9HQV Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9HQV_001 | 1/SA/5:13 | Pseudoknot geometry | geometric HL_2NZ4_007 NA | |
| HL_9HQV_002 | 1/SA/44:51 | No text annotation | ||
| HL_9HQV_003 | 1/SD/17:38 | No text annotation | ||
| HL_9HQV_004 | 1/SE/37:44 | T-loop related | geometric HL_5J7L_024 NA | |
| HL_9HQV_005 | 1/SF/46:51 | GNRA variation | geometric HL_1L9A_001 NA | |
| HL_9HQV_006 | 1/SH/4:10 | No text annotation | ||
| HL_9HQV_007 | 1/SI/5:14 | No text annotation | geometric HL_4LFB_015 HL_38491.1 | |
| HL_9HQV_008 | 1/SJ/52:62 | No text annotation | geometric HL_8CRE_212 HL_38491.1 | |
| HL_9HQV_009 | 1/SK/11:42 | No text annotation | ||
| HL_9HQV_010 | 1/SK/23:29 | No text annotation | ||
| HL_9HQV_011 | 1/SK/93:102 | No text annotation | geometric HL_4LFB_021 HL_97521.1 | |
| HL_9HQV_013 | 1/SQ/32:48 | No text annotation | ||
| HL_9HQV_014 | 1/SU/31:36 | GNRA | geometric HL_5J7L_031 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9HQV_012 | T-loop related | ||
| HL_9HQV_015 | tRNA anticodon loop |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9HQV_001 | 1/SA/21:23, 1/SF/79:80 | Major groove platform | geometric IL_4V9F_082 IL_48076.7 | |
| IL_9HQV_002 | 1/SC/10:15, 1/SD/3:11 | No text annotation | ||
| IL_9HQV_003 | 1/SE/29:35, 1/SE/46:50 | No text annotation | ||
| IL_9HQV_004 | 1/SF/8:38, 1/SF/61:68 | No text annotation | ||
| IL_9HQV_005 | 1/SF/39:45, 1/SF/52:60 | No text annotation | geometric IL_8P9A_404 IL_52042.1 | |
| IL_9HQV_006 | 1/SF/96:102, 1/SK/6:7 | No text annotation | ||
| IL_9HQV_007 | 1/SF/104:106, 1/SJ/28:30 | Isolated non-canonical cWW pair | geometric IL_3RW6_004 IL_01003.1 | |
| IL_9HQV_008 | 1/SF/106:112, 1/SJ/22:28 | No text annotation | ||
| IL_9HQV_009 | 1/SG/5:7, 1/SJ/11:13 | Isolated non-canonical cWW pair | geometric IL_4JGN_002 IL_01003.1 | |
| IL_9HQV_010 | 1/SG/9:11, 1/SJ/7:9 | No text annotation | geometric IL_4M4O_004 NA | |
| IL_9HQV_011 | 1/SG/20:22, 1/SI/32:34 | Isolated tWW contact | geometric IL_7MLW_006 NA | |
| IL_9HQV_012 | 1/SG/23:25, 1/SI/28:31 | No text annotation | geometric IL_6ZDU_001 NA | |
| IL_9HQV_013 | 1/SJ/36:37, 1/SJ/72:74 | Single bulged U | geometric IL_8P9A_314 IL_97561.1 | |
| IL_9HQV_014 | 1/SJ/37:44, 1/SJ/70:72 | No text annotation | ||
| IL_9HQV_015 | 1/SJ/44:49, 1/SJ/65:70 | No text annotation | geometric IL_2NPY_001 NA | |
| IL_9HQV_016 | 1/SK/11:23, 1/SK/29:42 | No text annotation | ||
| IL_9HQV_017 | 1/SK/52:53, 1/SR/12:14 | Single bulged A | geometric IL_5J7L_039 NA | |
| IL_9HQV_018 | 1/SK/55:57, 1/SR/9:10 | Single bulged G | geometric IL_4LFB_036 IL_28408.1 | |
| IL_9HQV_019 | 1/SK/59:63, 1/SR/4:7 | No text annotation | geometric IL_8CRE_111 NA | |
| IL_9HQV_022 | 1/SL/11:15, 1/SM/19:21 | Isolated cWS basepair | geometric IL_4LFB_044 IL_82453.1 | |
| IL_9HQV_023 | 1/SL/16:18, 1/SM/13:18 | No text annotation | ||
| IL_9HQV_024 | 1/SL/19:20, 1/SM/10:12 | Single bulged U | geometric IL_4LFB_046 IL_97561.1 | |
| IL_9HQV_025 | 1/SL/24:25, 1/SM/4:6 | Single bulged U | geometric IL_3TZR_002 NA | |
| IL_9HQV_029 | 1/SQ/30:32, 1/SQ/48:50 | Isolated non-canonical cWW pair | geometric IL_8CRE_130 NA | |
| IL_9HQV_030 | 1/SR/18:20, 1/SU/17:20 | No text annotation | geometric IL_8CRE_466 IL_18228.1 | |
| IL_9HQV_031 | 1/SR/20:23, 1/SU/13:17 | No text annotation | geometric IL_8CRE_467 IL_25873.1 | |
| IL_9HQV_032 | 1/SR/24:26, 1/SU/10:12 | Isolated non-canonical cWW pair | geometric IL_8P9A_454 IL_01003.1 | |
| IL_9HQV_033 | 1/SR/26:28, 1/SU/7:10 | No text annotation | geometric IL_6DME_003 IL_75527.1 | |
| IL_9HQV_034 | 1/SS/5:7, 1/ST/16:17 | Single bulged A | geometric IL_1I9X_001 NA | |
| IL_9HQV_035 | 1/SU/27:29, 1/SU/38:40 | Isolated non-canonical cWW pair | geometric IL_7QUA_003 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9HQV_020 | Isolated non-canonical cWW pair | ||
| IL_9HQV_021 | No text annotation | ||
| IL_9HQV_026 | Minor groove platform | ||
| IL_9HQV_027 | Triple sheared | ||
| IL_9HQV_028 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9HQV_001 | 1/SK/71:76, 1/SM/70:72, 1/SQ/16:21 | No text annotation | ||
| J3_9HQV_002 | 1/SK/82:85, 1/SM/37:44, 1/SM/57:64 | No text annotation | ||
| J3_9HQV_003 | 1/SK/85:92, 1/SK/103:114, 1/SM/35:37 | No text annotation | ||
| J4_9HQV_001 | 1/SB/431:439, 1/SC/5:8, 1/SD/13:15, 1/SD/40:41 | No text annotation |
Problematic loops
No problematic loops
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