3JAQ Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_3JAQ_001 | 1/1/13:22 | No text annotation Not in a motif group | homologous HL_3KFU_004 NA | |
| HL_3JAQ_002 | 1/1/31:39 | No text annotation Not in a motif group | homologous HL_4YCP_002 NA | |
| HL_3JAQ_003 | 1/1/53:61 | No text annotation Not in a motif group | homologous HL_1YFG_003 NA | |
| HL_3JAQ_004 | 1/2/7:17 | No text annotation Not in a motif group | homologous HL_4V88_186 HL_89881.2 | |
| HL_3JAQ_005 | 1/2/70:81 | No text annotation Not in a motif group | ||
| HL_3JAQ_006 | 1/2/153:159 | Other HL Not in a motif group | homologous HL_4V88_188 HL_76539.4 | |
| HL_3JAQ_007 | 1/2/189:194 | No text annotation Not in a motif group | geometric HL_7RQB_011 HL_70546.1 | |
| HL_3JAQ_008 | 1/2/229:234 | UNCG Not in a motif group | geometric HL_5J7L_171 HL_03562.2 | |
| HL_3JAQ_009 | 1/2/242:249 | T-loop with 1 bulged base Not in a motif group | homologous HL_4V88_191 HL_56241.1 | |
| HL_3JAQ_010 | 1/2/274:280 | No text annotation Not in a motif group | geometric HL_5TBW_006 HL_98984.3 | |
| HL_3JAQ_011 | 1/2/329:337 | No text annotation Not in a motif group | homologous HL_4V88_193 HL_69023.2 | |
| HL_3JAQ_012 | 1/2/367:372 | No text annotation Not in a motif group | homologous HL_4V88_194 HL_50142.2 | |
| HL_3JAQ_013 | 1/2/392:403 | No text annotation Not in a motif group | homologous HL_4V88_195 HL_84288.1 | |
| HL_3JAQ_014 | 1/2/413:418 | UNCG Not in a motif group | homologous HL_4V88_196 HL_03562.2 | |
| HL_3JAQ_015 | 1/2/449:455 | No text annotation Not in a motif group | homologous HL_4V88_197 HL_26380.1 | |
| HL_3JAQ_016 | 1/2/490:495 | No text annotation Not in a motif group | homologous HL_4V88_198 HL_91104.1 | |
| HL_3JAQ_017 | 1/2/516:534 | No text annotation Not in a motif group | ||
| HL_3JAQ_018 | 1/2/568:573 | Other HL Not in a motif group | homologous HL_4V88_200 HL_53845.2 | |
| HL_3JAQ_019 | 1/2/715:723 | No text annotation Not in a motif group | ||
| HL_3JAQ_020 | 1/2/764:772 | No text annotation Not in a motif group | homologous HL_4V88_203 HL_46766.2 | |
| HL_3JAQ_021 | 1/2/777:782 | No text annotation Not in a motif group | ||
| HL_3JAQ_022 | 1/2/828:842 | No text annotation Not in a motif group | homologous HL_4V88_205 HL_96598.1 | |
| HL_3JAQ_023 | 1/2/899:908 | No text annotation Not in a motif group | homologous HL_4V88_206 HL_12326.1 | |
| HL_3JAQ_024 | 1/2/936:941 | Other HL Not in a motif group | homologous HL_4V88_207 HL_87030.2 | |
| HL_3JAQ_025 | 1/2/996:1006 | No text annotation Not in a motif group | homologous HL_4V88_208 HL_12326.1 | |
| HL_3JAQ_026 | 1/2/1055:1063 | No text annotation Not in a motif group | ||
| HL_3JAQ_027 | 1/2/1083:1088 | Other HL Not in a motif group | homologous HL_4V88_210 HL_35490.1 | |
| HL_3JAQ_028 | 1/2/1120:1125 | GNRA Not in a motif group | homologous HL_4V88_211 HL_35490.1 | |
| HL_3JAQ_029 | 1/2/1187:1196 | No text annotation Not in a motif group | homologous HL_4V88_212 HL_73530.2 | |
| HL_3JAQ_030 | 1/2/1236:1247 | No text annotation Not in a motif group | ||
| HL_3JAQ_031 | 1/2/1295:1300 | GNRA Not in a motif group | homologous HL_4V88_214 HL_35490.1 | |
| HL_3JAQ_032 | 1/2/1308:1315 | No text annotation Not in a motif group | homologous HL_4V88_215 HL_71554.2 | |
| HL_3JAQ_033 | 1/2/1358:1363 | No text annotation Not in a motif group | geometric HL_2Y9H_003 HL_16173.1 | |
| HL_3JAQ_034 | 1/2/1392:1402 | No text annotation Not in a motif group | ||
| HL_3JAQ_035 | 1/2/1499:1504 | GNRA Not in a motif group | homologous HL_4V88_218 HL_35490.1 | |
| HL_3JAQ_036 | 1/2/1548:1559 | No text annotation Not in a motif group | ||
| HL_3JAQ_037 | 1/2/1592:1600 | No text annotation Not in a motif group | homologous HL_4V88_220 HL_60812.1 | |
| HL_3JAQ_039 | 1/2/1776:1781 | Other HL Not in a motif group | homologous HL_4V88_222 HL_16173.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_3JAQ_038 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_3JAQ_001 | 1/2/24:26, 1/2/599:600 | No text annotation Not in a motif group | homologous IL_8C3A_392 IL_61258.12 | |
| IL_3JAQ_002 | 1/2/37:41, 1/2/465:470 | No text annotation Not in a motif group | homologous IL_4V88_386 IL_41507.1 | |
| IL_3JAQ_003 | 1/2/42:48, 1/2/430:432 | No text annotation Not in a motif group | homologous IL_4V88_387 IL_33912.1 | |
| IL_3JAQ_004 | 1/2/50:52, 1/2/427:428 | Minor groove platform Not in a motif group | homologous IL_4V88_388 IL_42622.3 | |
| IL_3JAQ_005 | 1/2/58:63, 1/2/87:89 | No text annotation Not in a motif group | homologous IL_4V88_389 IL_95004.1 | |
| IL_3JAQ_006 | 1/2/64:70, 1/2/81:86 | Triple sheared related Not in a motif group | geometric IL_5J7L_063 IL_64879.2 | |
| IL_3JAQ_007 | 1/2/109:112, 1/2/301:304 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_391 IL_30621.3 | |
| IL_3JAQ_008 | 1/2/113:117, 1/2/298:300 | No text annotation Not in a motif group | geometric IL_6CZR_157 IL_86319.2 | |
| IL_3JAQ_009 | 1/2/117:123, 1/2/293:298 | No text annotation Not in a motif group | ||
| IL_3JAQ_010 | 1/2/123:124, 1/2/291:293 | Single stack bend Not in a motif group | geometric IL_4LFB_041 IL_76488.3 | |
| IL_3JAQ_011 | 1/2/142:148, 1/2/164:171 | tWH-tWH-tHW-tHW Not in a motif group | homologous IL_4V88_394 IL_80604.2 | |
| IL_3JAQ_012 | 1/2/149:151, 1/2/161:163 | No text annotation Not in a motif group | homologous IL_4V88_395 IL_76273.1 | |
| IL_3JAQ_013 | 1/2/185:188, 1/2/195:198 | Double sheared Not in a motif group | homologous IL_4V88_396 IL_09705.10 | |
| IL_3JAQ_014 | 1/2/203:205, 1/2/258:262 | Major groove platform with extra cWW Not in a motif group | geometric IL_4V88_397 IL_05564.2 | |
| IL_3JAQ_015 | 1/2/205:206, 1/2/256:258 | Not an internal loop Not in a motif group | geometric IL_4UYK_002 IL_76488.3 | |
| IL_3JAQ_016 | 1/2/207:209, 1/2/254:255 | Single stack bend Not in a motif group | geometric IL_4LFB_041 IL_76488.3 | |
| IL_3JAQ_017 | 1/2/264:266, 1/2/287:288 | Single bulged A Not in a motif group | homologous IL_4V88_399 IL_37497.5 | |
| IL_3JAQ_018 | 1/2/269:272, 1/2/282:284 | No text annotation Not in a motif group | homologous IL_4V88_400 IL_47298.1 | |
| IL_3JAQ_019 | 1/2/310:315, 1/2/347:354 | Kink-turn with non-sequential stacking Not in a motif group | homologous IL_4V88_402 IL_45067.2 | |
| IL_3JAQ_020 | 1/2/317:322, 1/2/344:345 | No text annotation Not in a motif group | geometric IL_5Y58_001 IL_48100.2 | |
| IL_3JAQ_021 | 1/2/362:364, 1/2/375:380 | No text annotation Not in a motif group | homologous IL_4V88_404 IL_11347.1 | |
| IL_3JAQ_022 | 1/2/388:390, 1/2/405:407 | Isolated cWH basepair Not in a motif group | homologous IL_4V88_405 IL_70707.1 | |
| IL_3JAQ_023 | 1/2/410:412, 1/2/419:421 | Isolated near basepair Not in a motif group | homologous IL_4V88_406 IL_52767.4 | |
| IL_3JAQ_024 | 1/2/438:440, 1/2/462:463 | Single bulged U Not in a motif group | homologous IL_4V88_407 IL_83039.16 | |
| IL_3JAQ_025 | 1/2/442:446, 1/2/459:460 | C-loop Not in a motif group | geometric IL_5J7L_018 IL_75255.1 | |
| IL_3JAQ_026 | 1/2/446:447, 1/2/457:459 | Single bulged G Not in a motif group | geometric IL_5J7L_019 IL_00225.3 | |
| IL_3JAQ_027 | 1/2/549:556, 1/2/586:587 | SSU/LSU pseudoknot Not in a motif group | geometric IL_4V88_413 IL_15861.7 | |
| IL_3JAQ_028 | 1/2/556:558, 1/2/585:586 | Single bulged U Not in a motif group | homologous IL_4V88_414 IL_83039.16 | |
| IL_3JAQ_029 | 1/2/561:567, 1/2/574:582 | No text annotation Not in a motif group | homologous IL_4V88_415 IL_55871.1 | |
| IL_3JAQ_030 | 1/2/623:625, 1/2/972:974 | No text annotation Not in a motif group | homologous IL_4V88_417 IL_86319.2 | |
| IL_3JAQ_031 | 1/2/626:630, 1/2/967:971 | tSH-tHW-tHS Not in a motif group | geometric IL_7RQB_053 IL_17136.1 | |
| IL_3JAQ_032 | 1/2/650:656, 1/2/677:683 | No text annotation Not in a motif group | ||
| IL_3JAQ_033 | 1/2/746:747, 1/2/801:804 | Major groove minor groove platform; mini C-loop Not in a motif group | homologous IL_4V88_423 IL_09061.7 | |
| IL_3JAQ_034 | 1/2/748:751, 1/2/797:800 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_1D4R_001 IL_30621.3 | |
| IL_3JAQ_035 | 1/2/751:760, 1/2/789:797 | No text annotation Not in a motif group | ||
| IL_3JAQ_036 | 1/2/818:821, 1/2/849:851 | No text annotation Not in a motif group | ||
| IL_3JAQ_037 | 1/2/866:869, 1/2/956:960 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_429 IL_30621.3 | |
| IL_3JAQ_038 | 1/2/870:873, 1/2/952:955 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_430 IL_30621.3 | |
| IL_3JAQ_039 | 1/2/873:877, 1/2/949:952 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_431 IL_30621.3 | |
| IL_3JAQ_040 | 1/2/884:887, 1/2/923:926 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_432 IL_30621.3 | |
| IL_3JAQ_041 | 1/2/892:898, 1/2/909:918 | No text annotation Not in a motif group | homologous IL_8C3A_440 IL_22252.1 | |
| IL_3JAQ_042 | 1/2/983:993, 1/2/1009:1016 | No text annotation Not in a motif group | ||
| IL_3JAQ_043 | 1/2/994:996, 1/2/1006:1008 | No text annotation Not in a motif group | geometric IL_1Y27_001 IL_70707.1 | |
| IL_3JAQ_044 | 1/2/1033:1035, 1/2/1094:1100 | No text annotation Not in a motif group | homologous IL_4V88_437 IL_19557.3 | |
| IL_3JAQ_045 | 1/2/1040:1044, 1/2/1072:1076 | No text annotation Not in a motif group | geometric IL_5TBW_121 IL_05145.2 | |
| IL_3JAQ_046 | 1/2/1050:1052, 1/2/1065:1066 | Single bulged U Not in a motif group | homologous IL_4V88_439 IL_83039.16 | |
| IL_3JAQ_047 | 1/2/1053:1055, 1/2/1063:1064 | Single stack bend Not in a motif group | geometric IL_4LFB_041 IL_76488.3 | |
| IL_3JAQ_048 | 1/2/1110:1117, 1/2/1128:1133 | 8x6 Sarcin-Ricin with inserted Y; G-bulge Not in a motif group | homologous IL_4V88_440 IL_24606.2 | |
| IL_3JAQ_049 | 1/2/1143:1145, 1/2/1630:1631 | No text annotation Not in a motif group | ||
| IL_3JAQ_050 | 1/2/1145:1146, 1/2/1628:1630 | Single bulged A Not in a motif group | homologous IL_4V88_441 IL_37497.5 | |
| IL_3JAQ_051 | 1/2/1148:1150, 1/2/1625:1626 | No text annotation Not in a motif group | ||
| IL_3JAQ_052 | 1/2/1156:1159, 1/2/1615:1619 | C-loop Not in a motif group | homologous IL_4V88_443 IL_63596.6 | |
| IL_3JAQ_053 | 1/2/1172:1174, 1/2/1462:1464 | No text annotation Not in a motif group | homologous IL_4V88_444 IL_86319.2 | |
| IL_3JAQ_054 | 1/2/1177:1178, 1/2/1457:1459 | Minor groove platform Not in a motif group | homologous IL_4V88_445 IL_42622.3 | |
| IL_3JAQ_055 | 1/2/1212:1214, 1/2/1446:1448 | No text annotation Not in a motif group | homologous IL_4V88_446 IL_86319.2 | |
| IL_3JAQ_056 | 1/2/1223:1232, 1/2/1251:1258 | Kink-turn Not in a motif group | geometric IL_4V88_447 IL_34780.1 | |
| IL_3JAQ_057 | 1/2/1232:1233, 1/2/1249:1251 | Single stack bend Not in a motif group | geometric IL_7A0S_005 IL_76488.3 | |
| IL_3JAQ_058 | 1/2/1233:1235, 1/2/1248:1249 | Minor groove platform Not in a motif group | geometric IL_4V88_454 IL_42622.3 | |
| IL_3JAQ_059 | 1/2/1267:1269, 1/2/1438:1439 | Single bulged U Not in a motif group | homologous IL_4V88_449 IL_83039.16 | |
| IL_3JAQ_060 | 1/2/1270:1277, 1/2/1428:1437 | No text annotation Not in a motif group | ||
| IL_3JAQ_061 | 1/2/1279:1280, 1/2/1424:1426 | Single bulged A Not in a motif group | homologous IL_4V88_452 IL_37497.5 | |
| IL_3JAQ_062 | 1/2/1289:1291, 1/2/1322:1324 | Isolated cWH basepair Not in a motif group | homologous IL_4V88_453 IL_70707.1 | |
| IL_3JAQ_063 | 1/2/1305:1307, 1/2/1316:1317 | Minor groove platform Not in a motif group | geometric IL_6DTD_003 IL_42622.3 | |
| IL_3JAQ_064 | 1/2/1338:1341, 1/2/1381:1383 | No text annotation Not in a motif group | homologous IL_4V88_455 IL_27844.1 | |
| IL_3JAQ_065 | 1/2/1344:1347, 1/2/1375:1378 | Minor groove platform Not in a motif group | homologous IL_4V88_456 IL_76458.1 | |
| IL_3JAQ_066 | 1/2/1352:1354, 1/2/1367:1370 | Isolated non-canonical cWW with bulges Not in a motif group | geometric IL_3KTW_002 IL_43275.1 | |
| IL_3JAQ_067 | 1/2/1387:1389, 1/2/1405:1410 | Major groove platform; stack outside cWW Not in a motif group | homologous IL_4V88_458 IL_58032.1 | |
| IL_3JAQ_068 | 1/2/1478:1485, 1/2/1517:1525 | No text annotation Not in a motif group | ||
| IL_3JAQ_069 | 1/2/1486:1492, 1/2/1511:1516 | No text annotation Not in a motif group | homologous IL_4V88_460 IL_75461.4 | |
| IL_3JAQ_070 | 1/2/1493:1497, 1/2/1506:1510 | No text annotation Not in a motif group | ||
| IL_3JAQ_071 | 1/2/1538:1543, 1/2/1564:1569 | No text annotation Not in a motif group | geometric IL_4V88_462 IL_19954.2 | |
| IL_3JAQ_072 | 1/2/1634:1636, 1/2/1762:1765 | No text annotation Not in a motif group | geometric IL_5J7L_058 IL_36143.3 | |
| IL_3JAQ_073 | 1/2/1636:1639, 1/2/1758:1762 | No text annotation Not in a motif group | ||
| IL_3JAQ_074 | 1/2/1640:1642, 1/2/1755:1757 | No text annotation Not in a motif group | geometric IL_3GM7_004 IL_86319.2 | |
| IL_3JAQ_075 | 1/2/1642:1645, 1/2/1751:1755 | No text annotation Not in a motif group | ||
| IL_3JAQ_076 | 1/2/1648:1650, 1/2/1746:1748 | AA cWW Not in a motif group | homologous IL_4V88_467 IL_86319.2 | |
| IL_3JAQ_077 | 1/2/1651:1654, 1/2/1742:1745 | Double sheared Not in a motif group | homologous IL_4V88_468 IL_09705.10 | |
| IL_3JAQ_078 | 1/2/1654:1656, 1/2/1741:1742 | Single bulged U Not in a motif group | geometric IL_4V9F_039 IL_83039.16 | |
| IL_3JAQ_079 | 1/2/1663:1665, 1/2/1732:1734 | No text annotation Not in a motif group | homologous IL_4V88_470 IL_70707.1 | |
| IL_3JAQ_080 | 1/2/1667:1670, 1/2/1727:1730 | Double sheared Not in a motif group | homologous IL_4V88_471 IL_09705.10 | |
| IL_3JAQ_081 | 1/2/1673:1676, 1/2/1721:1724 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_473 IL_30621.3 | |
| IL_3JAQ_082 | 1/2/1676:1680, 1/2/1717:1721 | Triple sheared Not in a motif group | homologous IL_4V88_474 IL_56467.8 | |
| IL_3JAQ_083 | 1/2/1684:1688, 1/2/1709:1713 | No text annotation Not in a motif group |
Problematic loops
No problematic loops
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_3JAQ_001 | 1/2/41:42, 1/2/432:438, 1/2/463:465 | No text annotation Not in a motif group | ||
| J3_3JAQ_002 | 1/2/632:634, 1/2/860:865, 1/2/961:965 | No text annotation Not in a motif group | homologous J3_8C3A_034 NA | |
| J3_3JAQ_003 | 1/2/879:883, 1/2/927:935, 1/2/942:947 | No text annotation Not in a motif group | ||
| J3_3JAQ_004 | 1/2/1036:1038, 1/2/1078:1082, 1/2/1089:1093 | No text annotation Not in a motif group | homologous J3_4V88_034 NA | |
| J3_3JAQ_005 | 1/2/1160:1163, 1/2/1579:1585, 1/2/1607:1614 | No text annotation Not in a motif group | ||
| J3_3JAQ_006 | 1/2/1167:1170, 1/2/1466:1468, 1/2/1572:1575 | No text annotation Not in a motif group | homologous J3_8C3A_039 NA | |
| J3_3JAQ_007 | 1/2/1179:1186, 1/2/1197:1208, 1/2/1452:1456 | No text annotation Not in a motif group | ||
| J3_3JAQ_008 | 1/2/1214:1219, 1/2/1262:1267, 1/2/1439:1446 | No text annotation Not in a motif group | ||
| J3_3JAQ_009 | 1/2/1281:1287, 1/2/1326:1331, 1/2/1417:1423 | No text annotation Not in a motif group | ||
| J3_3JAQ_010 | 1/2/1291:1293, 1/2/1302:1305, 1/2/1317:1322 | No text annotation Not in a motif group | ||
| J3_3JAQ_011 | 1/2/1335:1337, 1/2/1384:1387, 1/2/1410:1413 | No text annotation Not in a motif group | homologous J3_8C3A_043 NA | |
| J3_3JAQ_012 | 1/2/1468:1472, 1/2/1531:1538, 1/2/1569:1572 | No text annotation Not in a motif group | homologous J3_4V88_041 NA |
Problematic loops
No problematic loops
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