3J46 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_3J46_007 | 1/1/59:68 | Pseudoknot geometry | geometric HL_4GXY_003 HL_65794.5 | |
| HL_3J46_008 | 1/1/87:95 | Externally structured | geometric HL_5TBW_022 NA | |
| HL_3J46_009 | 1/2/1324:1330 | Pseudoknot geometry with 3' bulge | geometric HL_5J7L_166 HL_57176.2 | |
| HL_3J46_010 | 1/3/1533:1538 | UNCG | geometric HL_4AY2_001 HL_34617.5 | |
| HL_3J46_013 | 1/4/2143:2148 | No text annotation | geometric HL_8CRE_052 HL_75660.5 | |
| HL_3J46_004 | 1/a/13:22 | No text annotation | homologous HL_3KFU_004 NA | |
| HL_3J46_005 | 1/a/31:39 | tRNA anticodon loop | homologous HL_4YCO_002 HL_06059.6 | |
| HL_3J46_006 | 1/a/53:61 | T-loop with 2 stacked bulged bases | homologous HL_5HR6_003 HL_28252.8 | |
| HL_3J46_012 | 1/p/13:22 | tRNA D-loop | homologous HL_7LYF_001 HL_20811.4 | |
| HL_3J46_002 | 1/p/31:39 | tRNA anticodon loop | homologous HL_4TUE_034 HL_06059.6 | |
| HL_3J46_014 | 1/p/53:61 | T-loop with 2 stacked bulged bases | homologous HL_7K98_003 HL_28252.8 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_3J46_011 | No text annotation | ||
| HL_3J46_001 | No text annotation | ||
| HL_3J46_003 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_3J46_011 | 1/1/82:85, 1/1/97:104 | Kink-turn | geometric IL_1U63_003 IL_24134.1 | |
| IL_3J46_003 | 1/2/1319:1323, 1/2/1331:1333 | C-loop | geometric IL_5J7L_291 IL_63596.11 | |
| IL_3J46_004 | 1/3/1526:1529, 1/3/1542:1546 | UAA/GAN variation | geometric IL_5J7L_303 IL_23774.1 | |
| IL_3J46_005 | 1/4/2103:2105, 1/4/2184:2186 | No text annotation | geometric IL_1NBS_006 NA | |
| IL_3J46_007 | 1/4/2108:2110, 1/4/2179:2181 | No text annotation | homologous IL_7RQB_084 NA | |
| IL_3J46_008 | 1/4/2110:2122, 1/4/2176:2179 | No text annotation | ||
| IL_3J46_009 | 1/4/2124:2136, 1/4/2155:2174 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_3J46_002 | No text annotation | ||
| IL_3J46_006 | Isolated non-canonical cWW pair | ||
| IL_3J46_010 | Isolated non-canonical cWW pair | ||
| IL_3J46_001 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_3J46_001 | 1/1/56:57, 1/1/70:76, 1/1/110:114 | No text annotation | geometric J3_4V9F_014 J3_35667.2 | |
| J4_3J46_001 | 1/a/7:10, 1/a/25:27, 1/a/43:49, 1/a/65:66 | tRNA junction | homologous J4_5E81_030 J4_70449.28 | |
| J4_3J46_003 | 1/p/7:11, 1/p/24:27, 1/p/43:49, 1/p/65:66 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J4_3J46_002 | No text annotation |
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