1FG0 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_1FG0_001 | 1/A/2068:2077 | No text annotation | homologous HL_4V9F_052 HL_78372.1 | |
| HL_1FG0_004 | 1/A/2281:2289 | No text annotation | homologous HL_4V9F_055 HL_11974.1 | |
| HL_1FG0_005 | 1/A/2298:2310 | No text annotation | homologous HL_4V9F_056 HL_02042.1 | |
| HL_1FG0_007 | 1/A/2358:2365 | Pseudoknot geometry | homologous HL_4V9F_058 HL_52651.1 | |
| HL_1FG0_008 | 1/A/2389:2399 | No text annotation | homologous HL_4V9F_059 HL_02042.1 | |
| HL_1FG0_009 | 1/A/2411:2416 | GNRA | homologous HL_4V9F_060 HL_34789.1 | |
| HL_1FG0_010 | 1/A/2442:2450 | Pseudoknot geometry | homologous HL_4V9F_061 HL_52651.1 | |
| HL_1FG0_015 | 1/A/2586:2592 | No text annotation | homologous HL_4V9F_073 HL_48677.1 | |
| HL_1FG0_014 | 1/A/2629:2634 | GNRA | homologous HL_4V9F_065 HL_34789.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_1FG0_002 | No text annotation | ||
| HL_1FG0_003 | GNRA | ||
| HL_1FG0_006 | No text annotation | ||
| HL_1FG0_011 | No text annotation | ||
| HL_1FG0_012 | GNRA variation | ||
| HL_1FG0_013 | tRNA D-loop |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_1FG0_001 | 1/A/2090:2093, 1/A/2652:2654 | No text annotation | homologous IL_4V9F_072 IL_75527.1 | |
| IL_1FG0_022 | 1/A/2108:2110, 1/A/2477:2478 | Single bulged U | homologous IL_4V9F_074 IL_97561.1 | |
| IL_1FG0_004 | 1/A/2111:2112, 1/A/2473:2476 | Minor groove platform | homologous IL_4V9F_075 IL_34520.1 | |
| IL_1FG0_005 | 1/A/2122:2124, 1/A/2269:2272 | Isolated tHS basepair with bulges | homologous IL_4V9F_076 IL_87316.1 | |
| IL_1FG0_006 | 1/A/2279:2280, 1/A/2290:2292 | Single bulged A | homologous IL_4V9F_079 IL_14190.1 | |
| IL_1FG0_008 | 1/A/2436:2438, 1/A/2454:2455 | Single stack bend | homologous IL_4V9F_081 IL_15011.1 | |
| IL_1FG0_009 | 1/A/2489:2490, 1/A/2531:2533 | Major groove platform | homologous IL_4V9F_082 IL_48076.7 | |
| IL_1FG0_010 | 1/A/2492:2494, 1/A/2528:2529 | Major groove platform | homologous IL_4V9F_083 IL_46637.1 | |
| IL_1FG0_011 | 1/A/2494:2496, 1/A/2524:2528 | Major groove minor groove platform with extra cWW | geometric IL_4V9F_084 IL_36931.1 | |
| IL_1FG0_012 | 1/A/2501:2505, 1/A/2515:2519 | Double sheared with non-canonical cWW | homologous IL_4V9F_085 IL_87767.1 | |
| IL_1FG0_013 | 1/A/2542:2543, 1/A/2615:2617 | Major groove platform | homologous IL_4V9F_086 IL_46637.1 | |
| IL_1FG0_014 | 1/A/2545:2547, 1/A/2609:2613 | Isolated non-canonical cWW with bulges | geometric IL_4V9F_087 IL_68118.1 | |
| IL_1FG0_018 | 1/A/2626:2627, 1/A/2636:2638 | Single bulged A | geometric IL_7RQB_101 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_1FG0_002 | No text annotation | ||
| IL_1FG0_019 | No text annotation | ||
| IL_1FG0_003 | Tandem non-canonical cWW pairs | ||
| IL_1FG0_020 | Isolated non-canonical cWW pair | ||
| IL_1FG0_007 | Isolated tHS basepair with bulges | ||
| IL_1FG0_015 | Multiple bulged bases | ||
| IL_1FG0_016 | Major groove platform with intercalation | ||
| IL_1FG0_017 | Isolated non-canonical cWW contact | ||
| IL_1FG0_021 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_1FG0_001 | 1/A/2131:2134, 1/A/2241:2245, 1/A/2256:2262 | No text annotation | homologous J3_4V9F_007 J3_86017.1 | |
| J3_1FG0_004 | 1/A/2316:2318, 1/A/2421:2432, 1/A/2459:2464 | No text annotation | homologous J3_4V9F_018 J3_44792.1 | |
| J3_1FG0_002 | 1/A/2329:2331, 1/A/2355:2357, 1/A/2366:2371 | No text annotation | homologous J3_4V9F_008 J3_05327.1 | |
| J3_1FG0_003 | 1/A/2552:2555, 1/A/2580:2583, 1/A/2595:2602 | No text annotation | homologous J3_4V9F_009 J3_68010.1 | |
| J4_1FG0_001 | 1/A/2319:2323, 1/A/2377:2381, 1/A/2407:2409, 1/A/2418:2420 | No text annotation | homologous J4_4V9F_009 J4_98139.1 | |
| J5_1FG0_003 | 1/A/2098:2105, 1/A/2481:2489, 1/A/2533:2541, 1/A/2618:2623, 1/A/2641:2646 | No text annotation | ||
| J5_1FG0_002 | 1/A/2115:2118, 1/A/2276:2279, 1/A/2292:2293, 1/A/2315:2316, 1/A/2464:2470 | No text annotation | homologous J5_4V9F_008 J5_96125.1 | |
| J6_1FG0_001 | 1/A/2115:2118, 1/A/2276:2279, 1/A/2292:2293, 1/A/2315:2318, 1/A/2421:2432, 1/A/2459:2470 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J5_1FG0_001 | No text annotation |
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