8YP6 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8YP6_004 | 1/a/191:196 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8YP6_001 | No text annotation | ||
| HL_8YP6_002 | No text annotation | ||
| HL_8YP6_003 | GNRA | ||
| HL_8YP6_005 | No text annotation | ||
| HL_8YP6_006 | GNRA related | ||
| HL_8YP6_007 | GNRA | ||
| HL_8YP6_008 | No text annotation | ||
| HL_8YP6_009 | UNCG | ||
| HL_8YP6_010 | GNRA | ||
| HL_8YP6_011 | UNCG | ||
| HL_8YP6_012 | No text annotation | ||
| HL_8YP6_013 | GNRA variation | ||
| HL_8YP6_014 | GNRA-like with tWH | ||
| HL_8YP6_015 | No text annotation | ||
| HL_8YP6_016 | GNRA | ||
| HL_8YP6_017 | No text annotation | ||
| HL_8YP6_018 | GNRA | ||
| HL_8YP6_019 | GNRA | ||
| HL_8YP6_020 | No text annotation | ||
| HL_8YP6_021 | GNRA | ||
| HL_8YP6_022 | No text annotation | ||
| HL_8YP6_023 | GNRA | ||
| HL_8YP6_024 | T-loop related | ||
| HL_8YP6_025 | No text annotation | ||
| HL_8YP6_026 | GNRA | ||
| HL_8YP6_027 | No text annotation | ||
| HL_8YP6_028 | T-loop with 3 stacked bulged bases | ||
| HL_8YP6_029 | No text annotation | ||
| HL_8YP6_030 | No text annotation | ||
| HL_8YP6_031 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8YP6_013 | 1/a/242:247, 1/a/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_8YP6_037 | 1/a/869:876, 1/a/887:892 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8YP6_001 | Single bulged G | ||
| IL_8YP6_002 | Single bulged A | ||
| IL_8YP6_003 | No text annotation | ||
| IL_8YP6_004 | Minor groove platform | ||
| IL_8YP6_005 | Multiple bulged bases | ||
| IL_8YP6_006 | Minor groove platform with extra cWW | ||
| IL_8YP6_007 | Minor groove platform | ||
| IL_8YP6_008 | No text annotation | ||
| IL_8YP6_009 | Multiple bulged bases | ||
| IL_8YP6_010 | No text annotation | ||
| IL_8YP6_011 | tWH-tWH-tHW-tHW | ||
| IL_8YP6_012 | No text annotation | ||
| IL_8YP6_014 | No text annotation | ||
| IL_8YP6_015 | C-loop | ||
| IL_8YP6_016 | Single bulged U | ||
| IL_8YP6_017 | C-loop | ||
| IL_8YP6_018 | Single bulged G | ||
| IL_8YP6_019 | No text annotation | ||
| IL_8YP6_020 | No text annotation | ||
| IL_8YP6_021 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_8YP6_022 | No text annotation | ||
| IL_8YP6_023 | SSU/LSU pseudoknot | ||
| IL_8YP6_024 | Kink-turn related | ||
| IL_8YP6_025 | No text annotation | ||
| IL_8YP6_026 | tSH-tHW-tHS | ||
| IL_8YP6_027 | Major groove platform | ||
| IL_8YP6_028 | Major groove minor groove platform; mini C-loop | ||
| IL_8YP6_029 | No text annotation | ||
| IL_8YP6_030 | Major groove platform; stack outside cWW | ||
| IL_8YP6_031 | No text annotation | ||
| IL_8YP6_032 | Tandem non-canonical cWW pairs | ||
| IL_8YP6_033 | No text annotation | ||
| IL_8YP6_034 | Kink-turn | ||
| IL_8YP6_035 | Left turn | ||
| IL_8YP6_036 | tSH-tHW-tHS | ||
| IL_8YP6_038 | No text annotation | ||
| IL_8YP6_039 | Minor groove platform | ||
| IL_8YP6_040 | Minor groove platform | ||
| IL_8YP6_041 | Single bulged U | ||
| IL_8YP6_042 | Isolated cWS basepair | ||
| IL_8YP6_043 | Minor groove platform | ||
| IL_8YP6_044 | Single bulged U | ||
| IL_8YP6_045 | Isolated non-canonical cWW pair | ||
| IL_8YP6_046 | No text annotation | ||
| IL_8YP6_047 | No text annotation | ||
| IL_8YP6_048 | Minor groove platform | ||
| IL_8YP6_049 | No text annotation | ||
| IL_8YP6_050 | No text annotation | ||
| IL_8YP6_051 | 180 degree turn | ||
| IL_8YP6_052 | Double sheared with non-canonical cWW | ||
| IL_8YP6_053 | No text annotation | ||
| IL_8YP6_054 | No text annotation | ||
| IL_8YP6_055 | No text annotation | ||
| IL_8YP6_056 | No text annotation | ||
| IL_8YP6_057 | Tandem non-canonical cWW pairs | ||
| IL_8YP6_058 | No text annotation | ||
| IL_8YP6_059 | Isolated non-canonical cWW pair | ||
| IL_8YP6_060 | No text annotation | ||
| IL_8YP6_061 | No text annotation | ||
| IL_8YP6_062 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J4_8YP6_001 | 1/a/111:119, 1/a/238:240, 1/a/286:289, 1/a/311:312 | No text annotation | ||
| J5_8YP6_003 | 1/a/62:65, 1/a/102:109, 1/a/314:316, 1/a/337:339, 1/a/350:354 | No text annotation | homologous J5_4LFB_002 J5_58574.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8YP6_001 | No text annotation | ||
| J3_8YP6_002 | No text annotation | ||
| J3_8YP6_003 | No text annotation | ||
| J3_8YP6_004 | No text annotation | ||
| J3_8YP6_005 | No text annotation | ||
| J3_8YP6_006 | No text annotation | ||
| J3_8YP6_007 | No text annotation | ||
| J3_8YP6_008 | No text annotation | ||
| J3_8YP6_009 | No text annotation | ||
| J3_8YP6_010 | No text annotation | ||
| J3_8YP6_011 | No text annotation | ||
| J3_8YP6_012 | No text annotation | ||
| J3_8YP6_013 | No text annotation | ||
| J3_8YP6_014 | No text annotation | ||
| J3_8YP6_015 | No text annotation | ||
| J3_8YP6_016 | No text annotation | ||
| J3_8YP6_017 | No text annotation | ||
| J4_8YP6_002 | No text annotation | ||
| J4_8YP6_003 | No text annotation | ||
| J5_8YP6_001 | No text annotation | ||
| J5_8YP6_002 | No text annotation |
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