6C0F Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6C0F_002 | 1/1/69:74 | No text annotation Not in a motif group | homologous HL_8C3A_002 HL_02862.2 | |
| HL_6C0F_003 | 1/1/90:96 | No text annotation Not in a motif group | homologous HL_8C3A_003 HL_67216.7 | |
| HL_6C0F_004 | 1/1/132:136 | No text annotation Not in a motif group | homologous HL_8C3A_004 HL_98426.1 | |
| HL_6C0F_005 | 1/1/194:201 | No text annotation Not in a motif group | homologous HL_8C3A_005 HL_89380.2 | |
| HL_6C0F_006 | 1/1/208:212 | No text annotation Not in a motif group | homologous HL_5TBW_006 HL_98984.3 | |
| HL_6C0F_007 | 1/1/216:224 | No text annotation Not in a motif group | homologous HL_8C3A_007 HL_08002.9 | |
| HL_6C0F_009 | 1/1/304:311 | No text annotation Not in a motif group | geometric HL_5TBW_012 HL_86373.3 | |
| HL_6C0F_010 | 1/1/357:362 | No text annotation Not in a motif group | homologous HL_8C3A_010 HL_35490.1 | |
| HL_6C0F_011 | 1/1/382:387 | GNRA Not in a motif group | homologous HL_5TBW_011 HL_35490.1 | |
| HL_6C0F_012 | 1/1/462:468 | No text annotation Not in a motif group | geometric HL_6VMY_004 HL_91058.1 | |
| HL_6C0F_013 | 1/1/543:548 | No text annotation Not in a motif group | homologous HL_5TBW_012 HL_86373.3 | |
| HL_6C0F_014 | 1/1/599:604 | GNRA Not in a motif group | homologous HL_5TBW_013 HL_35490.1 | |
| HL_6C0F_015 | 1/1/686:694 | No text annotation Not in a motif group | homologous HL_8C3A_015 HL_03345.1 | |
| HL_6C0F_016 | 1/1/732:737 | GNRA Not in a motif group | homologous HL_5TBW_017 HL_35490.1 | |
| HL_6C0F_017 | 1/1/763:768 | No text annotation Not in a motif group | homologous HL_5TBW_018 HL_34168.2 | |
| HL_6C0F_020 | 1/1/1347:1357 | No text annotation Not in a motif group | homologous HL_8C3A_029 HL_60592.1 | |
| HL_6C0F_021 | 1/1/1403:1408 | GNRA Not in a motif group | homologous HL_5TBW_030 HL_35490.1 | |
| HL_6C0F_023 | 1/1/3025:3030 | GNRA Not in a motif group | geometric HL_4V9F_070 HL_35490.1 | |
| HL_6C0F_025 | 1/1/3110:3124 | No text annotation Not in a motif group | homologous HL_8C3A_068 HL_56677.7 | |
| HL_6C0F_026 | 1/1/3194:3197 | No text annotation Not in a motif group | homologous HL_5TBW_068 HL_98426.1 | |
| HL_6C0F_027 | 1/1/3240:3247 | No text annotation Not in a motif group | homologous HL_5TBW_069 HL_26380.1 | |
| HL_6C0F_028 | 1/1/3303:3311 | No text annotation Not in a motif group | homologous HL_8C3A_071 HL_64690.1 | |
| HL_6C0F_029 | 1/1/3350:3353 | No text annotation Not in a motif group | homologous HL_8C3A_072 HL_53837.2 | |
| HL_6C0F_030 | 1/2/69:89 | No text annotation Not in a motif group | ||
| HL_6C0F_031 | 1/2/108:114 | No text annotation Not in a motif group | homologous HL_5TBW_075 HL_53619.1 | |
| HL_6C0F_032 | 1/2/124:129 | No text annotation Not in a motif group | homologous HL_5TBW_076 HL_96851.2 | |
| HL_6C0F_033 | 1/6/11:17 | No text annotation Not in a motif group | ||
| HL_6C0F_034 | 1/6/37:42 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6C0F_001 | No text annotation | ||
| HL_6C0F_008 | No text annotation | ||
| HL_6C0F_018 | No text annotation | ||
| HL_6C0F_019 | No text annotation | ||
| HL_6C0F_022 | No text annotation | ||
| HL_6C0F_024 | No text annotation | ||
| HL_6C0F_035 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6C0F_001 | 1/1/7:8, 1/2/150:152 | No text annotation Not in a motif group | homologous IL_8C3A_002 IL_61258.12 | |
| IL_6C0F_002 | 1/1/13:15, 1/2/144:145 | No text annotation Not in a motif group | homologous IL_8C3A_003 IL_83039.16 | |
| IL_6C0F_003 | 1/1/27:28, 1/1/56:58 | No text annotation Not in a motif group | homologous IL_8C3A_004 IL_76488.3 | |
| IL_6C0F_004 | 1/1/82:89, 1/1/97:103 | No text annotation Not in a motif group | homologous IL_8C3A_006 IL_88613.1 | |
| IL_6C0F_005 | 1/1/123:124, 1/1/144:149 | No text annotation Not in a motif group | geometric IL_5TBW_007 IL_19724.2 | |
| IL_6C0F_006 | 1/1/125:127, 1/1/141:143 | No text annotation Not in a motif group | homologous IL_8C3A_008 IL_86319.2 | |
| IL_6C0F_007 | 1/1/164:166, 1/1/256:257 | Single stack bend Not in a motif group | homologous IL_5TBW_009 IL_76488.3 | |
| IL_6C0F_008 | 1/1/168:170, 1/1/248:254 | No text annotation Not in a motif group | ||
| IL_6C0F_009 | 1/1/177:178, 1/1/238:241 | No text annotation Not in a motif group | ||
| IL_6C0F_010 | 1/1/189:191, 1/1/204:205 | No text annotation Not in a motif group | homologous IL_8C3A_013 IL_83039.16 | |
| IL_6C0F_011 | 1/1/337:339, 1/2/25:26 | Single bulged A Not in a motif group | homologous IL_5TBW_013 IL_37497.5 | |
| IL_6C0F_012 | 1/1/376:379, 1/1/390:403 | No text annotation Not in a motif group | homologous IL_8C3A_015 IL_60992.6 | |
| IL_6C0F_013 | 1/1/404:410, 1/2/13:19 | Triple sheared with non-canonical cWW Not in a motif group | homologous IL_5TBW_015 IL_66414.6 | |
| IL_6C0F_014 | 1/1/429:431, 1/1/628:630 | No text annotation Not in a motif group | homologous IL_5TBW_016 IL_70707.1 | |
| IL_6C0F_015 | 1/1/445:449, 1/1/485:489 | No text annotation Not in a motif group | geometric IL_5BTM_001 IL_05145.2 | |
| IL_6C0F_016 | 1/1/452:454, 1/1/476:482 | Major groove minor groove platform with tHH Not in a motif group | geometric IL_4WF9_050 IL_37712.2 | |
| IL_6C0F_017 | 1/1/512:513, 1/1/577:579 | Single bulged A Not in a motif group | homologous IL_5TBW_018 IL_37497.5 | |
| IL_6C0F_018 | 1/1/517:525, 1/1/567:573 | No text annotation Not in a motif group | homologous IL_5TBW_019 IL_23992.1 | |
| IL_6C0F_019 | 1/1/531:538, 1/1/553:561 | No text annotation Not in a motif group | homologous IL_5TBW_020 IL_07703.1 | |
| IL_6C0F_020 | 1/1/668:670, 1/1/792:794 | No text annotation Not in a motif group | homologous IL_8C3A_023 IL_86319.2 | |
| IL_6C0F_021 | 1/1/680:684, 1/1/696:700 | No text annotation Not in a motif group | homologous IL_5TBW_022 IL_74284.1 | |
| IL_6C0F_022 | 1/1/725:728, 1/1/741:745 | No text annotation Not in a motif group | homologous IL_8C3A_025 IL_07235.1 | |
| IL_6C0F_023 | 1/1/752:753, 1/1/779:781 | Single bulged A Not in a motif group | homologous IL_5TBW_024 IL_37497.5 | |
| IL_6C0F_024 | 1/1/755:757, 1/1/774:777 | No text annotation Not in a motif group | geometric IL_4N0T_004 IL_46796.1 | |
| IL_6C0F_025 | 1/1/758:763, 1/1/768:773 | No text annotation Not in a motif group | homologous IL_5TBW_026 IL_19954.2 | |
| IL_6C0F_026 | 1/1/1167:1171, 1/1/1328:1332 | No text annotation Not in a motif group | homologous IL_8C3A_051 IL_89002.2 | |
| IL_6C0F_027 | 1/1/1173:1180, 1/1/1325:1326 | SSU/LSU pseudoknot Not in a motif group | homologous IL_5TBW_049 IL_15861.7 | |
| IL_6C0F_028 | 1/1/1180:1182, 1/1/1324:1325 | Single bulged U Not in a motif group | geometric IL_5TBW_050 IL_83039.16 | |
| IL_6C0F_029 | 1/1/1187:1194, 1/1/1314:1319 | No text annotation Not in a motif group | homologous IL_8C3A_054 IL_27086.1 | |
| IL_6C0F_030 | 1/1/1376:1378, 1/1/1428:1431 | No text annotation Not in a motif group | homologous IL_8C3A_061 IL_52767.4 | |
| IL_6C0F_031 | 1/1/1385:1387, 1/1/1420:1421 | No text annotation Not in a motif group | homologous IL_8C3A_062 IL_37497.5 | |
| IL_6C0F_032 | 1/1/1388:1395, 1/1/1415:1419 | Kink-turn Not in a motif group | homologous IL_5TBW_059 IL_70923.2 | |
| IL_6C0F_033 | 1/1/1398:1400, 1/1/1411:1412 | Single bulged A Not in a motif group | homologous IL_5TBW_060 IL_37497.5 | |
| IL_6C0F_034 | 1/1/1444:1450, 1/1/2354:2359 | No text annotation Not in a motif group | homologous IL_8C3A_065 IL_76042.2 | |
| IL_6C0F_036 | 1/1/3004:3007, 1/1/3139:3144 | No text annotation Not in a motif group | homologous IL_8C3A_123 IL_09705.10 | |
| IL_6C0F_037 | 1/1/3018:3025, 1/1/3030:3036 | 8x7 Sarcin-Ricin; G-bulge Not in a motif group | homologous IL_5TBW_116 IL_04346.7 | |
| IL_6C0F_038 | 1/1/3047:3051, 1/1/3091:3094 | No text annotation Not in a motif group | homologous IL_8C3A_126 IL_37712.2 | |
| IL_6C0F_039 | 1/1/3055:3059, 1/1/3084:3087 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_361D_001 IL_30621.3 | |
| IL_6C0F_040 | 1/1/3103:3107, 1/1/3127:3131 | UAA/GAN Not in a motif group | homologous IL_5TBW_120 IL_89002.2 | |
| IL_6C0F_041 | 1/1/3164:3166, 1/1/3284:3286 | No text annotation Not in a motif group | homologous IL_8C3A_130 IL_86319.2 | |
| IL_6C0F_042 | 1/1/3177:3179, 1/1/3210:3211 | Single bulged A Not in a motif group | homologous IL_5TBW_123 IL_37497.5 | |
| IL_6C0F_043 | 1/1/3179:3188, 1/1/3204:3210 | No text annotation Not in a motif group | geometric IL_5TBW_124 IL_15174.1 | |
| IL_6C0F_044 | 1/1/3193:3194, 1/1/3197:3199 | Single bulged U Not in a motif group | geometric IL_5TBW_125 IL_83039.16 | |
| IL_6C0F_045 | 1/1/3225:3229, 1/1/3258:3260 | No text annotation Not in a motif group | homologous IL_5TBW_126 IL_19389.6 | |
| IL_6C0F_046 | 1/1/3233:3235, 1/1/3252:3254 | No text annotation Not in a motif group | homologous IL_5TBW_127 IL_86319.2 | |
| IL_6C0F_047 | 1/1/3235:3238, 1/1/3249:3252 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6MWN_005 IL_30621.3 | |
| IL_6C0F_048 | 1/1/3300:3303, 1/1/3311:3314 | Tandem non-canonical cWW pairs Not in a motif group | geometric IL_6MWN_005 IL_30621.3 | |
| IL_6C0F_049 | 1/1/3318:3320, 1/1/3387:3388 | Single bulged U Not in a motif group | geometric IL_5TBW_130 IL_83039.16 | |
| IL_6C0F_050 | 1/1/3324:3325, 1/1/3381:3383 | Single bulged U Not in a motif group | homologous IL_5TBW_131 IL_83039.16 | |
| IL_6C0F_051 | 1/1/3328:3330, 1/1/3373:3378 | No text annotation Not in a motif group | homologous IL_8C3A_138 IL_90933.2 | |
| IL_6C0F_052 | 1/1/3332:3337, 1/1/3367:3371 | No text annotation Not in a motif group | homologous IL_8C3A_139 IL_83162.5 | |
| IL_6C0F_053 | 1/1/3340:3342, 1/1/3363:3364 | Single bulged U Not in a motif group | geometric IL_1ET4_002 IL_83039.16 | |
| IL_6C0F_054 | 1/1/3342:3345, 1/1/3360:3363 | No text annotation Not in a motif group | homologous IL_8C3A_141 IL_09705.10 | |
| IL_6C0F_055 | 1/1/3349:3350, 1/1/3353:3356 | Multiple bulged bases Not in a motif group | geometric IL_7V9E_001 IL_59677.2 | |
| IL_6C0F_056 | 1/2/44:64, 1/2/96:100 | No text annotation Not in a motif group | geometric IL_5TBW_144 IL_44998.1 | |
| IL_6C0F_057 | 1/2/64:66, 1/2/93:96 | Isolated non-canonical cWW with bulges Not in a motif group | homologous IL_5TBW_145 IL_43275.1 | |
| IL_6C0F_058 | 1/2/68:69, 1/2/89:91 | Single bulged U Not in a motif group | geometric IL_5TBW_146 IL_83039.16 | |
| IL_6C0F_059 | 1/6/26:27, 1/6/51:54 | Multiple bulged bases Not in a motif group | geometric IL_5WLH_001 IL_44546.1 | |
| IL_6C0F_060 | 1/6/30:34, 1/6/45:48 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6C0F_035 | Multiple bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6C0F_001 | 1/1/113:123, 1/1/149:158, 1/1/263:267 | No text annotation Not in a motif group | ||
| J3_6C0F_002 | 1/1/369:376, 1/1/403:404, 1/2/19:20 | No text annotation Not in a motif group | homologous J3_5TBW_002 NA | |
| J3_6C0F_003 | 1/1/502:503, 1/1/588:597, 1/1/606:611 | No text annotation Not in a motif group | homologous J3_5TBW_003 NA | |
| J3_6C0F_005 | 1/1/3298:3300, 1/1/3314:3318, 1/1/3388:3390 | No text annotation Not in a motif group |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6C0F_004 | No text annotation |
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