6YAN Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6YAN_001 | 1/1/14:22 | No text annotation Not in a motif group | geometric HL_4V88_198 HL_91104.1 | |
| HL_6YAN_002 | 1/1/31:39 | No text annotation Not in a motif group | homologous HL_6CFJ_107 NA | |
| HL_6YAN_003 | 1/1/53:61 | T-loop with 2 stacked bulged bases Not in a motif group | homologous HL_2BTE_004 HL_22280.1 | |
| HL_6YAN_004 | 1/2/7:17 | No text annotation Not in a motif group | homologous HL_4V88_186 HL_89881.2 | |
| HL_6YAN_005 | 1/2/69:80 | No text annotation Not in a motif group | ||
| HL_6YAN_006 | 1/2/156:162 | Other HL Not in a motif group | homologous HL_4V88_188 HL_76539.2 | |
| HL_6YAN_007 | 1/2/194:201 | No text annotation Not in a motif group | ||
| HL_6YAN_009 | 1/2/279:286 | T-loop with 1 bulged base Not in a motif group | homologous HL_4V88_191 HL_27930.1 | |
| HL_6YAN_010 | 1/2/312:319 | No text annotation Not in a motif group | ||
| HL_6YAN_011 | 1/2/367:377 | No text annotation Not in a motif group | ||
| HL_6YAN_012 | 1/2/406:411 | No text annotation Not in a motif group | homologous HL_4V88_194 HL_50142.2 | |
| HL_6YAN_013 | 1/2/431:442 | No text annotation Not in a motif group | homologous HL_4V88_195 HL_84288.1 | |
| HL_6YAN_014 | 1/2/452:457 | UNCG Not in a motif group | homologous HL_4V88_196 HL_03562.2 | |
| HL_6YAN_015 | 1/2/488:494 | No text annotation Not in a motif group | homologous HL_4V88_197 HL_09136.1 | |
| HL_6YAN_016 | 1/2/529:534 | Other HL Not in a motif group | geometric HL_4V88_207 HL_87030.2 | |
| HL_6YAN_017 | 1/2/559:571 | No text annotation Not in a motif group | geometric HL_4V88_199 HL_06285.2 | |
| HL_6YAN_018 | 1/2/608:613 | Other HL Not in a motif group | homologous HL_4V88_200 HL_53845.1 | |
| HL_6YAN_020 | 1/2/816:824 | No text annotation Not in a motif group | homologous HL_4V88_203 HL_46766.2 | |
| HL_6YAN_021 | 1/2/829:837 | No text annotation Not in a motif group | geometric HL_5NFV_001 HL_76539.2 | |
| HL_6YAN_022 | 1/2/881:897 | No text annotation Not in a motif group | homologous HL_8C3A_210 HL_07579.3 | |
| HL_6YAN_023 | 1/2/953:962 | No text annotation Not in a motif group | homologous HL_4V88_206 HL_12326.1 | |
| HL_6YAN_024 | 1/2/990:995 | Other HL Not in a motif group | homologous HL_4V88_207 HL_87030.2 | |
| HL_6YAN_025 | 1/2/1050:1060 | No text annotation Not in a motif group | homologous HL_4V88_208 HL_12326.1 | |
| HL_6YAN_026 | 1/2/1109:1116 | No text annotation Not in a motif group | ||
| HL_6YAN_027 | 1/2/1137:1142 | Other HL Not in a motif group | homologous HL_4V88_210 HL_42097.2 | |
| HL_6YAN_028 | 1/2/1174:1179 | GNRA Not in a motif group | homologous HL_4V88_211 HL_42097.2 | |
| HL_6YAN_029 | 1/2/1241:1250 | No text annotation Not in a motif group | ||
| HL_6YAN_030 | 1/2/1291:1300 | No text annotation Not in a motif group | homologous HL_4V88_213 HL_53597.2 | |
| HL_6YAN_031 | 1/2/1349:1354 | GNRA Not in a motif group | homologous HL_4V88_214 HL_42097.2 | |
| HL_6YAN_032 | 1/2/1362:1369 | No text annotation Not in a motif group | homologous HL_4V88_215 HL_71554.2 | |
| HL_6YAN_033 | 1/2/1417:1422 | No text annotation Not in a motif group | ||
| HL_6YAN_034 | 1/2/1456:1462 | No text annotation Not in a motif group | homologous HL_4V88_217 HL_42097.2 | |
| HL_6YAN_035 | 1/2/1560:1565 | GNRA Not in a motif group | homologous HL_4V88_218 HL_42097.2 | |
| HL_6YAN_036 | 1/2/1609:1620 | No text annotation Not in a motif group | homologous HL_4V88_219 HL_22554.1 | |
| HL_6YAN_037 | 1/2/1653:1661 | No text annotation Not in a motif group | homologous HL_4V88_220 HL_60812.1 | |
| HL_6YAN_039 | 1/2/1841:1846 | Other HL Not in a motif group | homologous HL_4V88_222 HL_16173.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6YAN_008 | No text annotation | ||
| HL_6YAN_019 | No text annotation | ||
| HL_6YAN_038 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6YAN_001 | 1/2/23:25, 1/2/639:641 | No text annotation Not in a motif group | geometric IL_3MEI_002 IL_95997.1 | |
| IL_6YAN_002 | 1/2/37:40, 1/2/504:508 | Double sheared Not in a motif group | geometric IL_4WF9_016 IL_09705.9 | |
| IL_6YAN_003 | 1/2/41:47, 1/2/469:471 | No text annotation Not in a motif group | geometric IL_4V88_387 IL_33912.1 | |
| IL_6YAN_004 | 1/2/49:51, 1/2/466:467 | Minor groove platform Not in a motif group | homologous IL_4V88_388 IL_93353.1 | |
| IL_6YAN_005 | 1/2/57:62, 1/2/86:88 | No text annotation Not in a motif group | homologous IL_4V88_389 IL_95004.1 | |
| IL_6YAN_006 | 1/2/63:69, 1/2/80:85 | No text annotation Not in a motif group | ||
| IL_6YAN_007 | 1/2/108:110, 1/2/341:343 | No text annotation Not in a motif group | geometric IL_1T0E_002 IL_95997.1 | |
| IL_6YAN_008 | 1/2/110:112, 1/2/339:341 | No text annotation Not in a motif group | geometric IL_4WF9_042 IL_95997.1 | |
| IL_6YAN_009 | 1/2/112:115, 1/2/338:339 | Multiple bulged bases Not in a motif group | homologous IL_4V88_392 IL_44546.1 | |
| IL_6YAN_010 | 1/2/116:121, 1/2/333:337 | No text annotation Not in a motif group | homologous IL_4V88_393 IL_64181.2 | |
| IL_6YAN_011 | 1/2/145:151, 1/2/167:174 | tWH-tWH-tHW-tHW Not in a motif group | homologous IL_4V88_394 IL_80604.2 | |
| IL_6YAN_012 | 1/2/152:154, 1/2/164:166 | Isolated cWH basepair Not in a motif group | geometric IL_6RA4_002 IL_51629.2 | |
| IL_6YAN_013 | 1/2/187:191, 1/2/204:208 | Triple sheared Not in a motif group | geometric IL_5J7L_338 IL_56467.8 | |
| IL_6YAN_014 | 1/2/192:194, 1/2/201:203 | No text annotation Not in a motif group | geometric IL_5J7L_273 IL_95997.1 | |
| IL_6YAN_015 | 1/2/213:216, 1/2/293:300 | No text annotation Not in a motif group | ||
| IL_6YAN_016 | 1/2/303:305, 1/2/326:327 | Single bulged A Not in a motif group | homologous IL_4V88_399 IL_37497.3 | |
| IL_6YAN_017 | 1/2/308:310, 1/2/321:323 | Isolated near basepair Not in a motif group | geometric IL_3NJ7_004 IL_52767.2 | |
| IL_6YAN_018 | 1/2/349:354, 1/2/386:393 | Kink-turn with non-sequential stacking Not in a motif group | homologous IL_4V88_402 IL_45067.2 | |
| IL_6YAN_019 | 1/2/356:361, 1/2/383:384 | No text annotation Not in a motif group | geometric IL_5Y58_001 IL_48100.2 | |
| IL_6YAN_020 | 1/2/401:403, 1/2/414:419 | No text annotation Not in a motif group | homologous IL_4V88_404 IL_11347.1 | |
| IL_6YAN_021 | 1/2/427:429, 1/2/444:446 | Isolated cWH basepair Not in a motif group | homologous IL_4V88_405 IL_51629.2 | |
| IL_6YAN_022 | 1/2/449:451, 1/2/458:460 | Isolated near basepair Not in a motif group | homologous IL_4V88_406 IL_52767.2 | |
| IL_6YAN_023 | 1/2/477:479, 1/2/501:502 | Single bulged U Not in a motif group | geometric IL_4LFB_014 IL_83039.14 | |
| IL_6YAN_024 | 1/2/481:486, 1/2/496:499 | C-loop with extra cWW pair Not in a motif group | homologous IL_4V88_408 IL_93630.2 | |
| IL_6YAN_025 | 1/2/519:522, 1/2/542:546 | No text annotation Not in a motif group | ||
| IL_6YAN_026 | 1/2/522:524, 1/2/539:542 | No text annotation Not in a motif group | geometric IL_4N0T_004 IL_46796.1 | |
| IL_6YAN_027 | 1/2/525:527, 1/2/536:538 | No text annotation Not in a motif group | geometric IL_5Y85_006 IL_95997.1 | |
| IL_6YAN_028 | 1/2/553:555, 1/2/575:582 | Isolated tHS basepair with bulges Not in a motif group | geometric IL_7RQB_082 IL_38958.7 | |
| IL_6YAN_029 | 1/2/556:559, 1/2/571:574 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6JDV_001 IL_30621.3 | |
| IL_6YAN_030 | 1/2/589:596, 1/2/626:627 | SSU/LSU pseudoknot Not in a motif group | homologous IL_4V88_413 IL_15861.7 | |
| IL_6YAN_031 | 1/2/596:598, 1/2/625:626 | Single bulged U Not in a motif group | geometric IL_4V88_407 IL_83039.14 | |
| IL_6YAN_032 | 1/2/601:607, 1/2/614:622 | No text annotation Not in a motif group | homologous IL_4V88_415 IL_55871.1 | |
| IL_6YAN_033 | 1/2/653:655, 1/2/1158:1160 | No text annotation Not in a motif group | geometric IL_1Y27_001 IL_51629.2 | |
| IL_6YAN_034 | 1/2/655:661, 1/2/1157:1158 | No text annotation Not in a motif group | geometric IL_4LFB_022 IL_69996.1 | |
| IL_6YAN_035 | 1/2/663:665, 1/2/1026:1028 | No text annotation Not in a motif group | homologous IL_4V88_417 IL_95997.1 | |
| IL_6YAN_036 | 1/2/666:670, 1/2/1021:1025 | tSH-tHW-tHS Not in a motif group | homologous IL_4V88_418 IL_17136.1 | |
| IL_6YAN_037 | 1/2/741:748, 1/2/788:792 | No text annotation Not in a motif group | ||
| IL_6YAN_038 | 1/2/748:751, 1/2/785:788 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_1MFQ_004 IL_30621.3 | |
| IL_6YAN_039 | 1/2/798:799, 1/2/856:859 | Major groove minor groove platform; mini C-loop Not in a motif group | homologous IL_4V88_423 IL_09061.6 | |
| IL_6YAN_040 | 1/2/801:803, 1/2/852:854 | No text annotation Not in a motif group | homologous IL_4V88_424 IL_95997.1 | |
| IL_6YAN_041 | 1/2/803:812, 1/2/844:852 | No text annotation Not in a motif group | ||
| IL_6YAN_042 | 1/2/869:870, 1/2/907:910 | Single stack bend Not in a motif group | geometric IL_4WF9_089 IL_76488.2 | |
| IL_6YAN_043 | 1/2/870:875, 1/2/903:907 | No text annotation Not in a motif group | geometric IL_5TBW_121 IL_05145.2 | |
| IL_6YAN_044 | 1/2/918:919, 1/2/1015:1018 | Major groove platform; stack outside cWW Not in a motif group | homologous IL_4V88_428 IL_50694.2 | |
| IL_6YAN_045 | 1/2/920:923, 1/2/1010:1014 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_429 IL_30621.3 | |
| IL_6YAN_046 | 1/2/924:927, 1/2/1006:1009 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_430 IL_30621.3 | |
| IL_6YAN_047 | 1/2/927:931, 1/2/1003:1006 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_431 IL_30621.3 | |
| IL_6YAN_048 | 1/2/938:941, 1/2/977:980 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_432 IL_30621.3 | |
| IL_6YAN_050 | 1/2/1038:1043, 1/2/1067:1069 | Other IL Not in a motif group | homologous IL_4V88_435 IL_22046.1 | |
| IL_6YAN_051 | 1/2/1043:1047, 1/2/1063:1067 | tSH-tHW-tHS Not in a motif group | geometric IL_5J7L_037 IL_17136.1 | |
| IL_6YAN_052 | 1/2/1087:1089, 1/2/1148:1154 | No text annotation Not in a motif group | homologous IL_4V88_437 IL_19557.3 | |
| IL_6YAN_053 | 1/2/1094:1097, 1/2/1127:1130 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_438 IL_30621.3 | |
| IL_6YAN_054 | 1/2/1097:1099, 1/2/1125:1127 | No text annotation Not in a motif group | geometric IL_5UNE_001 IL_53251.2 | |
| IL_6YAN_055 | 1/2/1104:1106, 1/2/1119:1120 | Minor groove platform Not in a motif group | geometric IL_5TBW_039 IL_42622.2 | |
| IL_6YAN_056 | 1/2/1164:1171, 1/2/1182:1187 | 8x6 Sarcin-Ricin with inserted Y; G-bulge Not in a motif group | homologous IL_4V88_440 IL_24606.2 | |
| IL_6YAN_057 | 1/2/1199:1200, 1/2/1689:1691 | Single bulged A Not in a motif group | homologous IL_4V88_441 IL_37497.3 | |
| IL_6YAN_058 | 1/2/1202:1204, 1/2/1686:1687 | Single bulged G Not in a motif group | homologous IL_4V88_442 IL_00225.3 | |
| IL_6YAN_059 | 1/2/1210:1213, 1/2/1676:1680 | C-loop Not in a motif group | homologous IL_4V88_443 IL_63596.6 | |
| IL_6YAN_060 | 1/2/1226:1228, 1/2/1521:1523 | No text annotation Not in a motif group | homologous IL_4V88_444 IL_95997.1 | |
| IL_6YAN_061 | 1/2/1231:1232, 1/2/1516:1518 | Minor groove platform Not in a motif group | homologous IL_4V88_445 IL_42622.2 | |
| IL_6YAN_062 | 1/2/1266:1268, 1/2/1506:1507 | Single stack bend Not in a motif group | geometric IL_7A0S_022 IL_92001.1 | |
| IL_6YAN_063 | 1/2/1277:1283, 1/2/1310:1312 | No text annotation Not in a motif group | ||
| IL_6YAN_064 | 1/2/1283:1286, 1/2/1305:1310 | No text annotation Not in a motif group | ||
| IL_6YAN_065 | 1/2/1287:1289, 1/2/1302:1304 | No text annotation Not in a motif group | homologous IL_4V88_448 IL_10023.1 | |
| IL_6YAN_066 | 1/2/1321:1323, 1/2/1498:1499 | Single bulged U Not in a motif group | homologous IL_4V88_449 IL_83039.14 | |
| IL_6YAN_067 | 1/2/1325:1329, 1/2/1494:1496 | Isolated cWS basepair Not in a motif group | geometric IL_4LFB_044 IL_76319.2 | |
| IL_6YAN_068 | 1/2/1329:1331, 1/2/1488:1494 | Minor groove platform with extra cWW Not in a motif group | homologous IL_4V88_451 IL_92788.2 | |
| IL_6YAN_069 | 1/2/1333:1334, 1/2/1484:1486 | Single bulged A Not in a motif group | homologous IL_4V88_452 IL_37497.3 | |
| IL_6YAN_070 | 1/2/1343:1345, 1/2/1376:1378 | Isolated cWH basepair Not in a motif group | homologous IL_4V88_453 IL_51629.2 | |
| IL_6YAN_071 | 1/2/1359:1361, 1/2/1370:1371 | Minor groove platform Not in a motif group | geometric IL_5ML7_009 IL_42622.2 | |
| IL_6YAN_072 | 1/2/1391:1395, 1/2/1443:1446 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6JDV_002 IL_30621.3 | |
| IL_6YAN_073 | 1/2/1398:1401, 1/2/1437:1440 | Minor groove platform Not in a motif group | homologous IL_4V88_456 IL_76458.1 | |
| IL_6YAN_074 | 1/2/1404:1407, 1/2/1430:1434 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_3WBM_003 IL_30621.3 | |
| IL_6YAN_075 | 1/2/1407:1409, 1/2/1429:1430 | No text annotation Not in a motif group | ||
| IL_6YAN_076 | 1/2/1410:1413, 1/2/1425:1428 | No text annotation Not in a motif group | ||
| IL_6YAN_077 | 1/2/1413:1415, 1/2/1424:1425 | Stack outside cWW Not in a motif group | geometric IL_1NTA_001 IL_16396.2 | |
| IL_6YAN_078 | 1/2/1449:1452, 1/2/1466:1471 | No text annotation Not in a motif group | ||
| IL_6YAN_079 | 1/2/1532:1534, 1/2/1589:1591 | No text annotation Not in a motif group | geometric IL_3GM7_006 IL_95997.1 | |
| IL_6YAN_080 | 1/2/1545:1553, 1/2/1572:1577 | No text annotation Not in a motif group | ||
| IL_6YAN_081 | 1/2/1555:1557, 1/2/1568:1570 | No text annotation Not in a motif group | geometric IL_4E48_003 IL_95997.1 | |
| IL_6YAN_082 | 1/2/1599:1605, 1/2/1624:1630 | No text annotation Not in a motif group | ||
| IL_6YAN_083 | 1/2/1695:1697, 1/2/1827:1830 | No text annotation Not in a motif group | homologous IL_4V88_463 IL_36143.3 | |
| IL_6YAN_084 | 1/2/1697:1700, 1/2/1823:1827 | No text annotation Not in a motif group | ||
| IL_6YAN_085 | 1/2/1701:1703, 1/2/1820:1822 | No text annotation Not in a motif group | homologous IL_4V88_465 IL_95997.1 | |
| IL_6YAN_086 | 1/2/1703:1706, 1/2/1816:1820 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5J7L_033 IL_71110.1 | |
| IL_6YAN_087 | 1/2/1709:1711, 1/2/1811:1813 | AA cWW Not in a motif group | homologous IL_4V88_467 IL_95997.1 | |
| IL_6YAN_088 | 1/2/1712:1715, 1/2/1807:1810 | Double sheared Not in a motif group | geometric IL_4LFB_060 IL_09705.9 | |
| IL_6YAN_089 | 1/2/1715:1717, 1/2/1806:1807 | Single bulged U Not in a motif group | geometric IL_4V9F_039 IL_83039.14 | |
| IL_6YAN_090 | 1/2/1724:1726, 1/2/1797:1799 | No text annotation Not in a motif group | homologous IL_4V88_470 IL_51629.2 | |
| IL_6YAN_091 | 1/2/1728:1731, 1/2/1792:1795 | Double sheared Not in a motif group | homologous IL_4V88_471 IL_09705.9 | |
| IL_6YAN_092 | 1/2/1734:1736, 1/2/1787:1789 | No text annotation Not in a motif group | geometric IL_3BNN_005 IL_95997.1 | |
| IL_6YAN_093 | 1/2/1737:1741, 1/2/1782:1786 | Triple sheared Not in a motif group | homologous IL_4V88_474 IL_56467.8 | |
| IL_6YAN_094 | 1/2/1745:1746, 1/2/1776:1778 | Major groove platform Not in a motif group | geometric IL_3OXE_003 IL_27635.2 | |
| IL_6YAN_095 | 1/2/1746:1747, 1/2/1774:1776 | Single stack bend Not in a motif group | geometric IL_7KGA_003 IL_76488.2 | |
| IL_6YAN_096 | 1/2/1747:1748, 1/2/1772:1774 | Single stack bend Not in a motif group | geometric IL_4WF9_007 IL_76488.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6YAN_049 | Kink-turn |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6YAN_001 | 1/2/40:41, 1/2/471:477, 1/2/502:504 | No text annotation Not in a motif group | ||
| J3_6YAN_002 | 1/2/812:815, 1/2/825:827, 1/2/839:844 | No text annotation Not in a motif group | ||
| J3_6YAN_003 | 1/2/934:937, 1/2/981:989, 1/2/996:1000 | No text annotation Not in a motif group | homologous J3_4V88_033 NA | |
| J3_6YAN_004 | 1/2/1090:1092, 1/2/1132:1136, 1/2/1143:1147 | No text annotation Not in a motif group | ||
| J3_6YAN_005 | 1/2/1214:1217, 1/2/1640:1646, 1/2/1668:1675 | No text annotation Not in a motif group | homologous J3_4V88_035 NA | |
| J3_6YAN_006 | 1/2/1221:1224, 1/2/1525:1527, 1/2/1633:1636 | No text annotation Not in a motif group | homologous J3_4V88_036 NA | |
| J3_6YAN_007 | 1/2/1233:1240, 1/2/1251:1262, 1/2/1511:1515 | No text annotation Not in a motif group | ||
| J3_6YAN_008 | 1/2/1268:1273, 1/2/1316:1320, 1/2/1500:1506 | No text annotation Not in a motif group | homologous J3_4V88_038 NA | |
| J3_6YAN_009 | 1/2/1336:1341, 1/2/1380:1385, 1/2/1477:1482 | No text annotation Not in a motif group | homologous J3_4V88_039 NA | |
| J3_6YAN_010 | 1/2/1346:1347, 1/2/1356:1359, 1/2/1371:1375 | No text annotation Not in a motif group | ||
| J3_6YAN_011 | 1/2/1387:1391, 1/2/1446:1449, 1/2/1471:1475 | No text annotation Not in a motif group | ||
| J3_6YAN_012 | 1/2/1527:1531, 1/2/1592:1599, 1/2/1630:1633 | No text annotation Not in a motif group | homologous J3_4V88_041 NA |
Problematic loops
No problematic loops
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