6ZXF Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6ZXF_001 | 1/2/7:17 | No text annotation | homologous HL_4V88_186 NA | |
| HL_6ZXF_003 | 1/2/156:162 | GNRA related | homologous HL_4V88_188 NA | |
| HL_6ZXF_005 | 1/2/288:295 | T-loop with 1 bulged base | homologous HL_4V88_191 NA | |
| HL_6ZXF_006 | 1/2/377:387 | No text annotation | geometric HL_1KH6_003 HL_33487.1 | |
| HL_6ZXF_007 | 1/2/416:421 | No text annotation | homologous HL_4V88_194 NA | |
| HL_6ZXF_008 | 1/2/441:452 | No text annotation | homologous HL_4V88_195 NA | |
| HL_6ZXF_009 | 1/2/462:467 | UNCG | homologous HL_4V88_196 NA | |
| HL_6ZXF_010 | 1/2/498:504 | No text annotation | homologous HL_4V88_197 NA | |
| HL_6ZXF_012 | 1/2/569:581 | No text annotation | homologous HL_4V88_199 NA | |
| HL_6ZXF_013 | 1/2/618:623 | GNRA variation | homologous HL_4V88_200 NA | |
| HL_6ZXF_015 | 1/2/820:828 | No text annotation | homologous HL_4V88_203 NA | |
| HL_6ZXF_036 | 1/2/957:966 | No text annotation | homologous HL_8CRE_210 HL_38491.2 | |
| HL_6ZXF_019 | 1/2/994:999 | GNRA | homologous HL_4V88_207 NA | |
| HL_6ZXF_020 | 1/2/1054:1064 | No text annotation | homologous HL_4V88_208 NA | |
| HL_6ZXF_022 | 1/2/1141:1146 | GNRA | homologous HL_4V88_210 NA | |
| HL_6ZXF_023 | 1/2/1178:1183 | GNRA | homologous HL_4V88_211 NA | |
| HL_6ZXF_024 | 1/2/1245:1254 | No text annotation | homologous HL_4V88_212 NA | |
| HL_6ZXF_025 | 1/2/1294:1305 | No text annotation | ||
| HL_6ZXF_026 | 1/2/1353:1358 | GNRA | homologous HL_4V88_214 NA | |
| HL_6ZXF_027 | 1/2/1366:1373 | No text annotation | homologous HL_4V88_215 NA | |
| HL_6ZXF_029 | 1/2/1460:1466 | GNRA | homologous HL_4V88_217 NA | |
| HL_6ZXF_030 | 1/2/1565:1570 | GNRA | homologous HL_4V88_218 NA | |
| HL_6ZXF_031 | 1/2/1614:1625 | No text annotation | homologous HL_4V88_219 NA | |
| HL_6ZXF_032 | 1/2/1658:1666 | No text annotation | homologous HL_4V88_220 NA | |
| HL_6ZXF_034 | 1/2/1847:1852 | No text annotation | geometric HL_5TBW_006 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6ZXF_002 | No text annotation | ||
| HL_6ZXF_004 | No text annotation | ||
| HL_6ZXF_035 | No text annotation | ||
| HL_6ZXF_011 | No text annotation | ||
| HL_6ZXF_014 | No text annotation | ||
| HL_6ZXF_016 | No text annotation | ||
| HL_6ZXF_017 | Externally structured | ||
| HL_6ZXF_018 | No text annotation | ||
| HL_6ZXF_021 | No text annotation | ||
| HL_6ZXF_028 | No text annotation | ||
| HL_6ZXF_033 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6ZXF_001 | 1/2/23:25, 1/2/649:651 | Isolated non-canonical cWW pair | geometric IL_4M4O_001 IL_01003.3 | |
| IL_6ZXF_002 | 1/2/34:36, 1/2/519:521 | Isolated non-canonical cWW pair | homologous IL_4V88_385 NA | |
| IL_6ZXF_003 | 1/2/37:40, 1/2/514:518 | Double sheared | geometric IL_4WF9_016 IL_58355.2 | |
| IL_6ZXF_004 | 1/2/41:47, 1/2/479:481 | No text annotation | homologous IL_4V88_387 NA | |
| IL_6ZXF_005 | 1/2/49:51, 1/2/476:477 | Minor groove platform | homologous IL_4V88_388 NA | |
| IL_6ZXF_006 | 1/2/57:62, 1/2/86:88 | No text annotation | homologous IL_4V88_389 NA | |
| IL_6ZXF_007 | 1/2/63:68, 1/2/81:85 | No text annotation | homologous IL_4V88_390 NA | |
| IL_6ZXF_008 | 1/2/108:110, 1/2/351:353 | Isolated non-canonical cWW pair | geometric IL_2O3V_001 IL_71625.3 | |
| IL_6ZXF_093 | 1/2/108:115, 1/2/348:353 | Tandem non-canonical cWW pairs with near WC pairs | geometric IL_4EYA_005 IL_82292.2 | |
| IL_6ZXF_009 | 1/2/110:112, 1/2/349:351 | Isolated non-canonical cWW pair | geometric IL_4V88_467 NA | |
| IL_6ZXF_010 | 1/2/112:115, 1/2/348:349 | Major groove intercalation | geometric IL_4WF9_071 IL_71421.2 | |
| IL_6ZXF_011 | 1/2/116:121, 1/2/343:347 | No text annotation | homologous IL_4V88_393 NA | |
| IL_6ZXF_013 | 1/2/145:151, 1/2/167:174 | tWH-tWH-tHW-tHW | homologous IL_4V88_394 NA | |
| IL_6ZXF_014 | 1/2/152:154, 1/2/164:166 | No text annotation | geometric IL_5E81_376 NA | |
| IL_6ZXF_016 | 1/2/216:219, 1/2/302:309 | Tandem non-canonical cWW pairs | geometric IL_1GID_008 NA | |
| IL_6ZXF_018 | 1/2/312:314, 1/2/336:337 | Single bulged A | homologous IL_4V88_399 NA | |
| IL_6ZXF_019 | 1/2/317:319, 1/2/332:333 | Single stack bend | geometric IL_5J7L_044 NA | |
| IL_6ZXF_020 | 1/2/359:364, 1/2/396:403 | Kink-turn with non-sequential stacking | homologous IL_4V88_402 NA | |
| IL_6ZXF_021 | 1/2/366:371, 1/2/393:394 | No text annotation | geometric IL_5Y58_001 IL_37738.1 | |
| IL_6ZXF_022 | 1/2/411:413, 1/2/424:429 | No text annotation | homologous IL_4V88_404 NA | |
| IL_6ZXF_024 | 1/2/437:439, 1/2/454:456 | Isolated cWH basepair | homologous IL_4V88_405 NA | |
| IL_6ZXF_025 | 1/2/459:461, 1/2/468:470 | Isolated near basepair | homologous IL_4V88_406 NA | |
| IL_6ZXF_026 | 1/2/487:489, 1/2/511:512 | Single bulged U | homologous IL_4V88_407 NA | |
| IL_6ZXF_027 | 1/2/491:495, 1/2/508:509 | C-loop | geometric IL_5J7L_018 NA | |
| IL_6ZXF_028 | 1/2/495:496, 1/2/506:508 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_6ZXF_094 | 1/2/563:565, 1/2/585:592 | No text annotation | homologous IL_8C3A_420 NA | |
| IL_6ZXF_032 | 1/2/566:569, 1/2/581:584 | Tandem non-canonical cWW pairs | geometric IL_6JDV_001 IL_71194.2 | |
| IL_6ZXF_033 | 1/2/599:606, 1/2/636:637 | SSU/LSU pseudoknot | geometric IL_4V88_413 NA | |
| IL_6ZXF_034 | 1/2/606:608, 1/2/635:636 | Single bulged U | homologous IL_4V88_414 NA | |
| IL_6ZXF_035 | 1/2/611:617, 1/2/624:632 | Kink-turn related | homologous IL_4V88_415 NA | |
| IL_6ZXF_036 | 1/2/663:665, 1/2/1162:1164 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 IL_01003.3 | |
| IL_6ZXF_037 | 1/2/665:671, 1/2/1161:1162 | No text annotation | geometric IL_4LFB_022 IL_20847.1 | |
| IL_6ZXF_038 | 1/2/673:675, 1/2/1030:1032 | Isolated non-canonical cWW pair | homologous IL_4V88_417 NA | |
| IL_6ZXF_039 | 1/2/676:680, 1/2/1025:1029 | tSH-tHW-tHS | homologous IL_4V88_418 NA | |
| IL_6ZXF_103 | 1/2/802:803, 1/2/860:863 | No text annotation | homologous IL_8P9A_412 IL_73108.2 | |
| IL_6ZXF_042 | 1/2/805:807, 1/2/856:858 | Isolated non-canonical cWW pair | homologous IL_4V88_424 NA | |
| IL_6ZXF_043 | 1/2/807:815, 1/2/849:856 | No text annotation | homologous IL_4V88_425 NA | |
| IL_6ZXF_044 | 1/2/874:876, 1/2/910:912 | Isolated non-canonical cWW pair | geometric IL_5AOX_001 IL_01003.3 | |
| IL_6ZXF_046 | 1/2/922:923, 1/2/1019:1022 | Major groove platform; stack outside cWW | homologous IL_4V88_428 NA | |
| IL_6ZXF_047 | 1/2/925:927, 1/2/1014:1017 | Isolated cWH basepair | geometric IL_3R1C_018 IL_10892.2 | |
| IL_6ZXF_048 | 1/2/927:931, 1/2/1010:1014 | No text annotation | geometric IL_5TBW_121 NA | |
| IL_6ZXF_049 | 1/2/931:935, 1/2/1007:1010 | Tandem non-canonical cWW pairs | homologous IL_4V88_431 NA | |
| IL_6ZXF_050 | 1/2/942:945, 1/2/981:984 | Tandem non-canonical cWW pairs | homologous IL_4V88_432 NA | |
| IL_6ZXF_051 | 1/2/952:956, 1/2/967:974 | Kink-turn | geometric IL_4V88_434 NA | |
| IL_6ZXF_052 | 1/2/1041:1047, 1/2/1071:1074 | No text annotation | ||
| IL_6ZXF_053 | 1/2/1047:1051, 1/2/1067:1071 | tSH-tHW-tHS | geometric IL_4V88_436 NA | |
| IL_6ZXF_054 | 1/2/1091:1093, 1/2/1152:1158 | No text annotation | homologous IL_4V88_437 NA | |
| IL_6ZXF_055 | 1/2/1098:1103, 1/2/1129:1134 | No text annotation | geometric IL_6O5F_001 NA | |
| IL_6ZXF_056 | 1/2/1108:1110, 1/2/1123:1124 | Single stack bend | geometric IL_7RQB_058 NA | |
| IL_6ZXF_057 | 1/2/1168:1175, 1/2/1186:1191 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4V88_440 NA | |
| IL_6ZXF_058 | 1/2/1203:1204, 1/2/1694:1696 | Single bulged A | homologous IL_4V88_441 NA | |
| IL_6ZXF_059 | 1/2/1206:1208, 1/2/1691:1692 | Single bulged G | homologous IL_4V88_442 NA | |
| IL_6ZXF_060 | 1/2/1214:1217, 1/2/1681:1685 | C-loop | homologous IL_4V88_443 NA | |
| IL_6ZXF_061 | 1/2/1230:1232, 1/2/1526:1528 | Isolated non-canonical cWW pair | homologous IL_4V88_444 NA | |
| IL_6ZXF_062 | 1/2/1235:1236, 1/2/1521:1523 | Minor groove platform | homologous IL_4V88_445 NA | |
| IL_6ZXF_063 | 1/2/1270:1272, 1/2/1510:1512 | Isolated non-canonical cWW pair | homologous IL_4V88_446 NA | |
| IL_6ZXF_064 | 1/2/1281:1287, 1/2/1314:1316 | No text annotation | ||
| IL_6ZXF_097 | 1/2/1281:1290, 1/2/1309:1316 | Kink-turn | geometric IL_4V88_447 NA | |
| IL_6ZXF_065 | 1/2/1287:1290, 1/2/1309:1314 | No text annotation | ||
| IL_6ZXF_066 | 1/2/1291:1293, 1/2/1306:1308 | No text annotation | homologous IL_4V88_448 NA | |
| IL_6ZXF_067 | 1/2/1325:1327, 1/2/1502:1503 | Single bulged U | homologous IL_4V88_449 NA | |
| IL_6ZXF_068 | 1/2/1329:1333, 1/2/1498:1500 | Isolated cWS basepair | geometric IL_4LFB_044 IL_82453.1 | |
| IL_6ZXF_098 | 1/2/1329:1335, 1/2/1492:1500 | No text annotation | homologous IL_8P9A_439 IL_99893.1 | |
| IL_6ZXF_069 | 1/2/1333:1335, 1/2/1492:1498 | Minor groove platform with extra cWW | homologous IL_4V88_451 NA | |
| IL_6ZXF_070 | 1/2/1337:1338, 1/2/1488:1490 | Single bulged A | homologous IL_4V88_452 NA | |
| IL_6ZXF_071 | 1/2/1347:1349, 1/2/1380:1382 | Isolated cWH basepair | homologous IL_4V88_453 NA | |
| IL_6ZXF_072 | 1/2/1363:1365, 1/2/1374:1375 | Minor groove platform | homologous IL_4V88_454 NA | |
| IL_6ZXF_073 | 1/2/1395:1399, 1/2/1447:1450 | Tandem non-canonical cWW pairs | geometric IL_5EW4_002 IL_15225.2 | |
| IL_6ZXF_074 | 1/2/1402:1405, 1/2/1441:1444 | Minor groove platform | homologous IL_4V88_456 NA | |
| IL_6ZXF_075 | 1/2/1412:1413, 1/2/1427:1429 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_6ZXF_076 | 1/2/1537:1539, 1/2/1594:1596 | Isolated non-canonical cWW pair | geometric IL_4P3T_001 NA | |
| IL_6ZXF_100 | 1/2/1541:1550, 1/2/1582:1592 | No text annotation | ||
| IL_6ZXF_077 | 1/2/1550:1558, 1/2/1577:1582 | No text annotation | ||
| IL_6ZXF_078 | 1/2/1560:1562, 1/2/1573:1575 | Isolated non-canonical cWW pair | geometric IL_5TBW_016 NA | |
| IL_6ZXF_079 | 1/2/1604:1610, 1/2/1629:1635 | No text annotation | homologous IL_8C3A_469 NA | |
| IL_6ZXF_080 | 1/2/1700:1702, 1/2/1833:1836 | No text annotation | geometric IL_5J7L_058 NA | |
| IL_6ZXF_081 | 1/2/1702:1705, 1/2/1829:1833 | No text annotation | homologous IL_4V88_464 NA | |
| IL_6ZXF_082 | 1/2/1706:1708, 1/2/1826:1828 | Isolated non-canonical cWW pair | geometric IL_4WF9_083 IL_01003.3 | |
| IL_6ZXF_083 | 1/2/1708:1711, 1/2/1822:1826 | Tandem non-canonical cWW pairs | geometric IL_4LFB_029 IL_15225.2 | |
| IL_6ZXF_084 | 1/2/1714:1716, 1/2/1817:1819 | Isolated non-canonical cWW pair | homologous IL_4V88_467 NA | |
| IL_6ZXF_087 | 1/2/1729:1731, 1/2/1803:1805 | Isolated non-canonical cWW pair | homologous IL_4V88_470 NA | |
| IL_6ZXF_088 | 1/2/1733:1736, 1/2/1798:1801 | Double sheared | homologous IL_4V88_471 NA | |
| IL_6ZXF_089 | 1/2/1739:1741, 1/2/1793:1795 | Isolated non-canonical cWW pair | geometric IL_4E48_003 IL_01003.3 | |
| IL_6ZXF_090 | 1/2/1742:1746, 1/2/1788:1792 | Triple sheared | homologous IL_4V88_474 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6ZXF_012 | No text annotation | ||
| IL_6ZXF_015 | Double sheared with non-canonical cWW | ||
| IL_6ZXF_017 | No text annotation | ||
| IL_6ZXF_023 | Isolated non-canonical cWW pair | ||
| IL_6ZXF_029 | Single bulged A | ||
| IL_6ZXF_030 | Stack and bulge | ||
| IL_6ZXF_031 | No text annotation | ||
| IL_6ZXF_040 | Single stack bend | ||
| IL_6ZXF_041 | Major groove minor groove platform with extra cWW | ||
| IL_6ZXF_095 | No text annotation | ||
| IL_6ZXF_045 | Isolated non-canonical cWW pair | ||
| IL_6ZXF_096 | No text annotation | ||
| IL_6ZXF_099 | No text annotation | ||
| IL_6ZXF_085 | Double sheared | ||
| IL_6ZXF_086 | No text annotation | ||
| IL_6ZXF_101 | Isolated cWH basepair | ||
| IL_6ZXF_091 | Single bulged C | ||
| IL_6ZXF_092 | Minor groove platform | ||
| IL_6ZXF_102 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6ZXF_001 | 1/2/40:41, 1/2/481:487, 1/2/512:514 | No text annotation | homologous J3_8C3A_082 NA | |
| J3_6ZXF_002 | 1/2/816:819, 1/2/829:831, 1/2/843:848 | No text annotation | homologous J3_4V88_032 NA | |
| J3_6ZXF_003 | 1/2/937:941, 1/2/985:993, 1/2/1000:1005 | No text annotation | ||
| J3_6ZXF_004 | 1/2/1094:1096, 1/2/1136:1140, 1/2/1147:1151 | No text annotation | ||
| J3_6ZXF_005 | 1/2/1218:1221, 1/2/1645:1651, 1/2/1673:1680 | No text annotation | homologous J3_4V88_035 NA | |
| J3_6ZXF_006 | 1/2/1223:1228, 1/2/1530:1532, 1/2/1638:1643 | No text annotation | ||
| J3_6ZXF_007 | 1/2/1237:1244, 1/2/1255:1266, 1/2/1516:1520 | No text annotation | homologous J3_8C3A_040 NA | |
| J3_6ZXF_008 | 1/2/1272:1277, 1/2/1320:1324, 1/2/1504:1510 | No text annotation | homologous J3_4V88_038 NA | |
| J3_6ZXF_009 | 1/2/1340:1345, 1/2/1384:1389, 1/2/1481:1486 | No text annotation | homologous J3_4V88_039 NA | |
| J3_6ZXF_010 | 1/2/1350:1351, 1/2/1360:1363, 1/2/1375:1379 | No text annotation | homologous J3_8C3A_085 NA | |
| J3_6ZXF_011 | 1/2/1391:1395, 1/2/1450:1456, 1/2/1470:1479 | No text annotation | ||
| J3_6ZXF_012 | 1/2/1532:1536, 1/2/1597:1604, 1/2/1635:1638 | No text annotation | homologous J3_8C3A_044 NA | |
| J4_6ZXF_001 | 1/2/98:106, 1/2/355:357, 1/2/405:409, 1/2/431:432 | No text annotation | homologous J4_8C3A_021 NA | |
| J4_6ZXF_002 | 1/2/671:673, 1/2/1032:1037, 1/2/1078:1089, 1/2/1160:1161 | No text annotation | homologous J4_8C3A_022 NA | |
| J5_6ZXF_005 | 1/2/30:34, 1/2/521:527, 1/2/558:563, 1/2/592:595, 1/2/641:644 | No text annotation | homologous J5_8CRE_018 J5_04786.1 | |
| J5_6ZXF_001 | 1/2/30:34, 1/2/521:527, 1/2/558:563, 1/2/592:596, 1/2/640:644 | No text annotation | ||
| J5_6ZXF_006 | 1/2/30:34, 1/2/521:527, 1/2/558:565, 1/2/585:595, 1/2/641:644 | No text annotation | ||
| J5_6ZXF_002 | 1/2/30:34, 1/2/521:527, 1/2/558:565, 1/2/585:596, 1/2/640:644 | No text annotation | ||
| J5_6ZXF_003 | 1/2/53:56, 1/2/89:96, 1/2/434:436, 1/2/457:459, 1/2/470:474 | No text annotation | homologous J5_8C3A_020 NA | |
| J5_6ZXF_004 | 1/2/123:130, 1/2/182:185, 1/2/214:215, 1/2/310:312, 1/2/337:341 | No text annotation |
Problematic loops
No problematic loops
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