bulged bases homologous IL_7RQB_106 | NA IL_77034.1* | ||
| 1/a/2737:2742, 1/a/2762:2767 | UAA/GAN with extra cWW homologous IL_7RQB_107 | NA IL_49767.4* | ||
| 1/a/2806:2811, 1/a/2889:2892 | geometric IL_5J7L_351 | NA IL_82988.1* | ||
| 1/a/2838:2839, 1/a/2878:2880 | Single bulged C homologous IL_7RQB_108 | NA IL_61258.10* | ||
| 1/a/2843:2846, 1/a/2870:2874 | homologous IL_7RQB_109 | NA IL_58764.1* | ||
| 1/a/2847:2852, 1/a/2865:2869 | homologous IL_7RQB_110 | NA IL_83162.3* | ||
| 1/d/17:18, 1/d/65:67 | Major groove intercalation geometric IL_5J7L_355 | NA IL_40508.4* | ||
| 1/d/23:28, 1/d/56:60 | geometric IL_5J7L_356 | NA IL_18472.1* | ||
| 1/d/30:31, 1/d/51:54 | Major groove minor groove platform; mini C-loop geometric IL_5J7L_357 | NA IL_09061.4* | ||
| 1/d/34:38, 1/d/44:48 | Symmetric double minor groove platform homologous IL_5TBW_376 | NA IL_58103.5* | ||
| 1/d/71:79, 1/d/97:105 | Bacterial 5S Loop E geometric IL_5J7L_359 | NA IL_56455.3* |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6XIJ_025 | NA | ||
| IL_6XIJ_060 | NA | ||
| IL_6XIJ_061 | NA | ||
| IL_6XIJ_145 | NA | ||
| IL_6XIJ_149 | Not an internal loop geometric IL_5VCI_005 | ||
| IL_6XIJ_162 | NA |
Valid loops
| # | loop id | location | annotation (mapped to, source) | motif group (similar to) |
|---|---|---|---|---|
| 1/D/46:47, 1/D/361:367, 1/D/393:395 | NA | NA | ||
| 1/D/586:588, 1/D/651:654, 1/D/754:755 | NA | NA | ||
| 1/D/672:673, 1/D/717:725, 1/D/732:734 | NA | NA | ||
| 1/D/826:829, 1/D/857:861, 1/D/868:874 | NA | NA | ||
| 1/D/936:939, 1/D/1344:1350, 1/D/1372:1379 | NA | NA | ||
| 1/D/942:946, 1/D/1235:1237, 1/D/1337:1341 | NA | NA | ||
| 1/D/955:962, 1/D/973:984, 1/D/1221:1225 | NA | NA | ||
| 1/D/990:993, 1/D/1045:1047, 1/D/1210:1215 | NA | NA | ||
| 1/D/1073:1074, 1/D/1083:1087, 1/D/1098:1102 | NA | NA | ||
| 1/D/1116:1118, 1/D/1155:1158, 1/D/1181:1184 | NA | NA | ||
| 1/D/1237:1241, 1/D/1296:1303, 1/D/1334:1337 | NA | NA | ||
| 1/a/30:31, 1/a/474:481, 1/a/509:510 | NA | NA | ||
| 1/a/56:57, 1/a/70:76, 1/a/110:114 | homologous J3_7RQB_002 | NA | ||
| 1/a/683:689, 1/a/773:775, 1/a/791:794 | homologous J3_7RQB_004 | NA | ||
| 1/a/698:700, 1/a/732:736, 1/a/760:763 | homologous J3_7RQB_005 | NA | ||
| 1/a/1054:1057, 1/a/1081:1087, 1/a/1102:1105 | NA | NA | ||
| 1/a/1298:1303, 1/a/1625:1627, 1/a/1639:1642 | homologous J3_7RQB_007 | NA | ||
| 1/a/1306:1309, 1/a/1605:1611, 1/a/1620:1622 | homologous J3_7RQB_008 | NA | ||
| 1/a/1344:1349, 1/a/1382:1385, 1/a/1402:1403 | NA | NA | ||
| 1/a/2091:2093, 1/a/2196:2200, 1/a/2223:2228 | homologous J3_7RQB_010 | NA | ||
| 1/a/2295:2299, 1/a/2317:2323, 1/a/2332:2337 | NA | NA | ||
| 1/a/2517:2520, 1/a/2545:2547, 1/a/2561:2567 | homologous J3_7RQB_012 | NA | ||
| 1/a/2789:2791, 1/a/2805:2806, 1/a/2892:2894 | NA | NA | ||
| 1/a/2812:2815, 1/a/2831:2836, 1/a/2882:2888 | NA | NA | ||
| 1/d/10:16, 1/d/68:70, 1/d/106:110 | NA | NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6XIJ_009 | NA |
Coloring options: