9H3O Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9H3O_010 | 1/A/319:323 | No text annotation | homologous HL_4WF9_011 HL_75660.6 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9H3O_001 | No text annotation | ||
| HL_9H3O_002 | No text annotation | ||
| HL_9H3O_003 | No text annotation | ||
| HL_9H3O_004 | No text annotation | ||
| HL_9H3O_005 | No text annotation | ||
| HL_9H3O_006 | No text annotation | ||
| HL_9H3O_007 | No text annotation | ||
| HL_9H3O_008 | No text annotation | ||
| HL_9H3O_009 | T-loop with 2 stacked bulged bases | ||
| HL_9H3O_011 | T-loop with unstacked turn | ||
| HL_9H3O_012 | No text annotation | ||
| HL_9H3O_013 | No text annotation | ||
| HL_9H3O_014 | GNRA | ||
| HL_9H3O_015 | GNRA | ||
| HL_9H3O_016 | No text annotation | ||
| HL_9H3O_017 | T-loop with 2 stacked bulged bases | ||
| HL_9H3O_018 | No text annotation | ||
| HL_9H3O_019 | No text annotation | ||
| HL_9H3O_020 | GNRA | ||
| HL_9H3O_021 | No text annotation | ||
| HL_9H3O_022 | No text annotation | ||
| HL_9H3O_023 | GNRA | ||
| HL_9H3O_024 | No text annotation | ||
| HL_9H3O_025 | No text annotation | ||
| HL_9H3O_026 | Externally structured | ||
| HL_9H3O_027 | GNRA | ||
| HL_9H3O_028 | T-loop with 2 stacked bulged bases | ||
| HL_9H3O_029 | Pseudoknot geometry with 3' bulge | ||
| HL_9H3O_030 | GNRA | ||
| HL_9H3O_031 | No text annotation | ||
| HL_9H3O_032 | Mini UNCG with extended bulge | ||
| HL_9H3O_033 | No text annotation | ||
| HL_9H3O_034 | UNCG | ||
| HL_9H3O_035 | Mini UNCG | ||
| HL_9H3O_036 | No text annotation | ||
| HL_9H3O_037 | GNRA | ||
| HL_9H3O_038 | No text annotation | ||
| HL_9H3O_039 | No text annotation | ||
| HL_9H3O_040 | No text annotation | ||
| HL_9H3O_041 | No text annotation | ||
| HL_9H3O_042 | Mini UNCG | ||
| HL_9H3O_043 | No text annotation | ||
| HL_9H3O_044 | GNRA | ||
| HL_9H3O_045 | GNRA | ||
| HL_9H3O_046 | Ribsomal LSU H95 | ||
| HL_9H3O_047 | No text annotation | ||
| HL_9H3O_048 | No text annotation | ||
| HL_9H3O_049 | No text annotation | ||
| HL_9H3O_050 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9H3O_011 | 1/A/293:295, 1/A/343:347 | No text annotation | homologous IL_5J7L_254 NA | |
| IL_9H3O_035 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | homologous IL_7A0S_041 IL_42997.4 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9H3O_001 | Triple sheared with non-canonical cWW | ||
| IL_9H3O_002 | Single bulged A | ||
| IL_9H3O_003 | Minor groove platform | ||
| IL_9H3O_004 | No text annotation | ||
| IL_9H3O_005 | No text annotation | ||
| IL_9H3O_006 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_9H3O_007 | Single stack bend | ||
| IL_9H3O_008 | No text annotation | ||
| IL_9H3O_009 | No text annotation | ||
| IL_9H3O_010 | No text annotation | ||
| IL_9H3O_012 | No text annotation | ||
| IL_9H3O_013 | Double sheared | ||
| IL_9H3O_014 | Isolated non-canonical cWW pair | ||
| IL_9H3O_015 | AAA cross-strand stack | ||
| IL_9H3O_016 | Single stack bend | ||
| IL_9H3O_017 | Isolated non-canonical cWW pair | ||
| IL_9H3O_018 | No text annotation | ||
| IL_9H3O_019 | No text annotation | ||
| IL_9H3O_020 | 90 degree turn | ||
| IL_9H3O_021 | No text annotation | ||
| IL_9H3O_022 | Stack outside cWW | ||
| IL_9H3O_023 | Single stack bend | ||
| IL_9H3O_024 | No text annotation | ||
| IL_9H3O_025 | Minor groove platform | ||
| IL_9H3O_026 | Single bulged C | ||
| IL_9H3O_027 | UAA/GAN | ||
| IL_9H3O_028 | SSU/LSU pseudoknot | ||
| IL_9H3O_029 | Single bulged U | ||
| IL_9H3O_030 | No text annotation | ||
| IL_9H3O_031 | No text annotation | ||
| IL_9H3O_032 | Tandem non-canonical cWW pairs | ||
| IL_9H3O_033 | No text annotation | ||
| IL_9H3O_034 | No text annotation | ||
| IL_9H3O_036 | No text annotation | ||
| IL_9H3O_037 | Kink-turn | ||
| IL_9H3O_038 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_9H3O_039 | Major groove platform; stack outside cWW | ||
| IL_9H3O_040 | C-loop | ||
| IL_9H3O_041 | UAA/GAN | ||
| IL_9H3O_042 | tSH-tHW-tHS | ||
| IL_9H3O_043 | No text annotation | ||
| IL_9H3O_044 | No text annotation | ||
| IL_9H3O_045 | Tandem non-canonical cWW pairs | ||
| IL_9H3O_046 | No text annotation | ||
| IL_9H3O_047 | Single bulged U | ||
| IL_9H3O_048 | No text annotation | ||
| IL_9H3O_049 | tSH-tHW-tHS | ||
| IL_9H3O_050 | 180 degree turn | ||
| IL_9H3O_051 | Single bulged A | ||
| IL_9H3O_052 | UAA/GAN variation | ||
| IL_9H3O_053 | No text annotation | ||
| IL_9H3O_054 | No text annotation | ||
| IL_9H3O_055 | No text annotation | ||
| IL_9H3O_056 | Intercalated tWH | ||
| IL_9H3O_057 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_9H3O_058 | Triple sheared | ||
| IL_9H3O_059 | Single stack bend | ||
| IL_9H3O_060 | Major groove platform | ||
| IL_9H3O_061 | Major groove platform | ||
| IL_9H3O_062 | No text annotation | ||
| IL_9H3O_063 | Double sheared with non-canonical cWW | ||
| IL_9H3O_064 | Major groove platform | ||
| IL_9H3O_065 | Isolated non-canonical cWW with bulges | ||
| IL_9H3O_066 | Multiple bulged bases | ||
| IL_9H3O_067 | Major groove platform with intercalation | ||
| IL_9H3O_068 | Single bulged A | ||
| IL_9H3O_069 | tSH-tHS-tHW | ||
| IL_9H3O_070 | Single stack bend | ||
| IL_9H3O_071 | No text annotation | ||
| IL_9H3O_072 | C-loop | ||
| IL_9H3O_073 | UAA/GAN related, with intercalation | ||
| IL_9H3O_074 | Multiple bulged bases | ||
| IL_9H3O_075 | UAA/GAN with extra cWW | ||
| IL_9H3O_076 | Single bulged A | ||
| IL_9H3O_077 | No text annotation | ||
| IL_9H3O_078 | Major groove intercalation | ||
| IL_9H3O_079 | Multiple bulged bases with non-canonical cWW | ||
| IL_9H3O_080 | tHS double platform |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J4_9H3O_002 | 1/A/297:301, 1/A/316:319, 1/A/323:325, 1/A/337:341 | No text annotation | homologous J4_5J7L_019 NA | |
| J5_9H3O_003 | 1/A/584:589, 1/A/668:671, 1/A/809:812, 1/A/1195:1196, 1/A/1250:1256 | No text annotation | homologous J5_5J7L_015 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_9H3O_001 | No text annotation | ||
| J3_9H3O_002 | No text annotation | ||
| J3_9H3O_003 | No text annotation | ||
| J3_9H3O_004 | No text annotation | ||
| J3_9H3O_005 | No text annotation | ||
| J3_9H3O_006 | No text annotation | ||
| J3_9H3O_007 | No text annotation | ||
| J3_9H3O_008 | No text annotation | ||
| J3_9H3O_009 | No text annotation | ||
| J3_9H3O_010 | No text annotation | ||
| J3_9H3O_011 | No text annotation | ||
| J4_9H3O_001 | No text annotation | ||
| J4_9H3O_003 | No text annotation | ||
| J4_9H3O_004 | No text annotation | ||
| J4_9H3O_005 | No text annotation | ||
| J4_9H3O_006 | No text annotation | ||
| J4_9H3O_007 | No text annotation | ||
| J5_9H3O_001 | No text annotation | ||
| J5_9H3O_002 | No text annotation | ||
| J5_9H3O_004 | No text annotation | ||
| J6_9H3O_001 | No text annotation | ||
| J7_9H3O_001 | No text annotation | ||
| J7_9H3O_002 | No text annotation |
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