3JCD Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_3JCD_001 | tRNA D-loop | ||
| HL_3JCD_002 | No text annotation | ||
| HL_3JCD_118 | tRNA anticodon loop | ||
| HL_3JCD_003 | T-loop with 2 stacked bulged bases | ||
| HL_3JCD_004 | tRNA D-loop | ||
| HL_3JCD_005 | No text annotation | ||
| HL_3JCD_006 | No text annotation | ||
| HL_3JCD_007 | No text annotation | ||
| HL_3JCD_008 | No text annotation | ||
| HL_3JCD_009 | No text annotation | ||
| HL_3JCD_010 | No text annotation | ||
| HL_3JCD_119 | No text annotation | ||
| HL_3JCD_011 | No text annotation | ||
| HL_3JCD_012 | No text annotation | ||
| HL_3JCD_013 | No text annotation | ||
| HL_3JCD_014 | No text annotation | ||
| HL_3JCD_015 | T-loop with 2 stacked bulged bases | ||
| HL_3JCD_016 | No text annotation | ||
| HL_3JCD_017 | T-loop with unstacked turn | ||
| HL_3JCD_018 | No text annotation | ||
| HL_3JCD_120 | No text annotation | ||
| HL_3JCD_019 | No text annotation | ||
| HL_3JCD_110 | Pseudoknot geometry | ||
| HL_3JCD_020 | GNRA | ||
| HL_3JCD_021 | GNRA | ||
| HL_3JCD_022 | No text annotation | ||
| HL_3JCD_023 | T-loop with 2 stacked bulged bases | ||
| HL_3JCD_024 | No text annotation | ||
| HL_3JCD_025 | GNRA | ||
| HL_3JCD_026 | No text annotation | ||
| HL_3JCD_027 | GNRA wlth tandem sheared | ||
| HL_3JCD_028 | No text annotation | ||
| HL_3JCD_029 | No text annotation | ||
| HL_3JCD_030 | No text annotation | ||
| HL_3JCD_031 | No text annotation | ||
| HL_3JCD_032 | GNRA | ||
| HL_3JCD_033 | No text annotation | ||
| HL_3JCD_034 | No text annotation | ||
| HL_3JCD_035 | GNRA wlth tandem sheared | ||
| HL_3JCD_036 | No text annotation | ||
| HL_3JCD_037 | GNRA | ||
| HL_3JCD_038 | T-loop with 2 stacked bulged bases | ||
| HL_3JCD_039 | Pseudoknot geometry with 3' bulge | ||
| HL_3JCD_040 | GNRA | ||
| HL_3JCD_041 | No text annotation | ||
| HL_3JCD_042 | Mini UNCG | ||
| HL_3JCD_043 | Pseudoknot geometry with 3' bulge | ||
| HL_3JCD_044 | No text annotation | ||
| HL_3JCD_121 | No text annotation | ||
| HL_3JCD_045 | No text annotation | ||
| HL_3JCD_046 | No text annotation | ||
| HL_3JCD_047 | GNRA | ||
| HL_3JCD_048 | UNCG | ||
| HL_3JCD_049 | No text annotation | ||
| HL_3JCD_050 | No text annotation | ||
| HL_3JCD_051 | No text annotation | ||
| HL_3JCD_052 | GNRA related | ||
| HL_3JCD_053 | GNRA variation | ||
| HL_3JCD_054 | No text annotation | ||
| HL_3JCD_055 | No text annotation | ||
| HL_3JCD_056 | No text annotation | ||
| HL_3JCD_057 | No text annotation | ||
| HL_3JCD_122 | No text annotation | ||
| HL_3JCD_058 | No text annotation | ||
| HL_3JCD_111 | No text annotation | ||
| HL_3JCD_059 | No text annotation | ||
| HL_3JCD_060 | No text annotation | ||
| HL_3JCD_061 | No text annotation | ||
| HL_3JCD_123 | No text annotation | ||
| HL_3JCD_062 | Pseudoknot geometry | ||
| HL_3JCD_063 | GNRA | ||
| HL_3JCD_064 | GNRA | ||
| HL_3JCD_065 | No text annotation | ||
| HL_3JCD_066 | No text annotation | ||
| HL_3JCD_067 | GNRA variation | ||
| HL_3JCD_068 | No text annotation | ||
| HL_3JCD_069 | GNRA | ||
| HL_3JCD_070 | GNRA | ||
| HL_3JCD_071 | Ribsomal LSU H95 | ||
| HL_3JCD_072 | No text annotation | ||
| HL_3JCD_073 | Mini UNCG | ||
| HL_3JCD_074 | No text annotation | ||
| HL_3JCD_075 | GNRA | ||
| HL_3JCD_076 | No text annotation | ||
| HL_3JCD_077 | Mini UNCG | ||
| HL_3JCD_078 | No text annotation | ||
| HL_3JCD_079 | No text annotation | ||
| HL_3JCD_080 | GNRA | ||
| HL_3JCD_081 | GNRA with extra cWW | ||
| HL_3JCD_124 | GNRA | ||
| HL_3JCD_082 | Mini UNCG | ||
| HL_3JCD_112 | tRNA D-loop | ||
| HL_3JCD_083 | GNRA related | ||
| HL_3JCD_084 | GNRA | ||
| HL_3JCD_085 | No text annotation | ||
| HL_3JCD_086 | UNCG | ||
| HL_3JCD_113 | tRNA anticodon loop | ||
| HL_3JCD_087 | GNRA | ||
| HL_3JCD_088 | UNCG | ||
| HL_3JCD_114 | No text annotation | ||
| HL_3JCD_089 | No text annotation | ||
| HL_3JCD_125 | No text annotation | ||
| HL_3JCD_090 | No text annotation | ||
| HL_3JCD_115 | No text annotation | ||
| HL_3JCD_091 | GNRA-like with tWH | ||
| HL_3JCD_092 | No text annotation | ||
| HL_3JCD_093 | GNRA | ||
| HL_3JCD_094 | No text annotation | ||
| HL_3JCD_116 | No text annotation | ||
| HL_3JCD_095 | No text annotation | ||
| HL_3JCD_096 | GNRA | ||
| HL_3JCD_117 | GNRA with extra near cWW | ||
| HL_3JCD_097 | GNRA | ||
| HL_3JCD_098 | No text annotation | ||
| HL_3JCD_099 | GNRA | ||
| HL_3JCD_100 | No text annotation | ||
| HL_3JCD_126 | No text annotation | ||
| HL_3JCD_101 | GNRA | ||
| HL_3JCD_102 | T-loop related | ||
| HL_3JCD_103 | No text annotation | ||
| HL_3JCD_104 | No text annotation | ||
| HL_3JCD_127 | GNRA | ||
| HL_3JCD_105 | GNRA | ||
| HL_3JCD_106 | T-loop with 3 stacked bulged bases | ||
| HL_3JCD_107 | No text annotation | ||
| HL_3JCD_128 | No text annotation | ||
| HL_3JCD_108 | UNCG | ||
| HL_3JCD_109 | GNRA |
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_3JCD_001 | Triple sheared with non-canonical cWW | ||
| IL_3JCD_169 | Isolated non-canonical cWW pair | ||
| IL_3JCD_002 | Single bulged A | ||
| IL_3JCD_003 | No text annotation | ||
| IL_3JCD_004 | Single stack bend | ||
| IL_3JCD_005 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_3JCD_006 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_3JCD_196 | No text annotation | ||
| IL_3JCD_007 | No text annotation | ||
| IL_3JCD_008 | No text annotation | ||
| IL_3JCD_009 | No text annotation | ||
| IL_3JCD_010 | No text annotation | ||
| IL_3JCD_011 | Double sheared | ||
| IL_3JCD_012 | Isolated non-canonical cWW pair | ||
| IL_3JCD_013 | AAA cross-strand stack | ||
| IL_3JCD_014 | Isolated non-canonical cWW pair | ||
| IL_3JCD_015 | tHW-tHW cross-strand stack | ||
| IL_3JCD_016 | Single bulged A | ||
| IL_3JCD_017 | Single bulged G | ||
| IL_3JCD_018 | Triple sheared | ||
| IL_3JCD_019 | Major groove platform | ||
| IL_3JCD_020 | Multiple bulged bases | ||
| IL_3JCD_021 | Single stack bend | ||
| IL_3JCD_022 | 90 degree turn | ||
| IL_3JCD_170 | No text annotation | ||
| IL_3JCD_023 | Stack outside cWW | ||
| IL_3JCD_024 | No text annotation | ||
| IL_3JCD_171 | Single stack bend | ||
| IL_3JCD_025 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_3JCD_026 | Single bulged G | ||
| IL_3JCD_172 | C-loop with bulged stacked A's | ||
| IL_3JCD_027 | C-loop with extra cWW pair | ||
| IL_3JCD_197 | Isolated non-canonical cWW pair | ||
| IL_3JCD_028 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_029 | Single bulged C | ||
| IL_3JCD_030 | UAA/GAN | ||
| IL_3JCD_031 | No text annotation | ||
| IL_3JCD_173 | No text annotation | ||
| IL_3JCD_198 | No text annotation | ||
| IL_3JCD_032 | Single bulged U | ||
| IL_3JCD_033 | Kink-turn related | ||
| IL_3JCD_034 | No text annotation | ||
| IL_3JCD_035 | Isolated non-canonical cWW pair | ||
| IL_3JCD_036 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_037 | Kink-turn | ||
| IL_3JCD_038 | No text annotation | ||
| IL_3JCD_174 | No text annotation | ||
| IL_3JCD_039 | No text annotation | ||
| IL_3JCD_040 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_199 | No text annotation | ||
| IL_3JCD_041 | No text annotation | ||
| IL_3JCD_042 | Kink-turn | ||
| IL_3JCD_043 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_3JCD_200 | Major groove platform; stack outside cWW | ||
| IL_3JCD_044 | C-loop | ||
| IL_3JCD_045 | UAA/GAN | ||
| IL_3JCD_046 | tSH-tHW-tHS | ||
| IL_3JCD_047 | Isolated non-canonical cWW pair | ||
| IL_3JCD_048 | No text annotation | ||
| IL_3JCD_049 | UAA/GAN | ||
| IL_3JCD_050 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_201 | tSH-tHW | ||
| IL_3JCD_051 | No text annotation | ||
| IL_3JCD_052 | Single bulged U | ||
| IL_3JCD_053 | No text annotation | ||
| IL_3JCD_054 | No text annotation | ||
| IL_3JCD_055 | No text annotation | ||
| IL_3JCD_202 | 180 degree turn | ||
| IL_3JCD_175 | No text annotation | ||
| IL_3JCD_056 | Single bulged A | ||
| IL_3JCD_057 | UAA/GAN variation | ||
| IL_3JCD_058 | No text annotation | ||
| IL_3JCD_059 | Isolated tWW turn | ||
| IL_3JCD_060 | Major groove platform; stack outside cWW | ||
| IL_3JCD_176 | No text annotation | ||
| IL_3JCD_061 | Intercalated tWH | ||
| IL_3JCD_062 | tSH-tSH-tHH-tHS | ||
| IL_3JCD_063 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_3JCD_203 | Triple sheared | ||
| IL_3JCD_064 | Triple sheared with non-canonical cWW | ||
| IL_3JCD_065 | Single bulged C | ||
| IL_3JCD_066 | Single bulged A | ||
| IL_3JCD_067 | Kink-turn related | ||
| IL_3JCD_068 | Minor groove platform, major groove intercalation | ||
| IL_3JCD_177 | No text annotation | ||
| IL_3JCD_069 | No text annotation | ||
| IL_3JCD_070 | Minor groove platform | ||
| IL_3JCD_178 | No text annotation | ||
| IL_3JCD_071 | Triple sheared related | ||
| IL_3JCD_072 | Bulged stacked bases | ||
| IL_3JCD_204 | No text annotation | ||
| IL_3JCD_073 | No text annotation | ||
| IL_3JCD_074 | No text annotation | ||
| IL_3JCD_075 | No text annotation | ||
| IL_3JCD_076 | Single bulged U | ||
| IL_3JCD_179 | No text annotation | ||
| IL_3JCD_077 | Minor groove platform | ||
| IL_3JCD_078 | Isolated tHS basepair with bulges | ||
| IL_3JCD_079 | No text annotation | ||
| IL_3JCD_080 | Single stack bend | ||
| IL_3JCD_081 | Single stack bend | ||
| IL_3JCD_082 | No text annotation | ||
| IL_3JCD_083 | No text annotation | ||
| IL_3JCD_084 | Single bulged U | ||
| IL_3JCD_085 | Double sheared | ||
| IL_3JCD_086 | No text annotation | ||
| IL_3JCD_205 | Single stack bend | ||
| IL_3JCD_087 | Major groove platform | ||
| IL_3JCD_088 | Major groove platform | ||
| IL_3JCD_089 | Major groove minor groove platform with extra cWW | ||
| IL_3JCD_090 | Double sheared with non-canonical cWW | ||
| IL_3JCD_091 | Major groove platform | ||
| IL_3JCD_092 | Isolated non-canonical cWW with bulges | ||
| IL_3JCD_206 | No text annotation | ||
| IL_3JCD_093 | No text annotation | ||
| IL_3JCD_094 | Major groove platform with intercalation | ||
| IL_3JCD_095 | Single bulged A | ||
| IL_3JCD_096 | tSH-tHS-tHW | ||
| IL_3JCD_097 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_3JCD_180 | No text annotation | ||
| IL_3JCD_098 | No text annotation | ||
| IL_3JCD_207 | C-loop | ||
| IL_3JCD_099 | UAA/GAN related, with intercalation | ||
| IL_3JCD_100 | Multiple bulged bases | ||
| IL_3JCD_101 | UAA/GAN with extra cWW | ||
| IL_3JCD_102 | Single bulged A | ||
| IL_3JCD_103 | No text annotation | ||
| IL_3JCD_104 | Major groove intercalation | ||
| IL_3JCD_105 | Multiple bulged bases with non-canonical cWW | ||
| IL_3JCD_106 | tHS double platform | ||
| IL_3JCD_107 | Major groove intercalation | ||
| IL_3JCD_108 | No text annotation | ||
| IL_3JCD_109 | Major groove minor groove platform; mini C-loop | ||
| IL_3JCD_110 | Symmetric double minor groove platform | ||
| IL_3JCD_111 | Bacterial 5S Loop E | ||
| IL_3JCD_112 | Single bulged G | ||
| IL_3JCD_181 | Single bulged A | ||
| IL_3JCD_113 | No text annotation | ||
| IL_3JCD_182 | No text annotation | ||
| IL_3JCD_114 | Minor groove platform | ||
| IL_3JCD_183 | No text annotation | ||
| IL_3JCD_115 | Multiple bulged bases | ||
| IL_3JCD_116 | No text annotation | ||
| IL_3JCD_208 | Isolated non-canonical cWW pair | ||
| IL_3JCD_117 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_118 | Minor groove platform related | ||
| IL_3JCD_119 | Isolated cWH basepair | ||
| IL_3JCD_120 | tWH-tWH-tHW-tHW | ||
| IL_3JCD_184 | No text annotation | ||
| IL_3JCD_121 | Minor groove platform | ||
| IL_3JCD_122 | No text annotation | ||
| IL_3JCD_185 | No text annotation | ||
| IL_3JCD_209 | No text annotation | ||
| IL_3JCD_123 | No text annotation | ||
| IL_3JCD_124 | No text annotation | ||
| IL_3JCD_186 | C-loop | ||
| IL_3JCD_210 | Single bulged U | ||
| IL_3JCD_125 | C-loop | ||
| IL_3JCD_126 | Single bulged G | ||
| IL_3JCD_127 | No text annotation | ||
| IL_3JCD_187 | No text annotation | ||
| IL_3JCD_128 | No text annotation | ||
| IL_3JCD_129 | tSH-tHW-tWW | ||
| IL_3JCD_130 | No text annotation | ||
| IL_3JCD_211 | No text annotation | ||
| IL_3JCD_131 | SSU/LSU pseudoknot | ||
| IL_3JCD_132 | Kink-turn related | ||
| IL_3JCD_133 | No text annotation | ||
| IL_3JCD_134 | tSH-tHW-tHS | ||
| IL_3JCD_135 | Major groove platform | ||
| IL_3JCD_136 | No text annotation | ||
| IL_3JCD_188 | tSH-tHW-tHH-tHS | ||
| IL_3JCD_212 | No text annotation | ||
| IL_3JCD_137 | No text annotation | ||
| IL_3JCD_138 | Major groove platform; stack outside cWW | ||
| IL_3JCD_139 | Single stack bend | ||
| IL_3JCD_140 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_189 | No text annotation | ||
| IL_3JCD_141 | Kink-turn | ||
| IL_3JCD_190 | No text annotation | ||
| IL_3JCD_142 | Left turn | ||
| IL_3JCD_143 | tSH-tHW-tHS | ||
| IL_3JCD_213 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_3JCD_144 | 9x7 Sarcin-Ricin with inserted C; G-bulge | ||
| IL_3JCD_145 | Isolated non-canonical cWW pair | ||
| IL_3JCD_146 | Single bulged G | ||
| IL_3JCD_147 | Minor groove platform | ||
| IL_3JCD_148 | No text annotation | ||
| IL_3JCD_191 | Isolated non-canonical cWW with bulges | ||
| IL_3JCD_149 | No text annotation | ||
| IL_3JCD_192 | No text annotation | ||
| IL_3JCD_150 | Single bulged U | ||
| IL_3JCD_151 | Isolated cWS basepair | ||
| IL_3JCD_193 | Minor groove platform | ||
| IL_3JCD_152 | No text annotation | ||
| IL_3JCD_153 | No text annotation | ||
| IL_3JCD_154 | Minor groove platform | ||
| IL_3JCD_155 | No text annotation | ||
| IL_3JCD_156 | No text annotation | ||
| IL_3JCD_157 | 180 degree turn | ||
| IL_3JCD_158 | Double sheared with non-canonical cWW | ||
| IL_3JCD_159 | No text annotation | ||
| IL_3JCD_160 | No text annotation | ||
| IL_3JCD_161 | No text annotation | ||
| IL_3JCD_162 | Isolated non-canonical cWW pair | ||
| IL_3JCD_163 | Not an internal loop | ||
| IL_3JCD_164 | Isolated non-canonical cWW pair | ||
| IL_3JCD_194 | Tandem non-canonical cWW pairs | ||
| IL_3JCD_165 | Double sheared | ||
| IL_3JCD_166 | Triple sheared related | ||
| IL_3JCD_167 | Single bulged A | ||
| IL_3JCD_168 | No text annotation | ||
| IL_3JCD_195 | No text annotation |
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_3JCD_001 | No text annotation | ||
| J3_3JCD_027 | No text annotation | ||
| J3_3JCD_028 | No text annotation | ||
| J3_3JCD_002 | No text annotation | ||
| J3_3JCD_045 | No text annotation | ||
| J3_3JCD_003 | No text annotation | ||
| J3_3JCD_029 | No text annotation | ||
| J3_3JCD_030 | No text annotation | ||
| J3_3JCD_046 | No text annotation | ||
| J3_3JCD_004 | No text annotation | ||
| J3_3JCD_005 | No text annotation | ||
| J3_3JCD_047 | No text annotation | ||
| J3_3JCD_031 | No text annotation | ||
| J3_3JCD_006 | No text annotation | ||
| J3_3JCD_007 | No text annotation | ||
| J3_3JCD_008 | No text annotation | ||
| J3_3JCD_048 | No text annotation | ||
| J3_3JCD_032 | No text annotation | ||
| J3_3JCD_009 | Kink-turn 3-way junction | ||
| J3_3JCD_010 | No text annotation | ||
| J3_3JCD_011 | No text annotation | ||
| J3_3JCD_012 | No text annotation | ||
| J3_3JCD_013 | No text annotation | ||
| J3_3JCD_014 | No text annotation | ||
| J3_3JCD_015 | No text annotation | ||
| J3_3JCD_016 | No text annotation | ||
| J3_3JCD_049 | No text annotation | ||
| J3_3JCD_033 | No text annotation | ||
| J3_3JCD_050 | No text annotation | ||
| J3_3JCD_034 | No text annotation | ||
| J3_3JCD_051 | No text annotation | ||
| J3_3JCD_017 | No text annotation | ||
| J3_3JCD_052 | No text annotation | ||
| J3_3JCD_035 | No text annotation | ||
| J3_3JCD_036 | No text annotation | ||
| J3_3JCD_053 | No text annotation | ||
| J3_3JCD_037 | No text annotation | ||
| J3_3JCD_018 | No text annotation | ||
| J3_3JCD_038 | No text annotation | ||
| J3_3JCD_019 | No text annotation | ||
| J3_3JCD_039 | No text annotation | ||
| J3_3JCD_020 | No text annotation | ||
| J3_3JCD_021 | No text annotation | ||
| J3_3JCD_040 | No text annotation | ||
| J3_3JCD_022 | No text annotation | ||
| J3_3JCD_041 | No text annotation | ||
| J3_3JCD_042 | No text annotation | ||
| J3_3JCD_023 | No text annotation | ||
| J3_3JCD_043 | No text annotation | ||
| J3_3JCD_054 | No text annotation | ||
| J3_3JCD_024 | No text annotation | ||
| J3_3JCD_055 | No text annotation | ||
| J3_3JCD_025 | No text annotation | ||
| J3_3JCD_056 | No text annotation | ||
| J3_3JCD_044 | No text annotation | ||
| J3_3JCD_026 | No text annotation | ||
| J4_3JCD_001 | tRNA junction | ||
| J4_3JCD_016 | No text annotation | ||
| J4_3JCD_002 | No text annotation | ||
| J4_3JCD_003 | No text annotation | ||
| J4_3JCD_004 | No text annotation | ||
| J4_3JCD_005 | No text annotation | ||
| J4_3JCD_006 | No text annotation | ||
| J4_3JCD_017 | No text annotation | ||
| J4_3JCD_007 | No text annotation | ||
| J4_3JCD_018 | No text annotation | ||
| J4_3JCD_019 | No text annotation | ||
| J4_3JCD_008 | No text annotation | ||
| J4_3JCD_009 | No text annotation | ||
| J4_3JCD_010 | No text annotation | ||
| J4_3JCD_020 | No text annotation | ||
| J4_3JCD_011 | No text annotation | ||
| J4_3JCD_012 | No text annotation | ||
| J4_3JCD_013 | No text annotation | ||
| J4_3JCD_021 | No text annotation | ||
| J4_3JCD_014 | No text annotation | ||
| J4_3JCD_022 | No text annotation | ||
| J4_3JCD_015 | No text annotation | ||
| J5_3JCD_009 | No text annotation | ||
| J5_3JCD_001 | No text annotation | ||
| J5_3JCD_002 | No text annotation | ||
| J5_3JCD_003 | No text annotation | ||
| J5_3JCD_004 | No text annotation | ||
| J5_3JCD_005 | No text annotation | ||
| J5_3JCD_010 | No text annotation | ||
| J5_3JCD_006 | No text annotation | ||
| J5_3JCD_011 | No text annotation | ||
| J5_3JCD_007 | No text annotation | ||
| J5_3JCD_008 | No text annotation | ||
| J6_3JCD_001 | No text annotation | ||
| J6_3JCD_003 | No text annotation | ||
| J6_3JCD_004 | No text annotation | ||
| J6_3JCD_002 | No text annotation | ||
| J7_3JCD_001 | No text annotation | ||
| J7_3JCD_002 | No text annotation |
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