6LQS Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6LQS_002 | 1/5A/4:9 | No text annotation | geometric HL_4WF9_011 HL_75660.5 | |
| HL_6LQS_004 | 1/5A/301:305 | Mini UNCG | geometric HL_4V9F_021 HL_48778.2 | |
| HL_6LQS_007 | 1/SA/70:81 | Externally structured | geometric HL_8C3A_022 NA | |
| HL_6LQS_008 | 1/SA/154:160 | GNRA related | homologous HL_4V88_188 NA | |
| HL_6LQS_009 | 1/SA/190:195 | No text annotation | geometric HL_2Y8Y_001 HL_81100.2 | |
| HL_6LQS_032 | 1/SA/228:237 | No text annotation | ||
| HL_6LQS_010 | 1/SA/230:235 | UNCG | geometric HL_4WF9_040 HL_34617.5 | |
| HL_6LQS_011 | 1/SA/243:250 | T-loop with 1 bulged base | homologous HL_4V88_191 NA | |
| HL_6LQS_012 | 1/SA/276:279 | Mini UNCG | homologous HL_4V88_192 NA | |
| HL_6LQS_013 | 1/SA/330:338 | GNRA related | homologous HL_4V88_193 NA | |
| HL_6LQS_014 | 1/SA/450:456 | No text annotation | homologous HL_4V88_197 NA | |
| HL_6LQS_015 | 1/SA/491:496 | No text annotation | geometric HL_2Y8W_001 HL_81100.2 | |
| HL_6LQS_033 | 1/SA/518:533 | No text annotation | ||
| HL_6LQS_016 | 1/SA/520:532 | No text annotation | geometric HL_4V88_199 NA | |
| HL_6LQS_017 | 1/SA/561:566 | No text annotation | geometric HL_5NFV_001 HL_69752.2 | |
| HL_6LQS_019 | 1/SA/777:783 | No text annotation | ||
| HL_6LQS_021 | 1/SA/900:909 | No text annotation | homologous HL_4V88_206 NA | |
| HL_6LQS_022 | 1/SA/937:942 | GNRA | homologous HL_4V88_207 NA | |
| HL_6LQS_023 | 1/SA/1055:1064 | Mini UNCG | geometric HL_4YAZ_004 HL_48778.2 | |
| HL_6LQS_024 | 1/SA/1129:1139 | No text annotation | ||
| HL_6LQS_028 | 1/SA/1594:1602 | No text annotation | ||
| HL_6LQS_029 | 1/SA/1629:1636 | Externally structured | geometric HL_8C3A_022 NA | |
| HL_6LQS_030 | 1/SA/1698:1703 | GNRA | geometric HL_5J7L_164 HL_37824.7 | |
| HL_6LQS_034 | 1/SA/1778:1784 | No text annotation | geometric HL_8C3A_054 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6LQS_001 | No text annotation | ||
| HL_6LQS_003 | No text annotation | ||
| HL_6LQS_005 | No text annotation | ||
| HL_6LQS_006 | No text annotation | ||
| HL_6LQS_018 | No text annotation | ||
| HL_6LQS_020 | No text annotation | ||
| HL_6LQS_025 | No text annotation | ||
| HL_6LQS_026 | No text annotation | ||
| HL_6LQS_027 | No text annotation | ||
| HL_6LQS_031 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6LQS_001 | 1/3A/6:7, 1/SA/1117:1119 | Single bulged G | geometric IL_3IGI_004 IL_00225.13 | |
| IL_6LQS_002 | 1/3A/48:51, 1/5A/465:470 | No text annotation | ||
| IL_6LQS_003 | 1/3A/78:85, 1/3A/325:329 | No text annotation | ||
| IL_6LQS_069 | 1/3A/85:96, 1/3A/320:325 | No text annotation | ||
| IL_6LQS_004 | 1/3A/97:98, 1/3A/317:319 | No text annotation | ||
| IL_6LQS_005 | 1/3A/101:106, 1/3A/310:314 | No text annotation | ||
| IL_6LQS_006 | 1/3A/111:115, 1/3A/252:259 | No text annotation | ||
| IL_6LQS_008 | 1/5A/17:18, 1/5A/62:64 | Single bulged G | geometric IL_3NDB_004 IL_00225.13 | |
| IL_6LQS_009 | 1/5A/497:498, 1/5A/540:542 | No text annotation | ||
| IL_6LQS_070 | 1/5A/497:500, 1/5A/538:542 | No text annotation | ||
| IL_6LQS_010 | 1/5A/550:552, 1/5A/585:587 | Isolated non-canonical cWW pair | geometric IL_3TD0_002 IL_57744.1 | |
| IL_6LQS_011 | 1/SA/24:26, 1/SA/600:601 | Single bulged C | geometric IL_1DQF_001 IL_61258.15 | |
| IL_6LQS_012 | 1/SA/35:37, 1/SA/471:473 | Isolated non-canonical cWW pair | homologous IL_4V88_385 NA | |
| IL_6LQS_013 | 1/SA/50:52, 1/SA/428:429 | Single stack bend | geometric IL_7RQB_058 NA | |
| IL_6LQS_014 | 1/SA/58:63, 1/SA/87:89 | No text annotation | homologous IL_4V88_389 NA | |
| IL_6LQS_015 | 1/SA/64:69, 1/SA/82:86 | No text annotation | homologous IL_4V88_390 NA | |
| IL_6LQS_016 | 1/SA/109:112, 1/SA/302:305 | Tandem non-canonical cWW pairs | homologous IL_4V88_391 NA | |
| IL_6LQS_017 | 1/SA/113:116, 1/SA/300:301 | Multiple bulged bases | homologous IL_4V88_392 NA | |
| IL_6LQS_018 | 1/SA/117:122, 1/SA/295:299 | No text annotation | homologous IL_4V88_393 NA | |
| IL_6LQS_019 | 1/SA/144:149, 1/SA/165:171 | tWH-tWH-tHW-tHW | geometric IL_4LFB_009 IL_12745.1 | |
| IL_6LQS_081 | 1/SA/150:152, 1/SA/162:164 | No text annotation | homologous IL_8P9A_384 IL_44465.1 | |
| IL_6LQS_021 | 1/SA/186:189, 1/SA/196:199 | Double sheared | homologous IL_4V88_396 NA | |
| IL_6LQS_022 | 1/SA/204:206, 1/SA/259:263 | Major groove platform with extra cWW | geometric IL_7RQB_022 NA | |
| IL_6LQS_023 | 1/SA/206:208, 1/SA/257:259 | Isolated non-canonical cWW pair | homologous IL_4V88_398 NA | |
| IL_6LQS_024 | 1/SA/265:267, 1/SA/288:289 | Single bulged A | homologous IL_4V88_399 NA | |
| IL_6LQS_025 | 1/SA/270:273, 1/SA/283:285 | No text annotation | homologous IL_4V88_400 NA | |
| IL_6LQS_026 | 1/SA/275:276, 1/SA/279:281 | Single bulged U | homologous IL_8C3A_409 NA | |
| IL_6LQS_027 | 1/SA/311:316, 1/SA/348:355 | Kink-turn with non-sequential stacking | homologous IL_4V88_402 NA | |
| IL_6LQS_028 | 1/SA/318:323, 1/SA/345:346 | No text annotation | homologous IL_4V88_403 NA | |
| IL_6LQS_029 | 1/SA/439:441, 1/SA/463:464 | Single bulged U | homologous IL_4V88_407 NA | |
| IL_6LQS_030 | 1/SA/443:447, 1/SA/460:461 | C-loop | geometric IL_5J7L_018 IL_03109.3 | |
| IL_6LQS_031 | 1/SA/447:448, 1/SA/458:460 | Single bulged G | geometric IL_5J7L_019 IL_00225.13 | |
| IL_6LQS_032 | 1/SA/480:482, 1/SA/505:508 | Isolated cWH basepair | geometric IL_6F4H_001 NA | |
| IL_6LQS_033 | 1/SA/514:516, 1/SA/536:543 | No text annotation | homologous IL_8C3A_420 NA | |
| IL_6LQS_072 | 1/SA/517:518, 1/SA/533:535 | Minor groove platform | homologous IL_8C3A_501 NA | |
| IL_6LQS_035 | 1/SA/518:520, 1/SA/532:533 | Minor groove platform | geometric IL_4V88_412 NA | |
| IL_6LQS_036 | 1/SA/551:552, 1/SA/584:587 | Multiple bulged bases | geometric IL_3IGI_013 IL_42626.2 | |
| IL_6LQS_037 | 1/SA/552:559, 1/SA/568:584 | No text annotation | ||
| IL_6LQS_038 | 1/SA/624:626, 1/SA/973:975 | Isolated non-canonical cWW pair | homologous IL_4V88_417 NA | |
| IL_6LQS_039 | 1/SA/627:631, 1/SA/969:972 | No text annotation | ||
| IL_6LQS_040 | 1/SA/631:632, 1/SA/967:969 | Single stack bend | geometric IL_5TBW_070 NA | |
| IL_6LQS_041 | 1/SA/646:648, 1/SA/686:688 | Isolated non-canonical cWW pair | homologous IL_4V88_419 NA | |
| IL_6LQS_042 | 1/SA/652:655, 1/SA/679:682 | Tandem non-canonical cWW pairs | geometric IL_5TBW_128 NA | |
| IL_6LQS_073 | 1/SA/652:658, 1/SA/677:682 | No text annotation | ||
| IL_6LQS_043 | 1/SA/655:658, 1/SA/677:679 | No text annotation | ||
| IL_6LQS_044 | 1/SA/746:747, 1/SA/802:805 | No text annotation | ||
| IL_6LQS_074 | 1/SA/748:750, 1/SA/799:801 | Isolated non-canonical cWW pair | homologous IL_8P9A_413 IL_28037.2 | |
| IL_6LQS_075 | 1/SA/751:776, 1/SA/784:798 | No text annotation | ||
| IL_6LQS_046 | 1/SA/865:866, 1/SA/962:965 | Major groove platform; stack outside cWW | geometric IL_4V88_428 NA | |
| IL_6LQS_082 | 1/SA/868:869, 1/SA/958:960 | Single bulged U | geometric IL_7KVT_002 IL_89505.4 | |
| IL_6LQS_048 | 1/SA/871:873, 1/SA/954:956 | Isolated non-canonical cWW pair | geometric IL_2R8S_001 IL_87907.2 | |
| IL_6LQS_049 | 1/SA/874:878, 1/SA/950:953 | Tandem non-canonical cWW pairs | homologous IL_4V88_431 NA | |
| IL_6LQS_050 | 1/SA/885:888, 1/SA/924:927 | Tandem non-canonical cWW pairs | homologous IL_4V88_432 NA | |
| IL_6LQS_051 | 1/SA/893:899, 1/SA/910:919 | Kink-turn related | homologous IL_8C3A_440 NA | |
| IL_6LQS_052 | 1/SA/1041:1044, 1/SA/1074:1077 | Tandem non-canonical cWW pairs | homologous IL_4V88_438 NA | |
| IL_6LQS_053 | 1/SA/1051:1053, 1/SA/1066:1067 | Single stack bend | geometric IL_4C7O_002 IL_90729.1 | |
| IL_6LQS_054 | 1/SA/1157:1160, 1/SA/1617:1621 | C-loop | homologous IL_4V88_443 NA | |
| IL_6LQS_077 | 1/SA/1173:1175, 1/SA/1464:1466 | Isolated non-canonical cWW pair | homologous IL_8P9A_432 IL_87907.2 | |
| IL_6LQS_056 | 1/SA/1213:1216, 1/SA/1448:1450 | No text annotation | ||
| IL_6LQS_057 | 1/SA/1224:1226, 1/SA/1258:1259 | No text annotation | ||
| IL_6LQS_058 | 1/SA/1270:1271, 1/SA/1439:1441 | No text annotation | ||
| IL_6LQS_060 | 1/SA/1650:1652, 1/SA/1748:1750 | Isolated non-canonical cWW pair | homologous IL_4V88_467 NA | |
| IL_6LQS_061 | 1/SA/1653:1658, 1/SA/1742:1747 | No text annotation | ||
| IL_6LQS_062 | 1/SA/1659:1661, 1/SA/1740:1741 | Single stack bend | geometric IL_5J7L_032 IL_26793.1 | |
| IL_6LQS_078 | 1/SA/1665:1668, 1/SA/1733:1736 | No text annotation | ||
| IL_6LQS_064 | 1/SA/1669:1672, 1/SA/1729:1732 | Double sheared | geometric IL_4XWF_001 IL_09705.15 | |
| IL_6LQS_065 | 1/SA/1672:1674, 1/SA/1727:1729 | Isolated non-canonical cWW pair | homologous IL_4V88_472 NA | |
| IL_6LQS_079 | 1/SA/1675:1687, 1/SA/1714:1726 | No text annotation | ||
| IL_6LQS_066 | 1/SA/1688:1690, 1/SA/1711:1713 | Single stack bend | geometric IL_5VSU_003 IL_26793.1 | |
| IL_6LQS_067 | 1/SA/1690:1692, 1/SA/1709:1711 | Minor groove platform | geometric IL_4V88_388 NA | |
| IL_6LQS_068 | 1/SA/1692:1695, 1/SA/1706:1709 | No text annotation | ||
| IL_6LQS_080 | 1/SA/1776:1778, 1/SA/1784:1785 | Single stack bend | geometric IL_7A0S_054 IL_26793.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6LQS_007 | No text annotation | ||
| IL_6LQS_020 | Tandem non-canonical cWW pairs | ||
| IL_6LQS_071 | No text annotation | ||
| IL_6LQS_034 | Minor groove platform with extra cWW | ||
| IL_6LQS_045 | Tandem non-canonical cWW pairs | ||
| IL_6LQS_076 | No text annotation | ||
| IL_6LQS_047 | No text annotation | ||
| IL_6LQS_055 | Tandem non-canonical cWW pairs | ||
| IL_6LQS_059 | No text annotation | ||
| IL_6LQS_063 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6LQS_001 | 1/SA/633:635, 1/SA/861:865, 1/SA/965:966 | No text annotation | homologous J3_8P9A_071 J3_56052.5 | |
| J3_6LQS_005 | 1/SA/633:635, 1/SA/861:866, 1/SA/962:966 | No text annotation | homologous J3_8P9A_072 J3_17385.4 | |
| J3_6LQS_002 | 1/SA/881:884, 1/SA/928:936, 1/SA/943:947 | No text annotation | homologous J3_4V88_033 NA | |
| J3_6LQS_003 | 1/SA/1150:1151, 1/SA/1627:1629, 1/SA/1636:1640 | No text annotation | ||
| J3_6LQS_006 | 1/SA/1161:1164, 1/SA/1581:1587, 1/SA/1609:1616 | No text annotation | homologous J3_8C3A_038 NA | |
| J3_6LQS_004 | 1/SA/1168:1171, 1/SA/1468:1470, 1/SA/1574:1577 | No text annotation | homologous J3_8C3A_039 NA | |
| J5_6LQS_001 | 1/SA/31:37, 1/SA/471:479, 1/SA/509:514, 1/SA/543:546, 1/SA/592:595 | No text annotation | ||
| J5_6LQS_002 | 1/SA/31:37, 1/SA/471:479, 1/SA/509:516, 1/SA/536:546, 1/SA/592:595 | No text annotation |
Problematic loops
No problematic loops
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