5NO2 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_5NO2_032 | 1/A/12:22 | No text annotation | homologous HL_4LFB_001 HL_31940.1 | |
| HL_5NO2_008 | 1/A/320:333 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_5NO2_017 | 1/A/786:796 | No text annotation | homologous HL_4LFB_017 HL_38491.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5NO2_001 | No text annotation | ||
| HL_5NO2_002 | No text annotation | ||
| HL_5NO2_003 | GNRA | ||
| HL_5NO2_004 | GNRA | ||
| HL_5NO2_033 | No text annotation | ||
| HL_5NO2_005 | UNCG | ||
| HL_5NO2_006 | GNRA related | ||
| HL_5NO2_007 | GNRA | ||
| HL_5NO2_009 | UNCG | ||
| HL_5NO2_010 | GNRA | ||
| HL_5NO2_011 | UNCG | ||
| HL_5NO2_012 | GNRA wlth extra near cWW | ||
| HL_5NO2_013 | No text annotation | ||
| HL_5NO2_036 | GNRA variation | ||
| HL_5NO2_014 | GNRA-like with tWH | ||
| HL_5NO2_015 | No text annotation | ||
| HL_5NO2_016 | GNRA | ||
| HL_5NO2_034 | No text annotation | ||
| HL_5NO2_018 | No text annotation | ||
| HL_5NO2_019 | GNRA | ||
| HL_5NO2_020 | GNRA | ||
| HL_5NO2_021 | No text annotation | ||
| HL_5NO2_035 | No text annotation | ||
| HL_5NO2_022 | No text annotation | ||
| HL_5NO2_037 | GNRA | ||
| HL_5NO2_023 | GNRA | ||
| HL_5NO2_024 | T-loop related | ||
| HL_5NO2_025 | No text annotation | ||
| HL_5NO2_026 | GNRA | ||
| HL_5NO2_027 | GNRA | ||
| HL_5NO2_028 | T-loop with 3 stacked bulged bases | ||
| HL_5NO2_029 | No text annotation | ||
| HL_5NO2_030 | UNCG | ||
| HL_5NO2_031 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5NO2_017 | 1/A/367:369, 1/A/392:393 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_5NO2_034 | 1/A/684:688, 1/A/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_5NO2_037 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_5NO2_040 | 1/A/933:935, 1/A/1380:1384 | Minor groove platform | homologous IL_4LFB_037 IL_61370.1 | |
| IL_5NO2_057 | 1/A/1399:1401, 1/A/1501:1504 | No text annotation | geometric IL_5J7L_058 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5NO2_065 | Isolated non-canonical cWW pair | ||
| IL_5NO2_001 | Single bulged G | ||
| IL_5NO2_002 | Single bulged A | ||
| IL_5NO2_003 | No text annotation | ||
| IL_5NO2_066 | No text annotation | ||
| IL_5NO2_004 | Minor groove platform | ||
| IL_5NO2_005 | Multiple bulged bases | ||
| IL_5NO2_006 | Minor groove platform with extra cWW | ||
| IL_5NO2_007 | Minor groove platform | ||
| IL_5NO2_067 | Single bulged G | ||
| IL_5NO2_008 | Single bulged G, near cWW | ||
| IL_5NO2_009 | Isolated non-canonical cWW pair | ||
| IL_5NO2_010 | No text annotation | ||
| IL_5NO2_011 | Isolated cWH basepair | ||
| IL_5NO2_012 | tWH-tWH-tHW-tHW | ||
| IL_5NO2_013 | Minor groove platform | ||
| IL_5NO2_014 | Kink-turn with non-sequential stacking | ||
| IL_5NO2_015 | No text annotation | ||
| IL_5NO2_016 | C-loop | ||
| IL_5NO2_018 | C-loop | ||
| IL_5NO2_019 | Single bulged G | ||
| IL_5NO2_020 | No text annotation | ||
| IL_5NO2_021 | No text annotation | ||
| IL_5NO2_022 | tSH-tHW-tWW | ||
| IL_5NO2_023 | No text annotation | ||
| IL_5NO2_024 | SSU/LSU pseudoknot | ||
| IL_5NO2_025 | No text annotation | ||
| IL_5NO2_077 | Kink-turn related | ||
| IL_5NO2_026 | tSH-tHW-tHS | ||
| IL_5NO2_027 | Major groove platform | ||
| IL_5NO2_028 | Major groove minor groove platform; mini C-loop | ||
| IL_5NO2_068 | No text annotation | ||
| IL_5NO2_029 | No text annotation | ||
| IL_5NO2_030 | Major groove platform; stack outside cWW | ||
| IL_5NO2_069 | Single stack bend | ||
| IL_5NO2_031 | No text annotation | ||
| IL_5NO2_032 | Tandem non-canonical cWW pairs | ||
| IL_5NO2_033 | No text annotation | ||
| IL_5NO2_070 | Kink-turn | ||
| IL_5NO2_035 | Left turn | ||
| IL_5NO2_036 | tSH-tHW-tHS | ||
| IL_5NO2_038 | Single bulged A | ||
| IL_5NO2_039 | Single bulged G | ||
| IL_5NO2_041 | Minor groove platform | ||
| IL_5NO2_071 | No text annotation | ||
| IL_5NO2_042 | Minor groove platform | ||
| IL_5NO2_043 | Single stack bend | ||
| IL_5NO2_044 | No text annotation | ||
| IL_5NO2_072 | No text annotation | ||
| IL_5NO2_045 | Single bulged U | ||
| IL_5NO2_046 | No text annotation | ||
| IL_5NO2_073 | Isolated cWS basepair | ||
| IL_5NO2_047 | Minor groove platform | ||
| IL_5NO2_048 | Single bulged A | ||
| IL_5NO2_049 | Isolated non-canonical cWW pair | ||
| IL_5NO2_050 | No text annotation | ||
| IL_5NO2_051 | Minor groove platform | ||
| IL_5NO2_052 | No text annotation | ||
| IL_5NO2_053 | No text annotation | ||
| IL_5NO2_054 | 180 degree turn | ||
| IL_5NO2_055 | Double sheared with non-canonical cWW | ||
| IL_5NO2_056 | No text annotation | ||
| IL_5NO2_058 | No text annotation | ||
| IL_5NO2_074 | Isolated non-canonical cWW pair | ||
| IL_5NO2_059 | No text annotation | ||
| IL_5NO2_075 | No text annotation | ||
| IL_5NO2_060 | Isolated non-canonical cWW pair | ||
| IL_5NO2_061 | Double sheared | ||
| IL_5NO2_076 | No text annotation | ||
| IL_5NO2_062 | Triple sheared related | ||
| IL_5NO2_063 | Single bulged A | ||
| IL_5NO2_064 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5NO2_004 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_5NO2_015 | 1/A/936:939, 1/A/1344:1350, 1/A/1372:1379 | No text annotation | homologous J3_5J7L_052 NA | |
| J3_5NO2_011 | 1/A/1237:1241, 1/A/1296:1303, 1/A/1334:1337 | No text annotation | homologous J3_5J7L_011 NA | |
| J4_5NO2_004 | 1/A/142:144, 1/A/178:184, 1/A/193:198, 1/A/219:221 | No text annotation | homologous J4_5J7L_002 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5NO2_001 | No text annotation | ||
| J3_5NO2_012 | No text annotation | ||
| J3_5NO2_002 | No text annotation | ||
| J3_5NO2_013 | No text annotation | ||
| J3_5NO2_003 | No text annotation | ||
| J3_5NO2_014 | No text annotation | ||
| J3_5NO2_005 | No text annotation | ||
| J3_5NO2_006 | No text annotation | ||
| J3_5NO2_007 | No text annotation | ||
| J3_5NO2_016 | No text annotation | ||
| J3_5NO2_008 | No text annotation | ||
| J3_5NO2_009 | No text annotation | ||
| J3_5NO2_010 | No text annotation | ||
| J3_5NO2_017 | No text annotation | ||
| J4_5NO2_001 | No text annotation | ||
| J4_5NO2_002 | No text annotation | ||
| J4_5NO2_005 | No text annotation | ||
| J4_5NO2_003 | No text annotation | ||
| J5_5NO2_001 | No text annotation | ||
| J5_5NO2_002 | No text annotation | ||
| J5_5NO2_004 | No text annotation | ||
| J5_5NO2_003 | No text annotation |
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