6C4H Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6C4H_001 | 1/A/744:753 | No text annotation | homologous HL_5J7L_155 HL_88205.2 | |
| HL_6C4H_002 | 1/A/779:785 | No text annotation | homologous HL_5J7L_156 HL_87954.2 | |
| HL_6C4H_016 | 1/A/955:962 | GNRA | homologous HL_5J7L_211 HL_37824.8 | |
| HL_6C4H_004 | 1/A/1777:1787 | No text annotation | homologous HL_4WF9_043 HL_01962.2 | |
| HL_6C4H_005 | 1/A/1806:1811 | GNRA related | homologous HL_5J7L_179 HL_04783.2 | |
| HL_6C4H_007 | 1/A/1949:1957 | No text annotation | homologous HL_5J7L_182 HL_20167.2 | |
| HL_6C4H_008 | 1/A/2027:2036 | No text annotation | homologous HL_7RQB_050 NA | |
| HL_6C4H_010 | 1/A/2248:2256 | No text annotation | homologous HL_7RQB_053 NA | |
| HL_6C4H_011 | 1/A/2264:2276 | No text annotation | homologous HL_7RQB_054 NA | |
| HL_6C4H_012 | 1/A/2471:2479 | No text annotation | homologous HL_7RQB_060 NA | |
| HL_6C4H_013 | 1/A/2528:2535 | GNRA variation | homologous HL_5J7L_194 HL_31585.4 | |
| HL_6C4H_014 | 1/A/2551:2557 | No text annotation | homologous HL_5J7L_195 HL_30068.2 | |
| HL_6C4H_015 | 1/A/2594:2599 | GNRA | homologous HL_7RQB_063 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6C4H_003 | No text annotation | ||
| HL_6C4H_006 | No text annotation | ||
| HL_6C4H_009 | Externally structured |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6C4H_001 | 1/A/738:740, 1/A/757:758 | Major groove platform | homologous IL_5J7L_264 IL_48076.6 | |
| IL_6C4H_002 | 1/A/741:742, 1/A/754:756 | Single stack bend | geometric IL_4LFB_041 IL_90729.1 | |
| IL_6C4H_003 | 1/A/742:744, 1/A/753:754 | Single stack bend | geometric IL_4V83_236 IL_90729.1 | |
| IL_6C4H_004 | 1/A/775:777, 1/A/787:791 | Multiple bulged bases | homologous IL_5J7L_265 IL_06549.2 | |
| IL_6C4H_005 | 1/A/1666:1669, 1/A/1993:1994 | Major groove platform; stack outside cWW | geometric IL_7RQB_066 NA | |
| IL_6C4H_030 | 1/A/1666:1674, 1/A/1990:1994 | No text annotation | homologous IL_5J7L_386 IL_22854.4 | |
| IL_6C4H_006 | 1/A/1669:1674, 1/A/1990:1993 | Intercalated tWH | homologous IL_5J7L_307 IL_76758.2 | |
| IL_6C4H_008 | 1/A/1770:1771, 1/A/1980:1982 | Single bulged A | homologous IL_7A0S_064 IL_31462.7 | |
| IL_6C4H_009 | 1/A/1798:1804, 1/A/1813:1821 | Kink-turn related | homologous IL_5J7L_313 IL_17069.5 | |
| IL_6C4H_010 | 1/A/1837:1840, 1/A/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 IL_95583.2 | |
| IL_6C4H_011 | 1/A/1841:1842, 1/A/1898:1901 | Major groove intercalation | homologous IL_5J7L_315 IL_82107.5 | |
| IL_6C4H_012 | 1/A/1933:1934, 1/A/1964:1967 | Bulged stacked bases | geometric IL_5J7L_318 IL_22551.4 | |
| IL_6C4H_013 | 1/A/1934:1945, 1/A/1961:1964 | No text annotation | homologous IL_5J7L_319 IL_42218.2 | |
| IL_6C4H_014 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | homologous IL_5J7L_320 IL_48076.6 | |
| IL_6C4H_015 | 1/A/2054:2056, 1/A/2612:2615 | No text annotation | homologous IL_5J7L_321 IL_83389.2 | |
| IL_6C4H_031 | 1/A/2067:2069, 1/A/2442:2443 | Single bulged U | homologous IL_9DFE_080 IL_89505.4 | |
| IL_6C4H_032 | 1/A/2070:2071, 1/A/2438:2441 | Minor groove platform | homologous IL_4WF9_081 IL_51454.3 | |
| IL_6C4H_018 | 1/A/2081:2083, 1/A/2236:2239 | Isolated tHS basepair with bulges | homologous IL_5J7L_325 IL_85599.2 | |
| IL_6C4H_019 | 1/A/2085:2087, 1/A/2232:2234 | Isolated non-canonical cWW pair | homologous IL_5J7L_326 IL_28037.2 | |
| IL_6C4H_033 | 1/A/2453:2454, 1/A/2498:2500 | Single stack bend | homologous IL_5J7L_391 IL_26793.1 | |
| IL_6C4H_034 | 1/A/2454:2455, 1/A/2496:2498 | Major groove platform | homologous IL_5J7L_392 IL_48076.6 | |
| IL_6C4H_035 | 1/A/2457:2459, 1/A/2493:2494 | Major groove platform | homologous IL_5J7L_393 IL_07039.3 | |
| IL_6C4H_022 | 1/A/2459:2461, 1/A/2489:2493 | Major groove minor groove platform with extra cWW | geometric IL_5J7L_337 IL_51387.3 | |
| IL_6C4H_023 | 1/A/2466:2470, 1/A/2480:2484 | Double sheared with non-canonical cWW | homologous IL_5J7L_338 IL_17948.2 | |
| IL_6C4H_036 | 1/A/2507:2508, 1/A/2580:2582 | Major groove platform | homologous IL_5J7L_394 IL_07039.3 | |
| IL_6C4H_025 | 1/A/2510:2512, 1/A/2574:2578 | Isolated non-canonical cWW with bulges | geometric IL_5J7L_340 IL_07785.1 | |
| IL_6C4H_026 | 1/A/2512:2513, 1/A/2571:2574 | No text annotation | homologous IL_5J7L_341 IL_42626.2 | |
| IL_6C4H_027 | 1/A/2522:2523, 1/A/2540:2543 | Major groove platform with intercalation | homologous IL_7A0S_091 IL_02555.1 | |
| IL_6C4H_029 | 1/A/2591:2592, 1/A/2601:2603 | Single bulged A | homologous IL_5J7L_344 IL_31462.7 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6C4H_007 | Decoding loop related | ||
| IL_6C4H_016 | No text annotation | ||
| IL_6C4H_017 | No text annotation | ||
| IL_6C4H_020 | No text annotation | ||
| IL_6C4H_021 | No text annotation | ||
| IL_6C4H_024 | No text annotation | ||
| IL_6C4H_028 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6C4H_002 | 1/A/2517:2520, 1/A/2545:2547, 1/A/2561:2567 | No text annotation | homologous J3_5J7L_046 J3_32601.5 | |
| J4_6C4H_001 | 1/A/1772:1776, 1/A/1788:1792, 1/A/1827:1830, 1/A/1975:1979 | No text annotation | homologous J4_9DFE_007 J4_61477.5 | |
| J5_6C4H_001 | 1/A/2057:2064, 1/A/2446:2453, 1/A/2500:2506, 1/A/2583:2588, 1/A/2606:2611 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6C4H_001 | No text annotation |
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