8G34 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8G34_095 | 1/v/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.2 | |
| HL_8G34_097 | 1/v/1165:1171 | GNRA | homologous HL_5J7L_026 NA | |
| HL_8G34_098 | 1/v/1265:1270 | GNRA | homologous HL_5J7L_027 NA | |
| HL_8G34_100 | 1/v/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_86432.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8G34_103 | No text annotation | ||
| HL_8G34_001 | No text annotation | ||
| HL_8G34_002 | Mini UNCG | ||
| HL_8G34_003 | No text annotation | ||
| HL_8G34_004 | No text annotation | ||
| HL_8G34_005 | No text annotation | ||
| HL_8G34_006 | No text annotation | ||
| HL_8G34_007 | No text annotation | ||
| HL_8G34_008 | No text annotation | ||
| HL_8G34_009 | No text annotation | ||
| HL_8G34_010 | No text annotation | ||
| HL_8G34_011 | T-loop with 2 stacked bulged bases | ||
| HL_8G34_012 | No text annotation | ||
| HL_8G34_013 | T-loop with unstacked turn | ||
| HL_8G34_014 | No text annotation | ||
| HL_8G34_015 | Pseudoknot geometry | ||
| HL_8G34_016 | GNRA | ||
| HL_8G34_017 | GNRA | ||
| HL_8G34_018 | No text annotation | ||
| HL_8G34_019 | T-loop with 2 stacked bulged bases | ||
| HL_8G34_020 | No text annotation | ||
| HL_8G34_021 | GNRA | ||
| HL_8G34_022 | GNRA | ||
| HL_8G34_023 | No text annotation | ||
| HL_8G34_024 | No text annotation | ||
| HL_8G34_025 | UNCG variation | ||
| HL_8G34_026 | No text annotation | ||
| HL_8G34_027 | No text annotation | ||
| HL_8G34_028 | GNRA | ||
| HL_8G34_029 | No text annotation | ||
| HL_8G34_030 | No text annotation | ||
| HL_8G34_031 | GNRA wlth tandem sheared | ||
| HL_8G34_032 | No text annotation | ||
| HL_8G34_033 | GNRA | ||
| HL_8G34_034 | T-loop with 2 stacked bulged bases | ||
| HL_8G34_035 | Pseudoknot geometry with 3' bulge | ||
| HL_8G34_036 | GNRA | ||
| HL_8G34_037 | No text annotation | ||
| HL_8G34_038 | No text annotation | ||
| HL_8G34_039 | Pseudoknot geometry with 3' bulge | ||
| HL_8G34_040 | No text annotation | ||
| HL_8G34_041 | Mini UNCG | ||
| HL_8G34_042 | No text annotation | ||
| HL_8G34_043 | GNRA | ||
| HL_8G34_044 | No text annotation | ||
| HL_8G34_045 | No text annotation | ||
| HL_8G34_046 | No text annotation | ||
| HL_8G34_047 | No text annotation | ||
| HL_8G34_048 | GNRA related | ||
| HL_8G34_049 | No text annotation | ||
| HL_8G34_104 | No text annotation | ||
| HL_8G34_050 | No text annotation | ||
| HL_8G34_051 | No text annotation | ||
| HL_8G34_105 | No text annotation | ||
| HL_8G34_052 | No text annotation | ||
| HL_8G34_053 | No text annotation | ||
| HL_8G34_054 | No text annotation | ||
| HL_8G34_055 | No text annotation | ||
| HL_8G34_056 | No text annotation | ||
| HL_8G34_057 | No text annotation | ||
| HL_8G34_058 | Pseudoknot geometry | ||
| HL_8G34_059 | GNRA | ||
| HL_8G34_060 | GNRA | ||
| HL_8G34_061 | No text annotation | ||
| HL_8G34_062 | No text annotation | ||
| HL_8G34_063 | GNRA variation | ||
| HL_8G34_064 | No text annotation | ||
| HL_8G34_065 | GNRA | ||
| HL_8G34_066 | GNRA | ||
| HL_8G34_067 | Ribsomal LSU H95 | ||
| HL_8G34_068 | No text annotation | ||
| HL_8G34_069 | UNCG variation | ||
| HL_8G34_070 | No text annotation | ||
| HL_8G34_071 | GNRA | ||
| HL_8G34_072 | No text annotation | ||
| HL_8G34_073 | Externally structured | ||
| HL_8G34_074 | No text annotation | ||
| HL_8G34_106 | No text annotation | ||
| HL_8G34_075 | GNRA | ||
| HL_8G34_076 | No text annotation | ||
| HL_8G34_077 | GNRA related | ||
| HL_8G34_078 | GNRA | ||
| HL_8G34_079 | No text annotation | ||
| HL_8G34_080 | No text annotation | ||
| HL_8G34_081 | GNRA | ||
| HL_8G34_082 | UNCG | ||
| HL_8G34_083 | GNRA wlth extra near cWW | ||
| HL_8G34_084 | No text annotation | ||
| HL_8G34_085 | GNRA-like with tWH | ||
| HL_8G34_086 | No text annotation | ||
| HL_8G34_087 | GNRA | ||
| HL_8G34_088 | No text annotation | ||
| HL_8G34_089 | No text annotation | ||
| HL_8G34_090 | GNRA | ||
| HL_8G34_091 | GNRA | ||
| HL_8G34_092 | No text annotation | ||
| HL_8G34_093 | No text annotation | ||
| HL_8G34_094 | GNRA | ||
| HL_8G34_096 | No text annotation | ||
| HL_8G34_099 | T-loop with 3 stacked bulged bases | ||
| HL_8G34_101 | UNCG | ||
| HL_8G34_102 | GNRA variation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8G34_117 | 1/v/30:32, 1/v/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_8G34_138 | 1/v/409:416, 1/v/427:433 | No text annotation | homologous IL_5J7L_020 NA | |
| IL_8G34_159 | 1/v/933:935, 1/v/1380:1384 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_8G34_172 | 1/v/1158:1161, 1/v/1175:1181 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_8G34_173 | 1/v/1247:1253, 1/v/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_8G34_174 | 1/v/1255:1258, 1/v/1277:1282 | 180 degree turn | homologous IL_5J7L_055 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8G34_001 | Major groove intercalation | ||
| IL_8G34_002 | No text annotation | ||
| IL_8G34_003 | Minor groove platform | ||
| IL_8G34_004 | Symmetric double minor groove platform | ||
| IL_8G34_005 | Bacterial 5S Loop E | ||
| IL_8G34_006 | No text annotation | ||
| IL_8G34_007 | Triple sheared with non-canonical cWW | ||
| IL_8G34_008 | Single bulged A | ||
| IL_8G34_009 | Minor groove platform | ||
| IL_8G34_010 | No text annotation | ||
| IL_8G34_011 | Single stack bend | ||
| IL_8G34_012 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_8G34_013 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_8G34_014 | No text annotation | ||
| IL_8G34_015 | No text annotation | ||
| IL_8G34_016 | No text annotation | ||
| IL_8G34_017 | No text annotation | ||
| IL_8G34_018 | No text annotation | ||
| IL_8G34_019 | Double sheared | ||
| IL_8G34_020 | Isolated non-canonical cWW pair | ||
| IL_8G34_021 | AAA cross-strand stack | ||
| IL_8G34_022 | No text annotation | ||
| IL_8G34_023 | tHW-tHW cross-strand stack | ||
| IL_8G34_024 | Single bulged A | ||
| IL_8G34_025 | Single bulged G | ||
| IL_8G34_026 | Triple sheared | ||
| IL_8G34_027 | Major groove platform | ||
| IL_8G34_028 | Multiple bulged bases | ||
| IL_8G34_029 | Single stack bend | ||
| IL_8G34_030 | No text annotation | ||
| IL_8G34_184 | No text annotation | ||
| IL_8G34_031 | Single stack bend | ||
| IL_8G34_032 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_8G34_033 | Single bulged G | ||
| IL_8G34_034 | C-loop with bulged stacked A's | ||
| IL_8G34_035 | Isolated non-canonical cWW pair | ||
| IL_8G34_036 | No text annotation | ||
| IL_8G34_037 | Single bulged C | ||
| IL_8G34_038 | UAA/GAN | ||
| IL_8G34_039 | SSU/LSU pseudoknot | ||
| IL_8G34_040 | Single bulged U | ||
| IL_8G34_041 | Kink-turn related | ||
| IL_8G34_042 | No text annotation | ||
| IL_8G34_043 | Isolated non-canonical cWW pair | ||
| IL_8G34_044 | Tandem non-canonical cWW pairs | ||
| IL_8G34_045 | No text annotation | ||
| IL_8G34_046 | No text annotation | ||
| IL_8G34_047 | No text annotation | ||
| IL_8G34_048 | Major groove platform | ||
| IL_8G34_049 | Isolated cWS basepair | ||
| IL_8G34_050 | No text annotation | ||
| IL_8G34_051 | Kink-turn | ||
| IL_8G34_052 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_8G34_053 | Major groove platform; stack outside cWW | ||
| IL_8G34_054 | C-loop | ||
| IL_8G34_055 | UAA/GAN | ||
| IL_8G34_056 | tSH-tHW-tHS | ||
| IL_8G34_057 | No text annotation | ||
| IL_8G34_058 | UAA/GAN | ||
| IL_8G34_059 | Tandem non-canonical cWW pairs | ||
| IL_8G34_060 | tSH-tHW | ||
| IL_8G34_061 | No text annotation | ||
| IL_8G34_062 | tSH-tHW-tHS | ||
| IL_8G34_063 | 180 degree turn | ||
| IL_8G34_064 | Single bulged A | ||
| IL_8G34_065 | UAA/GAN variation | ||
| IL_8G34_066 | No text annotation | ||
| IL_8G34_067 | Isolated tWW turn | ||
| IL_8G34_068 | Major groove platform; stack outside cWW | ||
| IL_8G34_185 | No text annotation | ||
| IL_8G34_069 | Intercalated tWH | ||
| IL_8G34_070 | tSH-tSH-tHH-tHS | ||
| IL_8G34_071 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_8G34_072 | No text annotation | ||
| IL_8G34_073 | Single bulged C | ||
| IL_8G34_074 | Single bulged A | ||
| IL_8G34_075 | Kink-turn related | ||
| IL_8G34_076 | Minor groove platform, major groove intercalation | ||
| IL_8G34_077 | Major groove intercalation | ||
| IL_8G34_078 | Minor groove platform | ||
| IL_8G34_186 | No text annotation | ||
| IL_8G34_079 | UAA/GAN related | ||
| IL_8G34_080 | No text annotation | ||
| IL_8G34_081 | Bulged stacked bases | ||
| IL_8G34_082 | No text annotation | ||
| IL_8G34_083 | Major groove platform | ||
| IL_8G34_084 | No text annotation | ||
| IL_8G34_085 | Single bulged U | ||
| IL_8G34_086 | Minor groove platform | ||
| IL_8G34_087 | Isolated tHS basepair with bulges | ||
| IL_8G34_088 | Isolated non-canonical cWW pair | ||
| IL_8G34_089 | No text annotation | ||
| IL_8G34_187 | No text annotation | ||
| IL_8G34_090 | No text annotation | ||
| IL_8G34_091 | No text annotation | ||
| IL_8G34_188 | No text annotation | ||
| IL_8G34_092 | No text annotation | ||
| IL_8G34_093 | Single bulged U | ||
| IL_8G34_094 | No text annotation | ||
| IL_8G34_095 | Double sheared | ||
| IL_8G34_096 | Single bulged U | ||
| IL_8G34_097 | Major groove platform | ||
| IL_8G34_098 | Major groove platform | ||
| IL_8G34_099 | Major groove minor groove platform with extra cWW | ||
| IL_8G34_100 | Double sheared with non-canonical cWW | ||
| IL_8G34_101 | Major groove platform | ||
| IL_8G34_102 | Isolated non-canonical cWW with bulges | ||
| IL_8G34_103 | No text annotation | ||
| IL_8G34_104 | Major groove platform with intercalation | ||
| IL_8G34_105 | Isolated non-canonical cWW pair | ||
| IL_8G34_106 | Single bulged A | ||
| IL_8G34_107 | tSH-tHS-tHW | ||
| IL_8G34_108 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_8G34_109 | C-loop | ||
| IL_8G34_110 | UAA/GAN related, with intercalation | ||
| IL_8G34_111 | Multiple bulged bases | ||
| IL_8G34_112 | UAA/GAN with extra cWW | ||
| IL_8G34_113 | No text annotation | ||
| IL_8G34_114 | Major groove intercalation | ||
| IL_8G34_115 | Multiple bulged bases with non-canonical cWW | ||
| IL_8G34_116 | tHS double platform | ||
| IL_8G34_118 | Single bulged A | ||
| IL_8G34_119 | No text annotation | ||
| IL_8G34_120 | Minor groove platform | ||
| IL_8G34_121 | Multiple bulged bases | ||
| IL_8G34_122 | Minor groove platform with extra cWW | ||
| IL_8G34_123 | Minor groove platform | ||
| IL_8G34_124 | No text annotation | ||
| IL_8G34_125 | No text annotation | ||
| IL_8G34_126 | No text annotation | ||
| IL_8G34_127 | Isolated non-canonical cWW pair | ||
| IL_8G34_128 | Minor groove platform related | ||
| IL_8G34_129 | Isolated cWH basepair | ||
| IL_8G34_130 | tWH-tWH-tHW-tHW | ||
| IL_8G34_131 | No text annotation | ||
| IL_8G34_132 | Kink-turn with non-sequential stacking | ||
| IL_8G34_133 | No text annotation | ||
| IL_8G34_134 | C-loop | ||
| IL_8G34_135 | Single bulged U | ||
| IL_8G34_136 | C-loop | ||
| IL_8G34_137 | Single bulged G | ||
| IL_8G34_139 | No text annotation | ||
| IL_8G34_140 | tSH-tHW-tWW | ||
| IL_8G34_141 | No text annotation | ||
| IL_8G34_142 | SSU/LSU pseudoknot | ||
| IL_8G34_143 | Kink-turn related | ||
| IL_8G34_144 | No text annotation | ||
| IL_8G34_145 | tSH-tHW-tHS | ||
| IL_8G34_146 | Major groove platform | ||
| IL_8G34_147 | Major groove minor groove platform; mini C-loop | ||
| IL_8G34_148 | No text annotation | ||
| IL_8G34_149 | Major groove platform; stack outside cWW | ||
| IL_8G34_150 | Single stack bend | ||
| IL_8G34_151 | Tandem non-canonical cWW pairs | ||
| IL_8G34_189 | Triple non-canonical cWW pairs | ||
| IL_8G34_152 | No text annotation | ||
| IL_8G34_153 | Kink-turn | ||
| IL_8G34_154 | Left turn | ||
| IL_8G34_155 | tSH-tHW-tHS | ||
| IL_8G34_156 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_8G34_157 | Single bulged A | ||
| IL_8G34_158 | Single bulged G | ||
| IL_8G34_160 | No text annotation | ||
| IL_8G34_161 | Isolated non-canonical cWW pair | ||
| IL_8G34_162 | Minor groove platform | ||
| IL_8G34_163 | Single stack bend | ||
| IL_8G34_164 | No text annotation | ||
| IL_8G34_165 | Single bulged U | ||
| IL_8G34_166 | Isolated cWS basepair | ||
| IL_8G34_167 | Minor groove platform | ||
| IL_8G34_168 | Single bulged A | ||
| IL_8G34_169 | Isolated non-canonical cWW pair | ||
| IL_8G34_170 | No text annotation | ||
| IL_8G34_171 | Minor groove platform | ||
| IL_8G34_175 | Double sheared with non-canonical cWW | ||
| IL_8G34_176 | No text annotation | ||
| IL_8G34_177 | No text annotation | ||
| IL_8G34_178 | No text annotation | ||
| IL_8G34_190 | No text annotation | ||
| IL_8G34_179 | No text annotation | ||
| IL_8G34_180 | Double sheared | ||
| IL_8G34_181 | Triple sheared related | ||
| IL_8G34_182 | Single bulged A | ||
| IL_8G34_183 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8G34_032 | 1/v/672:673, 1/v/717:725, 1/v/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_8G34_012 | 1/v/936:939, 1/v/1344:1350, 1/v/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_8G34_035 | 1/v/1116:1118, 1/v/1155:1161, 1/v/1175:1184 | No text annotation | homologous J3_5J7L_054 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8G34_001 | No text annotation | ||
| J3_8G34_018 | No text annotation | ||
| J3_8G34_019 | No text annotation | ||
| J3_8G34_020 | No text annotation | ||
| J3_8G34_021 | No text annotation | ||
| J3_8G34_002 | No text annotation | ||
| J3_8G34_003 | No text annotation | ||
| J3_8G34_004 | No text annotation | ||
| J3_8G34_022 | No text annotation | ||
| J3_8G34_005 | No text annotation | ||
| J3_8G34_006 | No text annotation | ||
| J3_8G34_023 | No text annotation | ||
| J3_8G34_024 | No text annotation | ||
| J3_8G34_007 | Kink-turn 3-way junction | ||
| J3_8G34_025 | No text annotation | ||
| J3_8G34_008 | No text annotation | ||
| J3_8G34_026 | No text annotation | ||
| J3_8G34_009 | No text annotation | ||
| J3_8G34_027 | No text annotation | ||
| J3_8G34_010 | No text annotation | ||
| J3_8G34_028 | No text annotation | ||
| J3_8G34_029 | No text annotation | ||
| J3_8G34_030 | No text annotation | ||
| J3_8G34_031 | No text annotation | ||
| J3_8G34_011 | No text annotation | ||
| J3_8G34_013 | No text annotation | ||
| J3_8G34_014 | No text annotation | ||
| J3_8G34_015 | No text annotation | ||
| J3_8G34_033 | No text annotation | ||
| J3_8G34_016 | No text annotation | ||
| J3_8G34_037 | No text annotation | ||
| J3_8G34_034 | No text annotation | ||
| J3_8G34_017 | No text annotation | ||
| J3_8G34_036 | No text annotation | ||
| J4_8G34_001 | No text annotation | ||
| J4_8G34_002 | No text annotation | ||
| J4_8G34_003 | No text annotation | ||
| J4_8G34_004 | No text annotation | ||
| J4_8G34_005 | No text annotation | ||
| J4_8G34_006 | No text annotation | ||
| J4_8G34_007 | No text annotation | ||
| J4_8G34_008 | No text annotation | ||
| J4_8G34_009 | No text annotation | ||
| J4_8G34_010 | No text annotation | ||
| J4_8G34_011 | No text annotation | ||
| J4_8G34_012 | No text annotation | ||
| J4_8G34_013 | No text annotation | ||
| J4_8G34_014 | No text annotation | ||
| J5_8G34_001 | No text annotation | ||
| J5_8G34_002 | No text annotation | ||
| J5_8G34_003 | No text annotation | ||
| J5_8G34_004 | No text annotation | ||
| J5_8G34_005 | No text annotation | ||
| J5_8G34_006 | No text annotation | ||
| J5_8G34_007 | No text annotation | ||
| J5_8G34_008 | No text annotation | ||
| J5_8G34_009 | No text annotation | ||
| J6_8G34_001 | No text annotation | ||
| J6_8G34_002 | No text annotation | ||
| J7_8G34_001 | No text annotation | ||
| J7_8G34_002 | No text annotation |
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