6ZQB Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6ZQB_001 | 1/D2/4:9 | No text annotation Not in a motif group | geometric HL_3OXE_002 HL_42097.1 | |
| HL_6ZQB_002 | 1/D2/120:125 | Other HL Not in a motif group | geometric HL_2CZJ_007 HL_53845.1 | |
| HL_6ZQB_003 | 1/D2/196:201 | GNRA Not in a motif group | geometric HL_6AZ4_001 HL_42097.1 | |
| HL_6ZQB_004 | 1/D2/251:257 | No text annotation Not in a motif group | geometric HL_4V9F_041 HL_49678.1 | |
| HL_6ZQB_005 | 1/D2/301:305 | No text annotation Not in a motif group | geometric HL_5U30_001 HL_53837.1 | |
| HL_6ZQB_006 | 1/D2/360:365 | GNRA Not in a motif group | geometric HL_5TBW_017 HL_42097.1 | |
| HL_6ZQB_007 | 1/D2/424:433 | No text annotation Not in a motif group | ||
| HL_6ZQB_010 | 1/D3/70:81 | No text annotation Not in a motif group | ||
| HL_6ZQB_011 | 1/D3/154:160 | Other HL Not in a motif group | homologous HL_4V88_188 HL_76539.2 | |
| HL_6ZQB_012 | 1/D3/189:196 | No text annotation Not in a motif group | ||
| HL_6ZQB_013 | 1/D3/230:235 | UNCG Not in a motif group | geometric HL_3U4M_001 HL_03562.2 | |
| HL_6ZQB_014 | 1/D3/275:279 | No text annotation Not in a motif group | ||
| HL_6ZQB_015 | 1/D3/330:338 | No text annotation Not in a motif group | homologous HL_4V88_193 HL_69023.2 | |
| HL_6ZQB_016 | 1/D3/368:377 | No text annotation Not in a motif group | geometric HL_4V88_198 HL_56691.2 | |
| HL_6ZQB_017 | 1/D3/393:404 | No text annotation Not in a motif group | homologous HL_4V88_195 HL_84288.1 | |
| HL_6ZQB_018 | 1/D3/414:419 | UNCG Not in a motif group | homologous HL_4V88_196 HL_03562.2 | |
| HL_6ZQB_019 | 1/D3/450:456 | No text annotation Not in a motif group | homologous HL_4V88_197 HL_09136.1 | |
| HL_6ZQB_020 | 1/D3/491:496 | Other HL Not in a motif group | geometric HL_1L9A_001 HL_87030.2 | |
| HL_6ZQB_021 | 1/D3/520:532 | No text annotation Not in a motif group | homologous HL_4V88_199 HL_06285.2 | |
| HL_6ZQB_022 | 1/D3/561:566 | No text annotation Not in a motif group | geometric HL_5TBW_006 HL_98984.2 | |
| HL_6ZQB_024 | 1/D3/900:909 | No text annotation Not in a motif group | homologous HL_4V88_206 HL_12326.1 | |
| HL_6ZQB_025 | 1/D3/937:942 | Other HL Not in a motif group | homologous HL_4V88_207 HL_87030.2 | |
| HL_6ZQB_026 | 1/D3/1055:1064 | No text annotation Not in a motif group | ||
| HL_6ZQB_027 | 1/D3/1129:1139 | No text annotation Not in a motif group | ||
| HL_6ZQB_030 | 1/D3/1501:1506 | GNRA Not in a motif group | homologous HL_4V88_218 HL_42097.1 | |
| HL_6ZQB_031 | 1/D3/1594:1602 | No text annotation Not in a motif group | geometric HL_4OOG_001 HL_65572.2 | |
| HL_6ZQB_032 | 1/D3/1629:1636 | No text annotation Not in a motif group | geometric HL_2Y8W_001 HL_01057.1 | |
| HL_6ZQB_033 | 1/D3/1698:1703 | GNRA Not in a motif group | geometric HL_1M5K_003 HL_53845.1 | |
| HL_6ZQB_034 | 1/D3/1778:1783 | No text annotation Not in a motif group | ||
| HL_6ZQB_035 | 1/D4/201:248 | No text annotation Not in a motif group | ||
| HL_6ZQB_036 | 1/D4/266:305 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6ZQB_008 | No text annotation | ||
| HL_6ZQB_009 | No text annotation | ||
| HL_6ZQB_023 | No text annotation | ||
| HL_6ZQB_028 | No text annotation | ||
| HL_6ZQB_029 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6ZQB_001 | 1/D2/17:18, 1/D2/62:64 | Single bulged G Not in a motif group | geometric IL_5TBW_037 IL_00225.2 | |
| IL_6ZQB_002 | 1/D2/93:96, 1/D2/148:157 | No text annotation Not in a motif group | ||
| IL_6ZQB_003 | 1/D2/97:99, 1/D2/145:147 | Isolated cWH basepair Not in a motif group | geometric IL_3SJ2_002 IL_51629.2 | |
| IL_6ZQB_004 | 1/D2/100:105, 1/D2/139:144 | No text annotation Not in a motif group | ||
| IL_6ZQB_005 | 1/D2/107:110, 1/D2/136:137 | Single stack bend Not in a motif group | geometric IL_5J7L_249 IL_76488.2 | |
| IL_6ZQB_006 | 1/D2/116:117, 1/D2/128:130 | No text annotation Not in a motif group | ||
| IL_6ZQB_007 | 1/D2/167:172, 1/D2/224:228 | No text annotation Not in a motif group | ||
| IL_6ZQB_008 | 1/D2/175:179, 1/D2/218:221 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_1L9A_002 IL_30621.2 | |
| IL_6ZQB_009 | 1/D2/187:189, 1/D2/208:210 | AA cWW Not in a motif group | geometric IL_4V88_467 IL_95997.1 | |
| IL_6ZQB_010 | 1/D2/238:240, 1/D2/273:274 | No text annotation Not in a motif group | ||
| IL_6ZQB_011 | 1/D2/245:248, 1/D2/264:268 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_3WBM_002 IL_30621.2 | |
| IL_6ZQB_012 | 1/D2/250:251, 1/D2/257:262 | Multiple bulged bases Not in a motif group | geometric IL_1R3E_002 IL_59677.2 | |
| IL_6ZQB_013 | 1/D2/337:340, 1/D2/386:387 | Major groove minor groove platform; mini C-loop Not in a motif group | geometric IL_4V9F_068 IL_95601.3 | |
| IL_6ZQB_014 | 1/D2/340:341, 1/D2/384:386 | Single bulged A Not in a motif group | geometric IL_1JZV_002 IL_37497.2 | |
| IL_6ZQB_015 | 1/D2/341:343, 1/D2/381:384 | CC cWW Not in a motif group | geometric IL_4E59_001 IL_95997.1 | |
| IL_6ZQB_016 | 1/D2/346:349, 1/D2/375:378 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4UYK_003 IL_30621.2 | |
| IL_6ZQB_017 | 1/D2/352:355, 1/D2/371:372 | No text annotation Not in a motif group | ||
| IL_6ZQB_018 | 1/D2/355:356, 1/D2/369:371 | Stack outside cWW Not in a motif group | geometric IL_1NTA_001 IL_16396.2 | |
| IL_6ZQB_019 | 1/D2/402:408, 1/D2/448:455 | No text annotation Not in a motif group | ||
| IL_6ZQB_020 | 1/D2/413:414, 1/D2/441:443 | Single stack bend Not in a motif group | geometric IL_5J7L_032 IL_76488.2 | |
| IL_6ZQB_021 | 1/D2/414:417, 1/D2/437:441 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4K27_001 IL_30621.2 | |
| IL_6ZQB_022 | 1/D2/466:471, 1/D4/47:50 | No text annotation Not in a motif group | ||
| IL_6ZQB_028 | 1/D3/58:63, 1/D3/87:89 | No text annotation Not in a motif group | homologous IL_4V88_389 IL_95004.1 | |
| IL_6ZQB_029 | 1/D3/64:70, 1/D3/81:86 | No text annotation Not in a motif group | ||
| IL_6ZQB_030 | 1/D3/109:112, 1/D3/302:305 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_391 IL_30621.2 | |
| IL_6ZQB_031 | 1/D3/113:117, 1/D3/299:301 | Multiple bulged bases, near cWW Not in a motif group | geometric IL_5M0H_002 IL_51629.2 | |
| IL_6ZQB_032 | 1/D3/117:122, 1/D3/295:299 | No text annotation Not in a motif group | homologous IL_4V88_393 IL_64181.2 | |
| IL_6ZQB_033 | 1/D3/150:152, 1/D3/162:164 | No text annotation Not in a motif group | homologous IL_4V88_395 IL_53251.2 | |
| IL_6ZQB_034 | 1/D3/186:189, 1/D3/196:199 | Double sheared Not in a motif group | homologous IL_4V88_396 IL_09705.9 | |
| IL_6ZQB_036 | 1/D3/206:208, 1/D3/257:259 | No text annotation Not in a motif group | homologous IL_4V88_398 IL_95997.1 | |
| IL_6ZQB_039 | 1/D3/265:267, 1/D3/288:289 | Single bulged A Not in a motif group | homologous IL_4V88_399 IL_37497.2 | |
| IL_6ZQB_040 | 1/D3/270:273, 1/D3/283:285 | No text annotation Not in a motif group | homologous IL_4V88_400 IL_47298.1 | |
| IL_6ZQB_041 | 1/D3/274:275, 1/D3/279:282 | Single stack bend Not in a motif group | geometric IL_4LFB_041 IL_76488.2 | |
| IL_6ZQB_042 | 1/D3/311:316, 1/D3/348:355 | Kink-turn with non-sequential stacking Not in a motif group | homologous IL_4V88_402 IL_45067.2 | |
| IL_6ZQB_043 | 1/D3/318:323, 1/D3/345:346 | No text annotation Not in a motif group | geometric IL_5Y58_001 IL_48100.2 | |
| IL_6ZQB_044 | 1/D3/364:368, 1/D3/377:380 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_3WBM_002 IL_30621.2 | |
| IL_6ZQB_045 | 1/D3/389:391, 1/D3/406:408 | Isolated cWH basepair Not in a motif group | homologous IL_4V88_405 IL_51629.2 | |
| IL_6ZQB_046 | 1/D3/411:413, 1/D3/420:422 | Isolated near basepair Not in a motif group | homologous IL_4V88_406 IL_52767.2 | |
| IL_6ZQB_047 | 1/D3/443:447, 1/D3/460:461 | C-loop Not in a motif group | geometric IL_5J7L_018 IL_75255.1 | |
| IL_6ZQB_048 | 1/D3/447:448, 1/D3/458:460 | No text annotation Not in a motif group | homologous IL_8C3A_417 IL_00225.2 | |
| IL_6ZQB_049 | 1/D3/482:483, 1/D3/504:506 | Single bulged A Not in a motif group | homologous IL_4V88_409 IL_37497.2 | |
| IL_6ZQB_050 | 1/D3/514:516, 1/D3/536:543 | No text annotation Not in a motif group | ||
| IL_6ZQB_051 | 1/D3/517:520, 1/D3/532:535 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5C5W_003 IL_30621.2 | |
| IL_6ZQB_052 | 1/D3/551:552, 1/D3/584:587 | Multiple bulged bases Not in a motif group | geometric IL_3IGI_013 IL_71530.2 | |
| IL_6ZQB_053 | 1/D3/552:559, 1/D3/568:584 | No text annotation Not in a motif group | ||
| IL_6ZQB_054 | 1/D3/624:626, 1/D3/973:975 | No text annotation Not in a motif group | homologous IL_4V88_417 IL_95997.1 | |
| IL_6ZQB_055 | 1/D3/627:631, 1/D3/968:972 | tSH-tHW-tHS Not in a motif group | homologous IL_4V88_418 IL_17136.1 | |
| IL_6ZQB_056 | 1/D3/642:645, 1/D3/690:692 | No text annotation Not in a motif group | ||
| IL_6ZQB_057 | 1/D3/645:646, 1/D3/688:690 | Single stack bend Not in a motif group | geometric IL_7A0S_054 IL_76488.2 | |
| IL_6ZQB_058 | 1/D3/646:648, 1/D3/686:688 | No text annotation Not in a motif group | homologous IL_4V88_419 IL_95997.1 | |
| IL_6ZQB_059 | 1/D3/865:866, 1/D3/962:965 | Major groove platform; stack outside cWW Not in a motif group | geometric IL_4V88_428 IL_50694.2 | |
| IL_6ZQB_060 | 1/D3/868:870, 1/D3/957:960 | Isolated non-canonical cWW with bulges Not in a motif group | geometric IL_3TD0_005 IL_82068.2 | |
| IL_6ZQB_061 | 1/D3/870:874, 1/D3/953:957 | No text annotation Not in a motif group | geometric IL_5TBW_121 IL_05145.2 | |
| IL_6ZQB_062 | 1/D3/874:878, 1/D3/950:953 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_4V88_431 IL_30621.2 | |
| IL_6ZQB_063 | 1/D3/884:889, 1/D3/923:928 | No text annotation Not in a motif group | geometric IL_4LFB_030 IL_04668.1 | |
| IL_6ZQB_064 | 1/D3/893:899, 1/D3/910:919 | No text annotation Not in a motif group | homologous IL_8C3A_440 IL_22252.1 | |
| IL_6ZQB_065 | 1/D3/1040:1045, 1/D3/1073:1078 | No text annotation Not in a motif group | geometric IL_6O5F_001 IL_04668.1 | |
| IL_6ZQB_066 | 1/D3/1051:1053, 1/D3/1066:1067 | Single stack bend Not in a motif group | geometric IL_4C7O_002 IL_76488.2 | |
| IL_6ZQB_067 | 1/D3/1117:1119, 1/D4/6:7 | Single bulged G Not in a motif group | geometric IL_3IGI_004 IL_00225.2 | |
| IL_6ZQB_068 | 1/D3/1155:1160, 1/D3/1617:1623 | No text annotation Not in a motif group | ||
| IL_6ZQB_069 | 1/D3/1173:1178, 1/D3/1461:1466 | tSH-tHW-tHS-cWW Not in a motif group | geometric IL_1L9A_008 IL_76308.4 | |
| IL_6ZQB_070 | 1/D3/1211:1215, 1/D3/1448:1452 | No text annotation Not in a motif group | ||
| IL_6ZQB_071 | 1/D3/1273:1274, 1/D3/1435:1437 | No text annotation Not in a motif group | ||
| IL_6ZQB_072 | 1/D3/1470:1474, 1/D3/1533:1574 | No text annotation Not in a motif group | ||
| IL_6ZQB_073 | 1/D3/1495:1498, 1/D3/1509:1512 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_461 IL_30621.2 | |
| IL_6ZQB_074 | 1/D3/1650:1652, 1/D3/1748:1750 | AA cWW Not in a motif group | homologous IL_4V88_467 IL_95997.1 | |
| IL_6ZQB_075 | 1/D3/1653:1656, 1/D3/1744:1747 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_5LQO_002 IL_30621.2 | |
| IL_6ZQB_076 | 1/D3/1656:1658, 1/D3/1743:1744 | Single bulged U Not in a motif group | homologous IL_4V88_469 IL_83039.13 | |
| IL_6ZQB_077 | 1/D3/1664:1667, 1/D3/1734:1737 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6JDV_002 IL_30621.2 | |
| IL_6ZQB_078 | 1/D3/1669:1672, 1/D3/1729:1732 | Double sheared Not in a motif group | geometric IL_1SAQ_002 IL_09705.9 | |
| IL_6ZQB_079 | 1/D3/1672:1674, 1/D3/1727:1729 | No text annotation Not in a motif group | homologous IL_4V88_472 IL_95997.1 | |
| IL_6ZQB_080 | 1/D3/1675:1678, 1/D3/1723:1726 | Tandem non-canonical cWW pairs Not in a motif group | homologous IL_4V88_473 IL_30621.2 | |
| IL_6ZQB_081 | 1/D3/1678:1682, 1/D3/1719:1723 | No text annotation Not in a motif group | ||
| IL_6ZQB_082 | 1/D3/1687:1690, 1/D3/1711:1714 | No text annotation Not in a motif group | ||
| IL_6ZQB_083 | 1/D3/1690:1695, 1/D3/1706:1711 | No text annotation Not in a motif group | ||
| IL_6ZQB_084 | 1/D4/78:85, 1/D4/325:329 | No text annotation Not in a motif group | ||
| IL_6ZQB_085 | 1/D4/97:98, 1/D4/317:319 | No text annotation Not in a motif group | ||
| IL_6ZQB_086 | 1/D4/111:115, 1/D4/252:259 | No text annotation Not in a motif group | ||
| IL_6ZQB_087 | 1/D4/115:199, 1/D4/250:252 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6ZQB_023 | Isolated non-canonical cWW with bulges | ||
| IL_6ZQB_024 | No text annotation | ||
| IL_6ZQB_025 | No text annotation | ||
| IL_6ZQB_026 | Single bulged G, near cWW | ||
| IL_6ZQB_027 | No text annotation | ||
| IL_6ZQB_035 | No text annotation | ||
| IL_6ZQB_037 | No text annotation | ||
| IL_6ZQB_038 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6ZQB_001 | 1/D3/633:635, 1/D3/861:865, 1/D3/965:966 | No text annotation Not in a motif group | ||
| J3_6ZQB_002 | 1/D3/881:884, 1/D3/928:936, 1/D3/943:947 | No text annotation Not in a motif group | homologous J3_4V88_033 NA | |
| J3_6ZQB_003 | 1/D3/1150:1151, 1/D3/1627:1629, 1/D3/1636:1640 | No text annotation Not in a motif group | ||
| J3_6ZQB_004 | 1/D3/1168:1171, 1/D3/1468:1470, 1/D3/1574:1577 | No text annotation Not in a motif group | homologous J3_4V88_036 NA | |
| J3_6ZQB_005 | 1/D4/105:111, 1/D4/259:263, 1/D4/308:310 | No text annotation Not in a motif group |
Problematic loops
No problematic loops
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