6XIJ Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6XIJ_007 | 1/D/12:22 | No text annotation | homologous HL_4LFB_001 HL_73535.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6XIJ_001 | No text annotation | ||
| HL_6XIJ_002 | tRNA anticodon loop | ||
| HL_6XIJ_003 | T-loop with 2 stacked bulged bases | ||
| HL_6XIJ_004 | No text annotation | ||
| HL_6XIJ_005 | No text annotation | ||
| HL_6XIJ_006 | T-loop with 2 stacked bulged bases | ||
| HL_6XIJ_008 | No text annotation | ||
| HL_6XIJ_009 | GNRA | ||
| HL_6XIJ_010 | GNRA | ||
| HL_6XIJ_109 | No text annotation | ||
| HL_6XIJ_011 | UNCG | ||
| HL_6XIJ_012 | GNRA related | ||
| HL_6XIJ_013 | GNRA | ||
| HL_6XIJ_014 | No text annotation | ||
| HL_6XIJ_015 | UNCG | ||
| HL_6XIJ_016 | GNRA | ||
| HL_6XIJ_017 | UNCG | ||
| HL_6XIJ_018 | GNRA with extra near cWW | ||
| HL_6XIJ_019 | No text annotation | ||
| HL_6XIJ_020 | GNRA-like with tWH | ||
| HL_6XIJ_021 | No text annotation | ||
| HL_6XIJ_022 | GNRA | ||
| HL_6XIJ_023 | No text annotation | ||
| HL_6XIJ_024 | No text annotation | ||
| HL_6XIJ_025 | GNRA | ||
| HL_6XIJ_026 | GNRA | ||
| HL_6XIJ_027 | No text annotation | ||
| HL_6XIJ_028 | GNRA | ||
| HL_6XIJ_029 | GNRA | ||
| HL_6XIJ_030 | T-loop related | ||
| HL_6XIJ_110 | No text annotation | ||
| HL_6XIJ_031 | No text annotation | ||
| HL_6XIJ_032 | GNRA | ||
| HL_6XIJ_033 | GNRA | ||
| HL_6XIJ_034 | T-loop with 3 stacked bulged bases | ||
| HL_6XIJ_035 | No text annotation | ||
| HL_6XIJ_036 | UNCG | ||
| HL_6XIJ_037 | GNRA | ||
| HL_6XIJ_038 | No text annotation | ||
| HL_6XIJ_039 | No text annotation | ||
| HL_6XIJ_040 | No text annotation | ||
| HL_6XIJ_041 | UNCG | ||
| HL_6XIJ_042 | No text annotation | ||
| HL_6XIJ_043 | No text annotation | ||
| HL_6XIJ_044 | No text annotation | ||
| HL_6XIJ_045 | No text annotation | ||
| HL_6XIJ_046 | T-loop with 2 stacked bulged bases | ||
| HL_6XIJ_047 | No text annotation | ||
| HL_6XIJ_048 | T-loop with unstacked turn | ||
| HL_6XIJ_049 | No text annotation | ||
| HL_6XIJ_050 | Pseudoknot geometry | ||
| HL_6XIJ_051 | GNRA | ||
| HL_6XIJ_052 | GNRA | ||
| HL_6XIJ_053 | No text annotation | ||
| HL_6XIJ_054 | T-loop with 2 stacked bulged bases | ||
| HL_6XIJ_055 | No text annotation | ||
| HL_6XIJ_056 | GNRA | ||
| HL_6XIJ_057 | No text annotation | ||
| HL_6XIJ_058 | GNRA with tandem sheared | ||
| HL_6XIJ_059 | No text annotation | ||
| HL_6XIJ_060 | No text annotation | ||
| HL_6XIJ_061 | No text annotation | ||
| HL_6XIJ_111 | No text annotation | ||
| HL_6XIJ_062 | No text annotation | ||
| HL_6XIJ_063 | No text annotation | ||
| HL_6XIJ_064 | No text annotation | ||
| HL_6XIJ_065 | No text annotation | ||
| HL_6XIJ_066 | GNRA with tandem sheared | ||
| HL_6XIJ_067 | No text annotation | ||
| HL_6XIJ_068 | GNRA | ||
| HL_6XIJ_069 | T-loop with 2 stacked bulged bases | ||
| HL_6XIJ_070 | Pseudoknot geometry with 3' bulge | ||
| HL_6XIJ_071 | GNRA | ||
| HL_6XIJ_072 | No text annotation | ||
| HL_6XIJ_073 | Mini UNCG with extended bulge | ||
| HL_6XIJ_074 | Pseudoknot geometry with 3' bulge | ||
| HL_6XIJ_075 | UNCG | ||
| HL_6XIJ_076 | Mini UNCG | ||
| HL_6XIJ_077 | No text annotation | ||
| HL_6XIJ_078 | GNRA | ||
| HL_6XIJ_079 | UNCG | ||
| HL_6XIJ_112 | No text annotation | ||
| HL_6XIJ_080 | No text annotation | ||
| HL_6XIJ_081 | No text annotation | ||
| HL_6XIJ_082 | No text annotation | ||
| HL_6XIJ_083 | GNRA related | ||
| HL_6XIJ_084 | GNRA variation | ||
| HL_6XIJ_085 | No text annotation | ||
| HL_6XIJ_086 | No text annotation | ||
| HL_6XIJ_087 | No text annotation | ||
| HL_6XIJ_088 | No text annotation | ||
| HL_6XIJ_089 | No text annotation | ||
| HL_6XIJ_090 | No text annotation | ||
| HL_6XIJ_091 | No text annotation | ||
| HL_6XIJ_092 | No text annotation | ||
| HL_6XIJ_114 | No text annotation | ||
| HL_6XIJ_093 | Pseudoknot geometry | ||
| HL_6XIJ_094 | GNRA | ||
| HL_6XIJ_095 | GNRA | ||
| HL_6XIJ_096 | No text annotation | ||
| HL_6XIJ_097 | No text annotation | ||
| HL_6XIJ_098 | GNRA variation | ||
| HL_6XIJ_099 | No text annotation | ||
| HL_6XIJ_100 | GNRA | ||
| HL_6XIJ_101 | GNRA | ||
| HL_6XIJ_102 | Ribsomal LSU H95 | ||
| HL_6XIJ_103 | No text annotation | ||
| HL_6XIJ_104 | No text annotation | ||
| HL_6XIJ_115 | UNCG variation | ||
| HL_6XIJ_105 | No text annotation | ||
| HL_6XIJ_106 | GNRA | ||
| HL_6XIJ_113 | No text annotation | ||
| HL_6XIJ_107 | No text annotation | ||
| HL_6XIJ_108 | Mini UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6XIJ_170 | 1/a/2591:2592, 1/a/2601:2603 | Single bulged A | homologous IL_7RQB_101 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6XIJ_186 | No text annotation | ||
| IL_6XIJ_187 | No text annotation | ||
| IL_6XIJ_188 | No text annotation | ||
| IL_6XIJ_001 | Single bulged G | ||
| IL_6XIJ_002 | Single bulged A | ||
| IL_6XIJ_003 | No text annotation | ||
| IL_6XIJ_004 | Minor groove platform | ||
| IL_6XIJ_005 | Multiple bulged bases | ||
| IL_6XIJ_006 | Minor groove platform with extra cWW | ||
| IL_6XIJ_007 | Minor groove platform | ||
| IL_6XIJ_189 | Single bulged G | ||
| IL_6XIJ_008 | Single bulged G, near cWW | ||
| IL_6XIJ_009 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_010 | Minor groove platform related | ||
| IL_6XIJ_011 | Isolated cWH basepair | ||
| IL_6XIJ_190 | No text annotation | ||
| IL_6XIJ_012 | tWH-tWH-tHW-tHW | ||
| IL_6XIJ_013 | No text annotation | ||
| IL_6XIJ_014 | Kink-turn with non-sequential stacking | ||
| IL_6XIJ_015 | No text annotation | ||
| IL_6XIJ_016 | C-loop | ||
| IL_6XIJ_017 | Single bulged U | ||
| IL_6XIJ_018 | C-loop | ||
| IL_6XIJ_019 | Single bulged G | ||
| IL_6XIJ_020 | No text annotation | ||
| IL_6XIJ_021 | No text annotation | ||
| IL_6XIJ_022 | tSH-tHW-tWW | ||
| IL_6XIJ_023 | No text annotation | ||
| IL_6XIJ_024 | SSU/LSU pseudoknot | ||
| IL_6XIJ_025 | Kink-turn related | ||
| IL_6XIJ_026 | No text annotation | ||
| IL_6XIJ_027 | tSH-tWH-tHS | ||
| IL_6XIJ_028 | Major groove platform | ||
| IL_6XIJ_029 | Major groove minor groove platform; mini C-loop | ||
| IL_6XIJ_030 | No text annotation | ||
| IL_6XIJ_031 | Major groove platform; stack outside cWW | ||
| IL_6XIJ_032 | Single stack bend | ||
| IL_6XIJ_033 | Tandem non-canonical cWW pairs | ||
| IL_6XIJ_034 | No text annotation | ||
| IL_6XIJ_035 | Kink-turn | ||
| IL_6XIJ_036 | Left turn | ||
| IL_6XIJ_037 | tSH-tWH-tHS | ||
| IL_6XIJ_038 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_6XIJ_039 | Single bulged A | ||
| IL_6XIJ_040 | Single bulged G | ||
| IL_6XIJ_041 | Minor groove platform | ||
| IL_6XIJ_042 | No text annotation | ||
| IL_6XIJ_043 | Minor groove platform | ||
| IL_6XIJ_201 | Single stack bend | ||
| IL_6XIJ_044 | No text annotation | ||
| IL_6XIJ_045 | No text annotation | ||
| IL_6XIJ_046 | Single bulged U | ||
| IL_6XIJ_047 | Not an internal loop | ||
| IL_6XIJ_048 | Isolated cWS basepair | ||
| IL_6XIJ_049 | Minor groove platform | ||
| IL_6XIJ_050 | Single bulged A | ||
| IL_6XIJ_051 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_052 | No text annotation | ||
| IL_6XIJ_053 | Minor groove platform | ||
| IL_6XIJ_054 | No text annotation | ||
| IL_6XIJ_055 | No text annotation | ||
| IL_6XIJ_056 | 180 degree turn | ||
| IL_6XIJ_191 | No text annotation | ||
| IL_6XIJ_057 | Double sheared with non-canonical cWW | ||
| IL_6XIJ_058 | No text annotation | ||
| IL_6XIJ_059 | No text annotation | ||
| IL_6XIJ_060 | No text annotation | ||
| IL_6XIJ_061 | No text annotation | ||
| IL_6XIJ_062 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_063 | Double sheared | ||
| IL_6XIJ_064 | Triple sheared related | ||
| IL_6XIJ_065 | Single bulged A | ||
| IL_6XIJ_066 | No text annotation | ||
| IL_6XIJ_067 | Triple sheared with non-canonical cWW | ||
| IL_6XIJ_068 | Single bulged A | ||
| IL_6XIJ_069 | Minor groove platform | ||
| IL_6XIJ_070 | Kink-turn | ||
| IL_6XIJ_071 | Single stack bend | ||
| IL_6XIJ_072 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_6XIJ_073 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_6XIJ_074 | No text annotation | ||
| IL_6XIJ_075 | No text annotation | ||
| IL_6XIJ_076 | No text annotation | ||
| IL_6XIJ_077 | No text annotation | ||
| IL_6XIJ_078 | Double sheared | ||
| IL_6XIJ_079 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_080 | AAA cross-strand stack | ||
| IL_6XIJ_081 | No text annotation | ||
| IL_6XIJ_082 | tHW-tHW cross-strand stack | ||
| IL_6XIJ_083 | Single bulged A | ||
| IL_6XIJ_084 | Single bulged G | ||
| IL_6XIJ_085 | Triple sheared | ||
| IL_6XIJ_086 | Major groove platform | ||
| IL_6XIJ_087 | Single stack bend | ||
| IL_6XIJ_088 | Single stack bend | ||
| IL_6XIJ_089 | Multiple bulged bases | ||
| IL_6XIJ_090 | 90 degree turn | ||
| IL_6XIJ_192 | No text annotation | ||
| IL_6XIJ_091 | Stack outside cWW | ||
| IL_6XIJ_092 | Single stack bend | ||
| IL_6XIJ_193 | No text annotation | ||
| IL_6XIJ_093 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_6XIJ_094 | Single bulged G | ||
| IL_6XIJ_095 | C-loop with bulged stacked A's | ||
| IL_6XIJ_096 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_097 | Double sheared with non-canonical cWW | ||
| IL_6XIJ_194 | No text annotation | ||
| IL_6XIJ_098 | No text annotation | ||
| IL_6XIJ_099 | Single bulged C | ||
| IL_6XIJ_100 | UAA/GAN | ||
| IL_6XIJ_101 | SSU/LSU pseudoknot | ||
| IL_6XIJ_102 | Single bulged U | ||
| IL_6XIJ_103 | Kink-turn related | ||
| IL_6XIJ_104 | No text annotation | ||
| IL_6XIJ_105 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_106 | Tandem non-canonical cWW pairs | ||
| IL_6XIJ_107 | Kink-turn | ||
| IL_6XIJ_195 | No text annotation | ||
| IL_6XIJ_108 | No text annotation | ||
| IL_6XIJ_109 | No text annotation | ||
| IL_6XIJ_110 | Isolated cWS basepair | ||
| IL_6XIJ_111 | No text annotation | ||
| IL_6XIJ_112 | Kink-turn | ||
| IL_6XIJ_113 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_6XIJ_114 | Major groove platform; stack outside cWW | ||
| IL_6XIJ_115 | C-loop | ||
| IL_6XIJ_116 | UAA/GAN | ||
| IL_6XIJ_117 | tSH-tWH-tHS | ||
| IL_6XIJ_118 | Single stack bend | ||
| IL_6XIJ_119 | Single stack bend | ||
| IL_6XIJ_196 | No text annotation | ||
| IL_6XIJ_120 | No text annotation | ||
| IL_6XIJ_121 | UAA/GAN | ||
| IL_6XIJ_122 | Tandem non-canonical cWW pairs | ||
| IL_6XIJ_123 | tSH-tHW | ||
| IL_6XIJ_124 | Single bulged U | ||
| IL_6XIJ_125 | No text annotation | ||
| IL_6XIJ_126 | tSH-tWH-tHS | ||
| IL_6XIJ_127 | No text annotation | ||
| IL_6XIJ_200 | 180 degree turn | ||
| IL_6XIJ_128 | Single bulged A | ||
| IL_6XIJ_129 | UAA/GAN variation | ||
| IL_6XIJ_130 | No text annotation | ||
| IL_6XIJ_131 | Isolated tWW turn | ||
| IL_6XIJ_132 | Major groove platform; stack outside cWW | ||
| IL_6XIJ_197 | No text annotation | ||
| IL_6XIJ_133 | Intercalated tWH | ||
| IL_6XIJ_134 | tSH-tSH-tHH-tHS | ||
| IL_6XIJ_135 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_6XIJ_136 | Triple sheared | ||
| IL_6XIJ_137 | Single bulged C | ||
| IL_6XIJ_138 | Single bulged A | ||
| IL_6XIJ_139 | Kink-turn related | ||
| IL_6XIJ_140 | Minor groove platform, major groove intercalation | ||
| IL_6XIJ_141 | Major groove intercalation | ||
| IL_6XIJ_142 | Major groove minor groove platform; mini C-loop | ||
| IL_6XIJ_198 | No text annotation | ||
| IL_6XIJ_143 | UAA/GAN related | ||
| IL_6XIJ_144 | Bulged stacked bases | ||
| IL_6XIJ_145 | No text annotation | ||
| IL_6XIJ_146 | Major groove platform | ||
| IL_6XIJ_147 | No text annotation | ||
| IL_6XIJ_148 | No text annotation | ||
| IL_6XIJ_149 | No text annotation | ||
| IL_6XIJ_150 | Minor groove platform | ||
| IL_6XIJ_151 | Isolated tHS basepair with bulges | ||
| IL_6XIJ_152 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_153 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_154 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_155 | Isolated non-canonical cWW pair | ||
| IL_6XIJ_156 | No text annotation | ||
| IL_6XIJ_199 | No text annotation | ||
| IL_6XIJ_157 | Kink-turn | ||
| IL_6XIJ_158 | Single bulged U | ||
| IL_6XIJ_159 | Double sheared | ||
| IL_6XIJ_160 | No text annotation | ||
| IL_6XIJ_161 | No text annotation | ||
| IL_6XIJ_162 | No text annotation | ||
| IL_6XIJ_163 | Major groove minor groove platform with extra cWW | ||
| IL_6XIJ_164 | Double sheared with non-canonical cWW | ||
| IL_6XIJ_165 | No text annotation | ||
| IL_6XIJ_166 | Isolated non-canonical cWW with bulges | ||
| IL_6XIJ_167 | No text annotation | ||
| IL_6XIJ_168 | Major groove platform with intercalation | ||
| IL_6XIJ_169 | No text annotation | ||
| IL_6XIJ_171 | tSH-tHS-tHW | ||
| IL_6XIJ_172 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_6XIJ_173 | C-loop | ||
| IL_6XIJ_174 | UAA/GAN related, with intercalation | ||
| IL_6XIJ_175 | Multiple bulged bases | ||
| IL_6XIJ_176 | UAA/GAN with extra cWW | ||
| IL_6XIJ_177 | No text annotation | ||
| IL_6XIJ_178 | Major groove intercalation | ||
| IL_6XIJ_179 | Multiple bulged bases with non-canonical cWW | ||
| IL_6XIJ_180 | tHS double platform | ||
| IL_6XIJ_181 | Major groove intercalation | ||
| IL_6XIJ_182 | No text annotation | ||
| IL_6XIJ_183 | Major groove minor groove platform; mini C-loop | ||
| IL_6XIJ_184 | Symmetric double minor groove platform | ||
| IL_6XIJ_185 | Bacterial 5S Loop E |
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6XIJ_001 | No text annotation | ||
| J3_6XIJ_027 | No text annotation | ||
| J3_6XIJ_002 | No text annotation | ||
| J3_6XIJ_028 | No text annotation | ||
| J3_6XIJ_003 | No text annotation | ||
| J3_6XIJ_004 | No text annotation | ||
| J3_6XIJ_005 | No text annotation | ||
| J3_6XIJ_006 | No text annotation | ||
| J3_6XIJ_029 | No text annotation | ||
| J3_6XIJ_007 | No text annotation | ||
| J3_6XIJ_008 | No text annotation | ||
| J3_6XIJ_030 | No text annotation | ||
| J3_6XIJ_009 | No text annotation | ||
| J3_6XIJ_010 | No text annotation | ||
| J3_6XIJ_011 | No text annotation | ||
| J3_6XIJ_031 | No text annotation | ||
| J3_6XIJ_012 | No text annotation | ||
| J3_6XIJ_013 | No text annotation | ||
| J3_6XIJ_032 | No text annotation | ||
| J3_6XIJ_033 | No text annotation | ||
| J3_6XIJ_014 | No text annotation | ||
| J3_6XIJ_034 | No text annotation | ||
| J3_6XIJ_015 | No text annotation | ||
| J3_6XIJ_016 | No text annotation | ||
| J3_6XIJ_017 | No text annotation | ||
| J3_6XIJ_018 | No text annotation | ||
| J3_6XIJ_019 | No text annotation | ||
| J3_6XIJ_020 | No text annotation | ||
| J3_6XIJ_035 | No text annotation | ||
| J3_6XIJ_021 | Kink-turn 3-way junction | ||
| J3_6XIJ_036 | No text annotation | ||
| J3_6XIJ_022 | No text annotation | ||
| J3_6XIJ_023 | No text annotation | ||
| J3_6XIJ_024 | No text annotation | ||
| J3_6XIJ_025 | No text annotation | ||
| J3_6XIJ_026 | No text annotation | ||
| J4_6XIJ_001 | tRNA junction | ||
| J4_6XIJ_002 | tRNA junction | ||
| J4_6XIJ_003 | No text annotation | ||
| J4_6XIJ_004 | No text annotation | ||
| J4_6XIJ_005 | No text annotation | ||
| J4_6XIJ_006 | No text annotation | ||
| J4_6XIJ_007 | No text annotation | ||
| J4_6XIJ_008 | No text annotation | ||
| J4_6XIJ_009 | No text annotation | ||
| J4_6XIJ_010 | No text annotation | ||
| J4_6XIJ_011 | No text annotation | ||
| J4_6XIJ_012 | No text annotation | ||
| J4_6XIJ_013 | No text annotation | ||
| J4_6XIJ_014 | No text annotation | ||
| J4_6XIJ_015 | No text annotation | ||
| J5_6XIJ_001 | No text annotation | ||
| J5_6XIJ_002 | No text annotation | ||
| J5_6XIJ_003 | No text annotation | ||
| J5_6XIJ_004 | No text annotation | ||
| J5_6XIJ_005 | No text annotation | ||
| J5_6XIJ_006 | No text annotation | ||
| J5_6XIJ_007 | No text annotation | ||
| J6_6XIJ_001 | No text annotation | ||
| J7_6XIJ_001 | No text annotation | ||
| J7_6XIJ_002 | No text annotation |
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