6X6T Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6X6T_001 | No text annotation | ||
| HL_6X6T_002 | tRNA anticodon loop | ||
| HL_6X6T_003 | T-loop with 2 stacked bulged bases | ||
| HL_6X6T_004 | No text annotation | ||
| HL_6X6T_005 | No text annotation | ||
| HL_6X6T_006 | T-loop with 2 stacked bulged bases | ||
| HL_6X6T_007 | No text annotation | ||
| HL_6X6T_008 | No text annotation | ||
| HL_6X6T_009 | GNRA | ||
| HL_6X6T_010 | GNRA | ||
| HL_6X6T_109 | No text annotation | ||
| HL_6X6T_011 | UNCG | ||
| HL_6X6T_012 | GNRA related | ||
| HL_6X6T_013 | GNRA | ||
| HL_6X6T_014 | No text annotation | ||
| HL_6X6T_015 | UNCG | ||
| HL_6X6T_016 | GNRA | ||
| HL_6X6T_017 | UNCG | ||
| HL_6X6T_018 | GNRA wlth extra near cWW | ||
| HL_6X6T_019 | No text annotation | ||
| HL_6X6T_020 | GNRA-like with tWH | ||
| HL_6X6T_021 | No text annotation | ||
| HL_6X6T_022 | GNRA | ||
| HL_6X6T_023 | No text annotation | ||
| HL_6X6T_024 | No text annotation | ||
| HL_6X6T_025 | GNRA | ||
| HL_6X6T_026 | GNRA | ||
| HL_6X6T_027 | No text annotation | ||
| HL_6X6T_028 | GNRA | ||
| HL_6X6T_029 | GNRA | ||
| HL_6X6T_030 | T-loop related | ||
| HL_6X6T_110 | No text annotation | ||
| HL_6X6T_031 | No text annotation | ||
| HL_6X6T_032 | GNRA | ||
| HL_6X6T_033 | GNRA | ||
| HL_6X6T_034 | T-loop with 3 stacked bulged bases | ||
| HL_6X6T_035 | No text annotation | ||
| HL_6X6T_036 | UNCG | ||
| HL_6X6T_037 | GNRA | ||
| HL_6X6T_038 | No text annotation | ||
| HL_6X6T_039 | No text annotation | ||
| HL_6X6T_040 | No text annotation | ||
| HL_6X6T_041 | UNCG | ||
| HL_6X6T_042 | No text annotation | ||
| HL_6X6T_043 | No text annotation | ||
| HL_6X6T_044 | No text annotation | ||
| HL_6X6T_045 | No text annotation | ||
| HL_6X6T_046 | T-loop with 2 stacked bulged bases | ||
| HL_6X6T_047 | No text annotation | ||
| HL_6X6T_048 | T-loop with unstacked turn | ||
| HL_6X6T_049 | No text annotation | ||
| HL_6X6T_050 | Pseudoknot geometry | ||
| HL_6X6T_051 | GNRA | ||
| HL_6X6T_052 | GNRA | ||
| HL_6X6T_053 | No text annotation | ||
| HL_6X6T_054 | T-loop with 2 stacked bulged bases | ||
| HL_6X6T_055 | No text annotation | ||
| HL_6X6T_056 | GNRA | ||
| HL_6X6T_057 | No text annotation | ||
| HL_6X6T_058 | GNRA wlth tandem sheared | ||
| HL_6X6T_059 | No text annotation | ||
| HL_6X6T_060 | No text annotation | ||
| HL_6X6T_061 | No text annotation | ||
| HL_6X6T_111 | No text annotation | ||
| HL_6X6T_062 | No text annotation | ||
| HL_6X6T_063 | No text annotation | ||
| HL_6X6T_064 | No text annotation | ||
| HL_6X6T_065 | No text annotation | ||
| HL_6X6T_066 | GNRA wlth tandem sheared | ||
| HL_6X6T_067 | No text annotation | ||
| HL_6X6T_068 | GNRA | ||
| HL_6X6T_069 | T-loop with 2 stacked bulged bases | ||
| HL_6X6T_070 | Pseudoknot geometry with 3' bulge | ||
| HL_6X6T_071 | GNRA | ||
| HL_6X6T_072 | No text annotation | ||
| HL_6X6T_073 | Mini UNCG with extended bulge | ||
| HL_6X6T_074 | Pseudoknot geometry with 3' bulge | ||
| HL_6X6T_075 | UNCG | ||
| HL_6X6T_076 | Mini UNCG | ||
| HL_6X6T_077 | No text annotation | ||
| HL_6X6T_078 | GNRA | ||
| HL_6X6T_079 | UNCG | ||
| HL_6X6T_112 | No text annotation | ||
| HL_6X6T_080 | No text annotation | ||
| HL_6X6T_081 | No text annotation | ||
| HL_6X6T_082 | No text annotation | ||
| HL_6X6T_083 | GNRA related | ||
| HL_6X6T_084 | GNRA variation | ||
| HL_6X6T_085 | No text annotation | ||
| HL_6X6T_086 | No text annotation | ||
| HL_6X6T_087 | No text annotation | ||
| HL_6X6T_088 | No text annotation | ||
| HL_6X6T_089 | No text annotation | ||
| HL_6X6T_090 | No text annotation | ||
| HL_6X6T_091 | No text annotation | ||
| HL_6X6T_092 | No text annotation | ||
| HL_6X6T_114 | No text annotation | ||
| HL_6X6T_093 | Pseudoknot geometry | ||
| HL_6X6T_094 | GNRA | ||
| HL_6X6T_095 | GNRA | ||
| HL_6X6T_096 | No text annotation | ||
| HL_6X6T_097 | No text annotation | ||
| HL_6X6T_098 | GNRA variation | ||
| HL_6X6T_099 | No text annotation | ||
| HL_6X6T_100 | GNRA | ||
| HL_6X6T_101 | GNRA | ||
| HL_6X6T_102 | Ribsomal LSU H95 | ||
| HL_6X6T_103 | No text annotation | ||
| HL_6X6T_104 | No text annotation | ||
| HL_6X6T_115 | UNCG variation | ||
| HL_6X6T_105 | No text annotation | ||
| HL_6X6T_106 | GNRA | ||
| HL_6X6T_113 | No text annotation | ||
| HL_6X6T_107 | No text annotation | ||
| HL_6X6T_108 | Mini UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6X6T_054 | 1/D/1158:1161, 1/D/1175:1181 | No text annotation | homologous IL_5J7L_053 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6X6T_186 | No text annotation | ||
| IL_6X6T_187 | No text annotation | ||
| IL_6X6T_188 | No text annotation | ||
| IL_6X6T_001 | Single bulged G | ||
| IL_6X6T_002 | Single bulged A | ||
| IL_6X6T_003 | No text annotation | ||
| IL_6X6T_004 | Minor groove platform | ||
| IL_6X6T_005 | Multiple bulged bases | ||
| IL_6X6T_006 | Minor groove platform with extra cWW | ||
| IL_6X6T_007 | Minor groove platform | ||
| IL_6X6T_189 | Single bulged G | ||
| IL_6X6T_008 | Single bulged G, near cWW | ||
| IL_6X6T_009 | Isolated non-canonical cWW pair | ||
| IL_6X6T_010 | Minor groove platform related | ||
| IL_6X6T_011 | Isolated cWH basepair | ||
| IL_6X6T_190 | No text annotation | ||
| IL_6X6T_012 | tWH-tWH-tHW-tHW | ||
| IL_6X6T_013 | No text annotation | ||
| IL_6X6T_014 | Kink-turn with non-sequential stacking | ||
| IL_6X6T_015 | No text annotation | ||
| IL_6X6T_016 | C-loop | ||
| IL_6X6T_017 | Single bulged U | ||
| IL_6X6T_018 | C-loop | ||
| IL_6X6T_019 | Single bulged G | ||
| IL_6X6T_020 | No text annotation | ||
| IL_6X6T_021 | No text annotation | ||
| IL_6X6T_022 | tSH-tHW-tWW | ||
| IL_6X6T_023 | No text annotation | ||
| IL_6X6T_024 | SSU/LSU pseudoknot | ||
| IL_6X6T_025 | Kink-turn related | ||
| IL_6X6T_026 | No text annotation | ||
| IL_6X6T_027 | tSH-tHW-tHS | ||
| IL_6X6T_028 | Major groove platform | ||
| IL_6X6T_029 | Major groove minor groove platform; mini C-loop | ||
| IL_6X6T_030 | No text annotation | ||
| IL_6X6T_031 | Major groove platform; stack outside cWW | ||
| IL_6X6T_032 | Single stack bend | ||
| IL_6X6T_033 | Tandem non-canonical cWW pairs | ||
| IL_6X6T_034 | No text annotation | ||
| IL_6X6T_035 | Kink-turn | ||
| IL_6X6T_036 | Left turn | ||
| IL_6X6T_037 | tSH-tHW-tHS | ||
| IL_6X6T_038 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_6X6T_039 | Single bulged A | ||
| IL_6X6T_040 | Single bulged G | ||
| IL_6X6T_041 | Minor groove platform | ||
| IL_6X6T_042 | No text annotation | ||
| IL_6X6T_043 | Minor groove platform | ||
| IL_6X6T_200 | Single stack bend | ||
| IL_6X6T_044 | No text annotation | ||
| IL_6X6T_045 | No text annotation | ||
| IL_6X6T_046 | Single bulged U | ||
| IL_6X6T_047 | No text annotation | ||
| IL_6X6T_048 | Isolated cWS basepair | ||
| IL_6X6T_049 | Minor groove platform | ||
| IL_6X6T_050 | Single bulged U | ||
| IL_6X6T_051 | Isolated non-canonical cWW pair | ||
| IL_6X6T_052 | No text annotation | ||
| IL_6X6T_053 | Minor groove platform | ||
| IL_6X6T_055 | No text annotation | ||
| IL_6X6T_056 | 180 degree turn | ||
| IL_6X6T_191 | No text annotation | ||
| IL_6X6T_057 | Double sheared with non-canonical cWW | ||
| IL_6X6T_058 | No text annotation | ||
| IL_6X6T_059 | No text annotation | ||
| IL_6X6T_060 | No text annotation | ||
| IL_6X6T_061 | Partly complementary | ||
| IL_6X6T_062 | Isolated non-canonical cWW pair | ||
| IL_6X6T_063 | Double sheared | ||
| IL_6X6T_064 | Triple sheared related | ||
| IL_6X6T_065 | Single bulged A | ||
| IL_6X6T_066 | No text annotation | ||
| IL_6X6T_067 | Triple sheared with non-canonical cWW | ||
| IL_6X6T_068 | Single bulged A | ||
| IL_6X6T_069 | Minor groove platform | ||
| IL_6X6T_070 | No text annotation | ||
| IL_6X6T_071 | Single stack bend | ||
| IL_6X6T_072 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_6X6T_073 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_6X6T_074 | No text annotation | ||
| IL_6X6T_075 | No text annotation | ||
| IL_6X6T_076 | No text annotation | ||
| IL_6X6T_077 | No text annotation | ||
| IL_6X6T_078 | Double sheared | ||
| IL_6X6T_079 | Isolated non-canonical cWW pair | ||
| IL_6X6T_080 | AAA cross-strand stack | ||
| IL_6X6T_081 | No text annotation | ||
| IL_6X6T_082 | tHW-tHW cross-strand stack | ||
| IL_6X6T_083 | Single bulged A | ||
| IL_6X6T_084 | Single bulged G | ||
| IL_6X6T_085 | Triple sheared | ||
| IL_6X6T_086 | Major groove platform | ||
| IL_6X6T_087 | Single stack bend | ||
| IL_6X6T_088 | Single stack bend | ||
| IL_6X6T_089 | Multiple bulged bases | ||
| IL_6X6T_090 | 90 degree turn | ||
| IL_6X6T_192 | No text annotation | ||
| IL_6X6T_091 | Stack outside cWW | ||
| IL_6X6T_092 | Single stack bend | ||
| IL_6X6T_193 | No text annotation | ||
| IL_6X6T_093 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_6X6T_094 | Single bulged G | ||
| IL_6X6T_095 | C-loop with bulged stacked A's | ||
| IL_6X6T_096 | Isolated non-canonical cWW pair | ||
| IL_6X6T_097 | Double sheared with non-canonical cWW | ||
| IL_6X6T_194 | No text annotation | ||
| IL_6X6T_098 | No text annotation | ||
| IL_6X6T_099 | Single bulged C | ||
| IL_6X6T_100 | UAA/GAN | ||
| IL_6X6T_101 | SSU/LSU pseudoknot | ||
| IL_6X6T_102 | Single bulged U | ||
| IL_6X6T_103 | Kink-turn related | ||
| IL_6X6T_104 | No text annotation | ||
| IL_6X6T_105 | Isolated non-canonical cWW pair | ||
| IL_6X6T_106 | Tandem non-canonical cWW pairs | ||
| IL_6X6T_107 | Kink-turn | ||
| IL_6X6T_195 | No text annotation | ||
| IL_6X6T_108 | No text annotation | ||
| IL_6X6T_109 | No text annotation | ||
| IL_6X6T_110 | Isolated cWS basepair | ||
| IL_6X6T_111 | No text annotation | ||
| IL_6X6T_112 | Kink-turn | ||
| IL_6X6T_113 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_6X6T_114 | Major groove platform; stack outside cWW | ||
| IL_6X6T_115 | C-loop | ||
| IL_6X6T_116 | UAA/GAN | ||
| IL_6X6T_117 | tSH-tHW-tHS | ||
| IL_6X6T_118 | Single stack bend | ||
| IL_6X6T_119 | Single stack bend | ||
| IL_6X6T_196 | No text annotation | ||
| IL_6X6T_120 | No text annotation | ||
| IL_6X6T_121 | UAA/GAN | ||
| IL_6X6T_122 | Tandem non-canonical cWW pairs | ||
| IL_6X6T_123 | tSH-tHW | ||
| IL_6X6T_124 | Single bulged U | ||
| IL_6X6T_125 | No text annotation | ||
| IL_6X6T_126 | tSH-tHW-tHS | ||
| IL_6X6T_127 | No text annotation | ||
| IL_6X6T_201 | 180 degree turn | ||
| IL_6X6T_128 | Single bulged A | ||
| IL_6X6T_129 | UAA/GAN variation | ||
| IL_6X6T_130 | No text annotation | ||
| IL_6X6T_131 | Isolated tWW turn | ||
| IL_6X6T_132 | Major groove platform; stack outside cWW | ||
| IL_6X6T_197 | No text annotation | ||
| IL_6X6T_133 | Intercalated tWH | ||
| IL_6X6T_134 | tSH-tSH-tHH-tHS | ||
| IL_6X6T_135 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_6X6T_136 | Triple sheared | ||
| IL_6X6T_137 | Single bulged C | ||
| IL_6X6T_138 | Single bulged A | ||
| IL_6X6T_139 | Kink-turn related | ||
| IL_6X6T_140 | Minor groove platform, major groove intercalation | ||
| IL_6X6T_141 | Major groove intercalation | ||
| IL_6X6T_142 | Major groove minor groove platform; mini C-loop | ||
| IL_6X6T_198 | No text annotation | ||
| IL_6X6T_143 | UAA/GAN related | ||
| IL_6X6T_144 | Bulged stacked bases | ||
| IL_6X6T_145 | No text annotation | ||
| IL_6X6T_146 | Major groove platform | ||
| IL_6X6T_147 | No text annotation | ||
| IL_6X6T_148 | No text annotation | ||
| IL_6X6T_149 | Not an internal loop | ||
| IL_6X6T_150 | Minor groove platform | ||
| IL_6X6T_151 | Isolated tHS basepair with bulges | ||
| IL_6X6T_152 | Isolated non-canonical cWW pair | ||
| IL_6X6T_153 | Isolated non-canonical cWW pair | ||
| IL_6X6T_154 | Isolated non-canonical cWW pair | ||
| IL_6X6T_155 | Isolated non-canonical cWW pair | ||
| IL_6X6T_156 | No text annotation | ||
| IL_6X6T_199 | No text annotation | ||
| IL_6X6T_157 | Kink-turn | ||
| IL_6X6T_158 | Single bulged U | ||
| IL_6X6T_159 | Double sheared | ||
| IL_6X6T_160 | No text annotation | ||
| IL_6X6T_161 | No text annotation | ||
| IL_6X6T_162 | No text annotation | ||
| IL_6X6T_163 | Major groove minor groove platform with extra cWW | ||
| IL_6X6T_164 | Double sheared with non-canonical cWW | ||
| IL_6X6T_165 | No text annotation | ||
| IL_6X6T_166 | Isolated non-canonical cWW with bulges | ||
| IL_6X6T_167 | No text annotation | ||
| IL_6X6T_168 | Major groove platform with intercalation | ||
| IL_6X6T_169 | No text annotation | ||
| IL_6X6T_170 | Single bulged A | ||
| IL_6X6T_171 | tSH-tHS-tHW | ||
| IL_6X6T_172 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_6X6T_173 | C-loop | ||
| IL_6X6T_174 | UAA/GAN related, with intercalation | ||
| IL_6X6T_175 | Multiple bulged bases | ||
| IL_6X6T_176 | UAA/GAN with extra cWW | ||
| IL_6X6T_177 | No text annotation | ||
| IL_6X6T_178 | Major groove intercalation | ||
| IL_6X6T_179 | Multiple bulged bases with non-canonical cWW | ||
| IL_6X6T_180 | tHS double platform | ||
| IL_6X6T_181 | Major groove intercalation | ||
| IL_6X6T_182 | No text annotation | ||
| IL_6X6T_183 | Major groove minor groove platform; mini C-loop | ||
| IL_6X6T_184 | Symmetric double minor groove platform | ||
| IL_6X6T_185 | Bacterial 5S Loop E |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6X6T_005 | 1/D/936:939, 1/D/1344:1350, 1/D/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_6X6T_009 | 1/D/1063:1068, 1/D/1107:1113, 1/D/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_6X6T_031 | 1/D/1116:1118, 1/D/1155:1161, 1/D/1175:1184 | No text annotation | homologous J3_5J7L_054 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6X6T_001 | No text annotation | ||
| J3_6X6T_027 | No text annotation | ||
| J3_6X6T_002 | No text annotation | ||
| J3_6X6T_028 | No text annotation | ||
| J3_6X6T_003 | No text annotation | ||
| J3_6X6T_004 | No text annotation | ||
| J3_6X6T_006 | No text annotation | ||
| J3_6X6T_029 | No text annotation | ||
| J3_6X6T_007 | No text annotation | ||
| J3_6X6T_008 | No text annotation | ||
| J3_6X6T_030 | No text annotation | ||
| J3_6X6T_010 | No text annotation | ||
| J3_6X6T_011 | No text annotation | ||
| J3_6X6T_012 | No text annotation | ||
| J3_6X6T_013 | No text annotation | ||
| J3_6X6T_032 | No text annotation | ||
| J3_6X6T_033 | No text annotation | ||
| J3_6X6T_014 | No text annotation | ||
| J3_6X6T_034 | No text annotation | ||
| J3_6X6T_015 | No text annotation | ||
| J3_6X6T_016 | No text annotation | ||
| J3_6X6T_017 | No text annotation | ||
| J3_6X6T_018 | No text annotation | ||
| J3_6X6T_019 | No text annotation | ||
| J3_6X6T_020 | No text annotation | ||
| J3_6X6T_035 | No text annotation | ||
| J3_6X6T_021 | Kink-turn 3-way junction | ||
| J3_6X6T_036 | No text annotation | ||
| J3_6X6T_022 | No text annotation | ||
| J3_6X6T_023 | No text annotation | ||
| J3_6X6T_024 | No text annotation | ||
| J3_6X6T_025 | No text annotation | ||
| J3_6X6T_026 | No text annotation | ||
| J4_6X6T_001 | tRNA junction | ||
| J4_6X6T_002 | tRNA junction | ||
| J4_6X6T_003 | No text annotation | ||
| J4_6X6T_004 | No text annotation | ||
| J4_6X6T_005 | No text annotation | ||
| J4_6X6T_006 | No text annotation | ||
| J4_6X6T_007 | No text annotation | ||
| J4_6X6T_008 | No text annotation | ||
| J4_6X6T_009 | No text annotation | ||
| J4_6X6T_010 | No text annotation | ||
| J4_6X6T_011 | No text annotation | ||
| J4_6X6T_012 | No text annotation | ||
| J4_6X6T_013 | No text annotation | ||
| J4_6X6T_014 | No text annotation | ||
| J4_6X6T_015 | No text annotation | ||
| J5_6X6T_001 | No text annotation | ||
| J5_6X6T_002 | No text annotation | ||
| J5_6X6T_003 | No text annotation | ||
| J5_6X6T_004 | No text annotation | ||
| J5_6X6T_005 | No text annotation | ||
| J5_6X6T_006 | No text annotation | ||
| J5_6X6T_007 | No text annotation | ||
| J6_6X6T_001 | No text annotation | ||
| J7_6X6T_001 | No text annotation | ||
| J7_6X6T_002 | No text annotation |
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