8VL1 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8VL1_089 | 1/a/2528:2535 | GNRA variation | geometric HL_5J7L_194 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8VL1_001 | No text annotation | ||
| HL_8VL1_002 | No text annotation | ||
| HL_8VL1_003 | T-loop with 2 stacked bulged bases | ||
| HL_8VL1_004 | No text annotation | ||
| HL_8VL1_005 | No text annotation | ||
| HL_8VL1_006 | T-loop with 2 stacked bulged bases | ||
| HL_8VL1_007 | No text annotation | ||
| HL_8VL1_008 | No text annotation | ||
| HL_8VL1_009 | GNRA | ||
| HL_8VL1_010 | GNRA | ||
| HL_8VL1_011 | No text annotation | ||
| HL_8VL1_012 | GNRA related | ||
| HL_8VL1_013 | GNRA | ||
| HL_8VL1_014 | No text annotation | ||
| HL_8VL1_015 | UNCG | ||
| HL_8VL1_016 | GNRA | ||
| HL_8VL1_017 | UNCG | ||
| HL_8VL1_018 | GNRA wlth extra near cWW | ||
| HL_8VL1_019 | GNRA-like with tWH | ||
| HL_8VL1_020 | No text annotation | ||
| HL_8VL1_021 | GNRA | ||
| HL_8VL1_022 | No text annotation | ||
| HL_8VL1_023 | No text annotation | ||
| HL_8VL1_024 | GNRA | ||
| HL_8VL1_025 | GNRA | ||
| HL_8VL1_026 | GNRA | ||
| HL_8VL1_027 | GNRA | ||
| HL_8VL1_028 | T-loop related | ||
| HL_8VL1_029 | No text annotation | ||
| HL_8VL1_030 | GNRA | ||
| HL_8VL1_031 | GNRA | ||
| HL_8VL1_032 | T-loop with 3 stacked bulged bases | ||
| HL_8VL1_033 | No text annotation | ||
| HL_8VL1_034 | UNCG | ||
| HL_8VL1_035 | No text annotation | ||
| HL_8VL1_036 | No text annotation | ||
| HL_8VL1_037 | No text annotation | ||
| HL_8VL1_038 | UNCG | ||
| HL_8VL1_039 | No text annotation | ||
| HL_8VL1_040 | No text annotation | ||
| HL_8VL1_041 | No text annotation | ||
| HL_8VL1_042 | No text annotation | ||
| HL_8VL1_043 | T-loop with 2 stacked bulged bases | ||
| HL_8VL1_044 | No text annotation | ||
| HL_8VL1_045 | T-loop with unstacked turn | ||
| HL_8VL1_046 | No text annotation | ||
| HL_8VL1_047 | Pseudoknot geometry | ||
| HL_8VL1_048 | GNRA | ||
| HL_8VL1_049 | GNRA | ||
| HL_8VL1_050 | No text annotation | ||
| HL_8VL1_051 | T-loop with 2 stacked bulged bases | ||
| HL_8VL1_052 | No text annotation | ||
| HL_8VL1_053 | GNRA | ||
| HL_8VL1_054 | No text annotation | ||
| HL_8VL1_055 | GNRA wlth tandem sheared | ||
| HL_8VL1_056 | No text annotation | ||
| HL_8VL1_057 | No text annotation | ||
| HL_8VL1_058 | No text annotation | ||
| HL_8VL1_059 | No text annotation | ||
| HL_8VL1_060 | No text annotation | ||
| HL_8VL1_061 | GNRA wlth tandem sheared | ||
| HL_8VL1_062 | No text annotation | ||
| HL_8VL1_063 | GNRA | ||
| HL_8VL1_064 | T-loop with 2 stacked bulged bases | ||
| HL_8VL1_065 | Pseudoknot geometry with 3' bulge | ||
| HL_8VL1_066 | GNRA | ||
| HL_8VL1_067 | No text annotation | ||
| HL_8VL1_068 | Mini UNCG with extended bulge | ||
| HL_8VL1_069 | Pseudoknot geometry with 3' bulge | ||
| HL_8VL1_070 | UNCG | ||
| HL_8VL1_071 | Mini UNCG | ||
| HL_8VL1_072 | GNRA | ||
| HL_8VL1_073 | UNCG | ||
| HL_8VL1_074 | No text annotation | ||
| HL_8VL1_075 | No text annotation | ||
| HL_8VL1_076 | No text annotation | ||
| HL_8VL1_077 | GNRA related | ||
| HL_8VL1_078 | GNRA variation | ||
| HL_8VL1_079 | No text annotation | ||
| HL_8VL1_080 | UNCG | ||
| HL_8VL1_081 | No text annotation | ||
| HL_8VL1_082 | No text annotation | ||
| HL_8VL1_083 | No text annotation | ||
| HL_8VL1_084 | Pseudoknot geometry | ||
| HL_8VL1_085 | GNRA | ||
| HL_8VL1_086 | GNRA | ||
| HL_8VL1_087 | No text annotation | ||
| HL_8VL1_088 | No text annotation | ||
| HL_8VL1_090 | GNRA | ||
| HL_8VL1_091 | GNRA | ||
| HL_8VL1_092 | Ribsomal LSU H95 | ||
| HL_8VL1_093 | No text annotation | ||
| HL_8VL1_094 | UNCG variation | ||
| HL_8VL1_095 | No text annotation | ||
| HL_8VL1_096 | GNRA | ||
| HL_8VL1_097 | No text annotation | ||
| HL_8VL1_098 | No text annotation | ||
| HL_8VL1_099 | Mini UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8VL1_001 | 1/D/30:32, 1/D/552:553 | Single bulged G | geometric IL_5J7L_001 NA | |
| IL_8VL1_082 | 1/a/775:777, 1/a/787:791 | Multiple bulged bases | geometric IL_5J7L_265 NA | |
| IL_8VL1_141 | 1/a/2054:2056, 1/a/2612:2615 | No text annotation | geometric IL_5J7L_321 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8VL1_002 | Single bulged A | ||
| IL_8VL1_003 | No text annotation | ||
| IL_8VL1_004 | Minor groove platform | ||
| IL_8VL1_005 | Multiple bulged bases | ||
| IL_8VL1_006 | Minor groove platform with extra cWW | ||
| IL_8VL1_007 | Minor groove platform | ||
| IL_8VL1_008 | Single bulged G | ||
| IL_8VL1_009 | Isolated non-canonical cWW pair | ||
| IL_8VL1_010 | Minor groove platform related | ||
| IL_8VL1_011 | Isolated cWH basepair | ||
| IL_8VL1_012 | tWH-tWH-tHW-tHW | ||
| IL_8VL1_013 | Kink-turn with non-sequential stacking | ||
| IL_8VL1_014 | No text annotation | ||
| IL_8VL1_015 | C-loop | ||
| IL_8VL1_016 | Single bulged U | ||
| IL_8VL1_017 | C-loop | ||
| IL_8VL1_018 | Single bulged G | ||
| IL_8VL1_019 | No text annotation | ||
| IL_8VL1_020 | No text annotation | ||
| IL_8VL1_021 | tSH-tHW-tWW | ||
| IL_8VL1_022 | No text annotation | ||
| IL_8VL1_023 | SSU/LSU pseudoknot | ||
| IL_8VL1_024 | No text annotation | ||
| IL_8VL1_025 | tSH-tHW-tHS | ||
| IL_8VL1_026 | Major groove platform | ||
| IL_8VL1_027 | Major groove minor groove platform; mini C-loop | ||
| IL_8VL1_028 | No text annotation | ||
| IL_8VL1_029 | Major groove platform; stack outside cWW | ||
| IL_8VL1_030 | Single stack bend | ||
| IL_8VL1_031 | Tandem non-canonical cWW pairs | ||
| IL_8VL1_032 | Triple non-canonical cWW pairs | ||
| IL_8VL1_033 | Kink-turn | ||
| IL_8VL1_034 | Left turn | ||
| IL_8VL1_035 | tSH-tHW-tHS | ||
| IL_8VL1_036 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_8VL1_037 | Single bulged A | ||
| IL_8VL1_038 | Single bulged G | ||
| IL_8VL1_039 | Minor groove platform | ||
| IL_8VL1_040 | Minor groove platform | ||
| IL_8VL1_041 | Minor groove platform | ||
| IL_8VL1_042 | Single stack bend | ||
| IL_8VL1_043 | No text annotation | ||
| IL_8VL1_044 | Single bulged U | ||
| IL_8VL1_045 | Isolated cWS basepair | ||
| IL_8VL1_046 | Minor groove platform | ||
| IL_8VL1_047 | Single bulged A | ||
| IL_8VL1_048 | Isolated non-canonical cWW pair | ||
| IL_8VL1_049 | No text annotation | ||
| IL_8VL1_050 | Minor groove platform | ||
| IL_8VL1_051 | No text annotation | ||
| IL_8VL1_052 | No text annotation | ||
| IL_8VL1_053 | 180 degree turn | ||
| IL_8VL1_054 | Double sheared with non-canonical cWW | ||
| IL_8VL1_055 | No text annotation | ||
| IL_8VL1_056 | No text annotation | ||
| IL_8VL1_057 | Isolated non-canonical cWW pair | ||
| IL_8VL1_058 | Double sheared | ||
| IL_8VL1_059 | Triple sheared related | ||
| IL_8VL1_060 | Single bulged A | ||
| IL_8VL1_061 | No text annotation | ||
| IL_8VL1_062 | Triple sheared with non-canonical cWW | ||
| IL_8VL1_063 | Single bulged A | ||
| IL_8VL1_064 | Minor groove platform | ||
| IL_8VL1_065 | No text annotation | ||
| IL_8VL1_066 | Single stack bend | ||
| IL_8VL1_067 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_8VL1_068 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_8VL1_069 | No text annotation | ||
| IL_8VL1_070 | No text annotation | ||
| IL_8VL1_071 | No text annotation | ||
| IL_8VL1_072 | No text annotation | ||
| IL_8VL1_073 | Double sheared | ||
| IL_8VL1_074 | Isolated non-canonical cWW pair | ||
| IL_8VL1_075 | AAA cross-strand stack | ||
| IL_8VL1_076 | Isolated non-canonical cWW pair | ||
| IL_8VL1_077 | tHW-tHW cross-strand stack | ||
| IL_8VL1_078 | Single bulged A | ||
| IL_8VL1_079 | Single bulged G | ||
| IL_8VL1_080 | Triple sheared | ||
| IL_8VL1_081 | Major groove platform | ||
| IL_8VL1_083 | 90 degree turn | ||
| IL_8VL1_084 | No text annotation | ||
| IL_8VL1_085 | Stack outside cWW | ||
| IL_8VL1_086 | Single stack bend | ||
| IL_8VL1_087 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_8VL1_088 | Single bulged G | ||
| IL_8VL1_089 | C-loop with bulged stacked A's | ||
| IL_8VL1_090 | Isolated non-canonical cWW pair | ||
| IL_8VL1_091 | Double sheared with non-canonical cWW | ||
| IL_8VL1_092 | Single bulged A | ||
| IL_8VL1_093 | Single bulged C | ||
| IL_8VL1_094 | UAA/GAN | ||
| IL_8VL1_095 | SSU/LSU pseudoknot | ||
| IL_8VL1_096 | Single bulged U | ||
| IL_8VL1_097 | Kink-turn related | ||
| IL_8VL1_098 | No text annotation | ||
| IL_8VL1_099 | Isolated non-canonical cWW pair | ||
| IL_8VL1_100 | Tandem non-canonical cWW pairs | ||
| IL_8VL1_101 | No text annotation | ||
| IL_8VL1_102 | No text annotation | ||
| IL_8VL1_103 | Major groove platform | ||
| IL_8VL1_104 | Isolated cWS basepair | ||
| IL_8VL1_105 | No text annotation | ||
| IL_8VL1_106 | Kink-turn | ||
| IL_8VL1_107 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_8VL1_108 | Major groove platform; stack outside cWW | ||
| IL_8VL1_109 | C-loop | ||
| IL_8VL1_110 | UAA/GAN | ||
| IL_8VL1_111 | tSH-tHW-tHS | ||
| IL_8VL1_112 | Single stack bend | ||
| IL_8VL1_113 | Single stack bend | ||
| IL_8VL1_114 | No text annotation | ||
| IL_8VL1_115 | UAA/GAN | ||
| IL_8VL1_116 | Tandem non-canonical cWW pairs | ||
| IL_8VL1_117 | tSH-tHW | ||
| IL_8VL1_118 | Single bulged U | ||
| IL_8VL1_119 | No text annotation | ||
| IL_8VL1_120 | tSH-tHW-tHS | ||
| IL_8VL1_121 | 180 degree turn | ||
| IL_8VL1_122 | Single bulged A | ||
| IL_8VL1_123 | UAA/GAN variation | ||
| IL_8VL1_124 | No text annotation | ||
| IL_8VL1_125 | Isolated tWW turn | ||
| IL_8VL1_126 | Major groove platform; stack outside cWW | ||
| IL_8VL1_127 | No text annotation | ||
| IL_8VL1_128 | Intercalated tWH | ||
| IL_8VL1_129 | tSH-tSH-tHH-tHS | ||
| IL_8VL1_130 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_8VL1_131 | Triple sheared | ||
| IL_8VL1_132 | Single bulged A | ||
| IL_8VL1_133 | Kink-turn related | ||
| IL_8VL1_134 | Minor groove platform, major groove intercalation | ||
| IL_8VL1_135 | Major groove intercalation | ||
| IL_8VL1_136 | Major groove minor groove platform; mini C-loop | ||
| IL_8VL1_137 | No text annotation | ||
| IL_8VL1_138 | UAA/GAN related | ||
| IL_8VL1_139 | Bulged stacked bases | ||
| IL_8VL1_140 | Major groove platform | ||
| IL_8VL1_142 | Minor groove platform | ||
| IL_8VL1_143 | Isolated tHS basepair with bulges | ||
| IL_8VL1_144 | Isolated non-canonical cWW pair | ||
| IL_8VL1_145 | Isolated non-canonical cWW pair | ||
| IL_8VL1_146 | Isolated non-canonical cWW pair | ||
| IL_8VL1_147 | No text annotation | ||
| IL_8VL1_148 | No text annotation | ||
| IL_8VL1_149 | Kink-turn | ||
| IL_8VL1_150 | Single bulged U | ||
| IL_8VL1_151 | Double sheared | ||
| IL_8VL1_152 | No text annotation | ||
| IL_8VL1_153 | Major groove minor groove platform with extra cWW | ||
| IL_8VL1_154 | Double sheared with non-canonical cWW | ||
| IL_8VL1_155 | Isolated non-canonical cWW with bulges | ||
| IL_8VL1_156 | No text annotation | ||
| IL_8VL1_157 | Major groove platform with intercalation | ||
| IL_8VL1_158 | Single bulged A | ||
| IL_8VL1_159 | tSH-tHS-tHW | ||
| IL_8VL1_160 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_8VL1_161 | C-loop | ||
| IL_8VL1_162 | UAA/GAN related, with intercalation | ||
| IL_8VL1_163 | Multiple bulged bases | ||
| IL_8VL1_164 | UAA/GAN with extra cWW | ||
| IL_8VL1_165 | No text annotation | ||
| IL_8VL1_166 | Major groove intercalation | ||
| IL_8VL1_167 | Multiple bulged bases with non-canonical cWW | ||
| IL_8VL1_168 | tHS double platform | ||
| IL_8VL1_169 | Major groove intercalation | ||
| IL_8VL1_170 | No text annotation | ||
| IL_8VL1_171 | Major groove minor groove platform; mini C-loop | ||
| IL_8VL1_172 | Symmetric double minor groove platform | ||
| IL_8VL1_173 | Bacterial 5S Loop E |
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8VL1_001 | No text annotation | ||
| J3_8VL1_002 | No text annotation | ||
| J3_8VL1_003 | No text annotation | ||
| J3_8VL1_004 | No text annotation | ||
| J3_8VL1_005 | No text annotation | ||
| J3_8VL1_006 | No text annotation | ||
| J3_8VL1_007 | No text annotation | ||
| J3_8VL1_008 | No text annotation | ||
| J3_8VL1_009 | No text annotation | ||
| J3_8VL1_010 | No text annotation | ||
| J3_8VL1_011 | No text annotation | ||
| J3_8VL1_012 | No text annotation | ||
| J3_8VL1_013 | No text annotation | ||
| J3_8VL1_014 | No text annotation | ||
| J3_8VL1_015 | No text annotation | ||
| J3_8VL1_016 | No text annotation | ||
| J3_8VL1_017 | No text annotation | ||
| J3_8VL1_018 | No text annotation | ||
| J3_8VL1_019 | No text annotation | ||
| J3_8VL1_020 | No text annotation | ||
| J3_8VL1_021 | No text annotation | ||
| J3_8VL1_022 | No text annotation | ||
| J3_8VL1_023 | No text annotation | ||
| J3_8VL1_024 | No text annotation | ||
| J3_8VL1_025 | No text annotation | ||
| J3_8VL1_026 | No text annotation | ||
| J3_8VL1_027 | No text annotation | ||
| J3_8VL1_028 | No text annotation | ||
| J3_8VL1_029 | Kink-turn 3-way junction | ||
| J3_8VL1_030 | No text annotation | ||
| J3_8VL1_031 | No text annotation | ||
| J3_8VL1_032 | No text annotation | ||
| J3_8VL1_033 | No text annotation | ||
| J3_8VL1_034 | No text annotation | ||
| J3_8VL1_035 | No text annotation | ||
| J4_8VL1_001 | No text annotation | ||
| J4_8VL1_002 | No text annotation | ||
| J4_8VL1_003 | No text annotation | ||
| J4_8VL1_004 | No text annotation | ||
| J4_8VL1_005 | No text annotation | ||
| J4_8VL1_006 | No text annotation | ||
| J4_8VL1_007 | No text annotation | ||
| J4_8VL1_008 | No text annotation | ||
| J4_8VL1_009 | No text annotation | ||
| J4_8VL1_010 | No text annotation | ||
| J4_8VL1_011 | No text annotation | ||
| J4_8VL1_012 | No text annotation | ||
| J4_8VL1_013 | No text annotation | ||
| J4_8VL1_014 | No text annotation | ||
| J4_8VL1_015 | No text annotation | ||
| J5_8VL1_001 | No text annotation | ||
| J5_8VL1_002 | No text annotation | ||
| J5_8VL1_003 | No text annotation | ||
| J5_8VL1_004 | No text annotation | ||
| J5_8VL1_005 | No text annotation | ||
| J5_8VL1_006 | No text annotation | ||
| J5_8VL1_007 | No text annotation | ||
| J6_8VL1_001 | No text annotation | ||
| J7_8VL1_001 | No text annotation | ||
| J7_8VL1_002 | No text annotation |
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