5LMS Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5LMS_001 | No text annotation | ||
| HL_5LMS_002 | No text annotation | ||
| HL_5LMS_003 | GNRA | ||
| HL_5LMS_004 | No text annotation | ||
| HL_5LMS_005 | Mini UNCG | ||
| HL_5LMS_006 | GNRA related | ||
| HL_5LMS_007 | GNRA | ||
| HL_5LMS_008 | No text annotation | ||
| HL_5LMS_009 | UNCG | ||
| HL_5LMS_010 | GNRA | ||
| HL_5LMS_011 | UNCG | ||
| HL_5LMS_012 | GNRA | ||
| HL_5LMS_013 | No text annotation | ||
| HL_5LMS_014 | GNRA-like with tWH | ||
| HL_5LMS_015 | No text annotation | ||
| HL_5LMS_016 | GNRA | ||
| HL_5LMS_017 | No text annotation | ||
| HL_5LMS_018 | Mini UNCG | ||
| HL_5LMS_019 | GNRA | ||
| HL_5LMS_020 | GNRA | ||
| HL_5LMS_021 | No text annotation | ||
| HL_5LMS_022 | GNRA | ||
| HL_5LMS_023 | No text annotation | ||
| HL_5LMS_024 | GNRA | ||
| HL_5LMS_025 | T-loop related | ||
| HL_5LMS_026 | No text annotation | ||
| HL_5LMS_027 | GNRA | ||
| HL_5LMS_028 | GNRA | ||
| HL_5LMS_029 | T-loop with 3 stacked bulged bases | ||
| HL_5LMS_030 | No text annotation | ||
| HL_5LMS_031 | UNCG | ||
| HL_5LMS_032 | GNRA | ||
| HL_5LMS_033 | tRNA D-loop | ||
| HL_5LMS_034 | tRNA anticodon loop | ||
| HL_5LMS_035 | T-loop with 2 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5LMS_022 | 1/A/569:575, 1/A/880:881 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_5LMS_052 | 1/A/1399:1401, 1/A/1501:1504 | No text annotation | geometric IL_4V88_463 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5LMS_001 | Single bulged G | ||
| IL_5LMS_002 | Single bulged A | ||
| IL_5LMS_003 | No text annotation | ||
| IL_5LMS_004 | Minor groove platform | ||
| IL_5LMS_005 | Multiple bulged bases | ||
| IL_5LMS_006 | Isolated non-canonical cWW pair | ||
| IL_5LMS_007 | Multiple bulged bases | ||
| IL_5LMS_008 | No text annotation | ||
| IL_5LMS_009 | tWH-tWH-tHW-tHW | ||
| IL_5LMS_010 | Isolated non-canonical cWW pair | ||
| IL_5LMS_011 | Kink-turn with non-sequential stacking | ||
| IL_5LMS_066 | No text annotation | ||
| IL_5LMS_012 | No text annotation | ||
| IL_5LMS_013 | C-loop | ||
| IL_5LMS_014 | Single bulged U | ||
| IL_5LMS_015 | C-loop | ||
| IL_5LMS_061 | Single bulged G | ||
| IL_5LMS_016 | Single bulged G, near cWW | ||
| IL_5LMS_017 | No text annotation | ||
| IL_5LMS_018 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_5LMS_019 | No text annotation | ||
| IL_5LMS_020 | SSU/LSU pseudoknot | ||
| IL_5LMS_021 | Kink-turn related | ||
| IL_5LMS_023 | tSH-tHW-tHS | ||
| IL_5LMS_024 | Major groove platform | ||
| IL_5LMS_025 | Major groove minor groove platform; mini C-loop | ||
| IL_5LMS_062 | No text annotation | ||
| IL_5LMS_026 | No text annotation | ||
| IL_5LMS_027 | Major groove platform; stack outside cWW | ||
| IL_5LMS_028 | Major groove platform | ||
| IL_5LMS_029 | Tandem non-canonical cWW pairs | ||
| IL_5LMS_063 | Triple non-canonical cWW pairs | ||
| IL_5LMS_030 | No text annotation | ||
| IL_5LMS_031 | Kink-turn | ||
| IL_5LMS_032 | Left turn | ||
| IL_5LMS_033 | tSH-tHW-tHS | ||
| IL_5LMS_034 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_5LMS_035 | Single bulged A | ||
| IL_5LMS_036 | Single bulged G | ||
| IL_5LMS_037 | Minor groove platform | ||
| IL_5LMS_038 | Minor groove platform | ||
| IL_5LMS_039 | Single bulged U | ||
| IL_5LMS_040 | Isolated cWS basepair | ||
| IL_5LMS_041 | Minor groove platform | ||
| IL_5LMS_042 | Single bulged U | ||
| IL_5LMS_043 | Isolated non-canonical cWW pair | ||
| IL_5LMS_044 | No text annotation | ||
| IL_5LMS_045 | Minor groove platform | ||
| IL_5LMS_046 | No text annotation | ||
| IL_5LMS_047 | No text annotation | ||
| IL_5LMS_048 | 180 degree turn | ||
| IL_5LMS_049 | Not an internal loop | ||
| IL_5LMS_064 | Double sheared | ||
| IL_5LMS_050 | Minor groove platform | ||
| IL_5LMS_051 | No text annotation | ||
| IL_5LMS_053 | No text annotation | ||
| IL_5LMS_054 | Isolated non-canonical cWW pair | ||
| IL_5LMS_055 | Decoding loop related | ||
| IL_5LMS_067 | Isolated non-canonical cWW pair | ||
| IL_5LMS_056 | Tandem non-canonical cWW pairs | ||
| IL_5LMS_057 | Double sheared | ||
| IL_5LMS_058 | UAA/GAN variation | ||
| IL_5LMS_059 | Isolated non-canonical cWW pair | ||
| IL_5LMS_060 | No text annotation | ||
| IL_5LMS_065 | Other IL | ||
| IL_5LMS_068 | Single stack bend |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5LMS_019 | 1/A/936:939, 1/A/1344:1350, 1/A/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_5LMS_010 | 1/A/1063:1068, 1/A/1107:1113, 1/A/1187:1193 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
| J4_5LMS_001 | 1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312 | No text annotation | homologous J4_4LFB_001 J4_90044.1 | |
| J4_5LMS_003 | 1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880 | No text annotation | homologous J4_4LFB_003 J4_14595.1 | |
| J5_5LMS_001 | 1/A/36:39, 1/A/403:406, 1/A/436:442, 1/A/492:500, 1/A/545:548 | No text annotation | homologous J5_4LFB_001 J5_70703.1 | |
| J5_5LMS_002 | 1/A/58:61, 1/A/106:113, 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_5LMS_001 | No text annotation | ||
| J3_5LMS_014 | No text annotation | ||
| J3_5LMS_002 | No text annotation | ||
| J3_5LMS_015 | No text annotation | ||
| J3_5LMS_003 | No text annotation | ||
| J3_5LMS_004 | No text annotation | ||
| J3_5LMS_005 | No text annotation | ||
| J3_5LMS_006 | No text annotation | ||
| J3_5LMS_007 | No text annotation | ||
| J3_5LMS_008 | No text annotation | ||
| J3_5LMS_016 | No text annotation | ||
| J3_5LMS_017 | No text annotation | ||
| J3_5LMS_009 | No text annotation | ||
| J3_5LMS_011 | No text annotation | ||
| J3_5LMS_012 | No text annotation | ||
| J3_5LMS_018 | No text annotation | ||
| J3_5LMS_013 | No text annotation | ||
| J4_5LMS_002 | No text annotation | ||
| J4_5LMS_004 | tRNA junction |
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