5OOL Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_5OOL_002 | 1/A/1746:1752 | No text annotation | geometric HL_7A0S_008 HL_76371.2 | |
| HL_5OOL_004 | 1/A/1831:1839 | No text annotation | homologous HL_7RQB_017 NA | |
| HL_5OOL_006 | 1/A/1884:1889 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_5OOL_010 | 1/A/2035:2040 | No text annotation | homologous HL_5J7L_157 NA | |
| HL_5OOL_013 | 1/A/2129:2136 | No text annotation | homologous HL_5J7L_160 NA | |
| HL_5OOL_016 | 1/A/2279:2286 | No text annotation | geometric HL_2Y9H_005 HL_44506.2 | |
| HL_5OOL_017 | 1/A/2319:2324 | UNCG | geometric HL_5J7L_005 NA | |
| HL_5OOL_020 | 1/A/2428:2435 | No text annotation | homologous HL_7RQB_040 NA | |
| HL_5OOL_021 | 1/A/2497:2507 | No text annotation | homologous HL_7RQB_045 NA | |
| HL_5OOL_022 | 1/A/2518:2532 | No text annotation | ||
| HL_5OOL_025 | 1/A/2690:2699 | No text annotation | homologous HL_7RQB_050 NA | |
| HL_5OOL_028 | 1/A/2828:2840 | No text annotation | ||
| HL_5OOL_029 | 1/A/2862:2870 | No text annotation | geometric HL_2ZZM_002 HL_33487.1 | |
| HL_5OOL_034 | 1/A/3081:3086 | GNRA | homologous HL_5J7L_196 NA | |
| HL_5OOL_036 | 1/A/3154:3159 | No text annotation | geometric HL_4WRT_001 HL_19413.2 | |
| HL_5OOL_037 | 1/A/3176:3193 | No text annotation | geometric HL_7A0S_074 NA | |
| HL_5OOL_038 | 1/A/3216:3224 | No text annotation | geometric HL_7RQB_068 NA | |
| HL_5OOL_040 | 1/B/1630:1638 | tRNA anticodon loop | geometric HL_3WFS_002 HL_81376.3 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5OOL_001 | No text annotation | ||
| HL_5OOL_003 | GNRA | ||
| HL_5OOL_005 | T-loop with 2 stacked bulged bases | ||
| HL_5OOL_007 | No text annotation | ||
| HL_5OOL_008 | No text annotation | ||
| HL_5OOL_009 | No text annotation | ||
| HL_5OOL_011 | Externally structured | ||
| HL_5OOL_012 | GNRA | ||
| HL_5OOL_014 | No text annotation | ||
| HL_5OOL_015 | GNRA wlth tandem sheared | ||
| HL_5OOL_018 | Externally structured | ||
| HL_5OOL_019 | Mini UNCG | ||
| HL_5OOL_023 | No text annotation | ||
| HL_5OOL_024 | No text annotation | ||
| HL_5OOL_026 | No text annotation | ||
| HL_5OOL_027 | No text annotation | ||
| HL_5OOL_030 | GNRA | ||
| HL_5OOL_031 | No text annotation | ||
| HL_5OOL_032 | No text annotation | ||
| HL_5OOL_033 | No text annotation | ||
| HL_5OOL_035 | GNRA | ||
| HL_5OOL_039 | tRNA D-loop |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5OOL_003 | 1/A/1739:1745, 1/A/1753:1758 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_5J7L_251 NA | |
| IL_5OOL_005 | 1/A/1877:1879, 1/A/1895:1897 | Isolated non-canonical cWW pair | geometric IL_3GM7_002 IL_01003.4 | |
| IL_5OOL_006 | 1/A/1880:1883, 1/A/1890:1894 | No text annotation | ||
| IL_5OOL_010 | 1/A/1925:1927, 1/A/1977:1979 | Isolated non-canonical cWW pair | geometric IL_3DIL_006 IL_01003.4 | |
| IL_5OOL_013 | 1/A/1985:1987, 1/A/1997:2001 | Multiple bulged bases | homologous IL_7A0S_021 IL_89509.1 | |
| IL_5OOL_015 | 1/A/2057:2063, 1/A/2076:2082 | No text annotation | geometric IL_5XWG_002 IL_74768.1 | |
| IL_5OOL_017 | 1/A/2149:2153, 1/A/2248:2252 | UAA/GAN | homologous IL_7RQB_036 NA | |
| IL_5OOL_021 | 1/A/2306:2313, 1/A/2674:2680 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_5OOL_057 | 1/A/2384:2400, 1/A/2403:2408 | No text annotation | ||
| IL_5OOL_034 | 1/A/2717:2719, 1/A/3099:3102 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_5OOL_039 | 1/A/2856:2860, 1/A/2872:2876 | Double sheared with non-canonical cWW | geometric IL_5J7L_274 NA | |
| IL_5OOL_042 | 1/A/2943:2946, 1/A/2980:2982 | Major groove platform with extra pair | homologous IL_7RQB_093 NA | |
| IL_5OOL_043 | 1/A/2946:2948, 1/A/2976:2980 | Major groove minor groove platform with extra cWW | geometric IL_4WF9_092 IL_36931.2 | |
| IL_5OOL_044 | 1/A/2953:2955, 1/A/2968:2971 | No text annotation | geometric IL_4P3T_002 NA | |
| IL_5OOL_047 | 1/A/2997:2999, 1/A/3061:3065 | Isolated non-canonical cWW with bulges | homologous IL_7RQB_097 NA | |
| IL_5OOL_048 | 1/A/2999:3000, 1/A/3058:3061 | No text annotation | geometric IL_5J7L_341 NA | |
| IL_5OOL_049 | 1/A/3008:3010, 1/A/3027:3031 | No text annotation | geometric IL_7EL1_001 IL_70784.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5OOL_001 | No text annotation | ||
| IL_5OOL_002 | Single bulged A | ||
| IL_5OOL_004 | Isolated non-canonical cWW pair | ||
| IL_5OOL_007 | Isolated non-canonical cWW pair | ||
| IL_5OOL_008 | tHW-tHW cross-strand stack | ||
| IL_5OOL_009 | Isolated non-canonical cWW pair | ||
| IL_5OOL_011 | Single bulged A | ||
| IL_5OOL_012 | Major groove platform with extra cWW | ||
| IL_5OOL_014 | No text annotation | ||
| IL_5OOL_016 | Single bulged C | ||
| IL_5OOL_018 | Isolated near basepair | ||
| IL_5OOL_019 | No text annotation | ||
| IL_5OOL_020 | No text annotation | ||
| IL_5OOL_022 | No text annotation | ||
| IL_5OOL_055 | No text annotation | ||
| IL_5OOL_056 | No text annotation | ||
| IL_5OOL_023 | No text annotation | ||
| IL_5OOL_024 | Isolated tWW turn | ||
| IL_5OOL_025 | Major groove platform; stack outside cWW | ||
| IL_5OOL_058 | No text annotation | ||
| IL_5OOL_026 | Intercalated tWH | ||
| IL_5OOL_027 | No text annotation | ||
| IL_5OOL_028 | Single bulged A | ||
| IL_5OOL_029 | Minor groove platform, major groove intercalation | ||
| IL_5OOL_030 | Major groove intercalation | ||
| IL_5OOL_031 | Multiple bulged bases | ||
| IL_5OOL_032 | No text annotation | ||
| IL_5OOL_033 | Major groove platform with extra pair | ||
| IL_5OOL_035 | Single bulged U | ||
| IL_5OOL_036 | Minor groove platform | ||
| IL_5OOL_037 | Minor groove platform | ||
| IL_5OOL_038 | No text annotation | ||
| IL_5OOL_040 | Single stack bend | ||
| IL_5OOL_041 | Major groove platform | ||
| IL_5OOL_045 | Minor groove platform | ||
| IL_5OOL_046 | Major groove platform | ||
| IL_5OOL_050 | Single bulged A | ||
| IL_5OOL_051 | No text annotation | ||
| IL_5OOL_052 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_5OOL_053 | C-loop | ||
| IL_5OOL_054 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5OOL_001 | 1/A/1678:1681, 1/A/1771:1785, 1/A/1792:1797 | No text annotation | ||
| J3_5OOL_003 | 1/A/1930:1932, 1/A/1942:1946, 1/A/1970:1973 | No text annotation | homologous J3_7RQB_005 NA | |
| J3_5OOL_004 | 1/A/2336:2343, 1/A/2423:2427, 1/A/2436:2438 | No text annotation | ||
| J3_5OOL_005 | 1/A/2343:2345, 1/A/2368:2375, 1/A/2421:2423 | No text annotation | ||
| J3_5OOL_007 | 1/A/2846:2848, 1/A/2890:2900, 1/A/2909:2915 | No text annotation | ||
| J3_5OOL_006 | 1/A/3004:3007, 1/A/3032:3034, 1/A/3048:3054 | No text annotation | homologous J3_7RQB_012 NA | |
| J4_5OOL_001 | 1/A/2314:2317, 1/A/2326:2327, 1/A/2450:2453, 1/A/2671:2673 | No text annotation | ||
| J4_5OOL_002 | 1/A/2336:2345, 1/A/2368:2375, 1/A/2421:2427, 1/A/2436:2438 | No text annotation | ||
| J4_5OOL_004 | 1/A/2544:2546, 1/A/2569:2570, 1/A/2587:2596, 1/A/2630:2635 | No text annotation | homologous J4_5J7L_026 NA | |
| J5_5OOL_001 | 1/A/1827:1829, 1/A/1841:1845, 1/A/1858:1860, 1/A/2305:2306, 1/A/2680:2681 | No text annotation | homologous J5_7A0S_003 J5_43153.6 | |
| J5_5OOL_002 | 1/A/1865:1875, 1/A/1899:1903, 1/A/2019:2022, 1/A/2271:2275, 1/A/2290:2300 | No text annotation | ||
| J5_5OOL_003 | 1/A/2720:2727, 1/A/2933:2940, 1/A/2987:2994, 1/A/3069:3075, 1/A/3093:3098 | No text annotation | ||
| J5_5OOL_004 | 1/A/2737:2740, 1/A/2807:2810, 1/A/2822:2823, 1/A/2845:2846, 1/A/2915:2922 | No text annotation | homologous J5_7A0S_007 J5_39529.2 | |
| J6_5OOL_003 | 1/A/2027:2032, 1/A/2043:2045, 1/A/2095:2098, 1/A/2123:2127, 1/A/2138:2143, 1/A/2257:2266 | No text annotation | ||
| J6_5OOL_002 | 1/A/2737:2740, 1/A/2807:2810, 1/A/2822:2823, 1/A/2845:2848, 1/A/2890:2900, 1/A/2909:2922 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5OOL_002 | No text annotation | ||
| J4_5OOL_003 | No text annotation | ||
| J6_5OOL_001 | No text annotation |
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