7OHP Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7OHP_002 | 1/1/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_7OHP_005 | 1/1/194:201 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_7OHP_006 | 1/1/208:212 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_7OHP_007 | 1/1/216:224 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_7OHP_016 | 1/1/686:694 | No text annotation | homologous HL_8C3A_015 NA | |
| HL_7OHP_027 | 1/1/1403:1408 | GNRA | homologous HL_8C3A_030 NA | |
| HL_7OHP_035 | 1/1/3240:3247 | No text annotation | homologous HL_5TBW_069 NA | |
| HL_7OHP_039 | 1/2/69:89 | No text annotation | homologous HL_8P4V_073 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7OHP_001 | No text annotation | ||
| HL_7OHP_003 | No text annotation | ||
| HL_7OHP_004 | No text annotation | ||
| HL_7OHP_008 | No text annotation | ||
| HL_7OHP_009 | No text annotation | ||
| HL_7OHP_010 | GNRA | ||
| HL_7OHP_011 | No text annotation | ||
| HL_7OHP_012 | No text annotation | ||
| HL_7OHP_013 | No text annotation | ||
| HL_7OHP_014 | GNRA | ||
| HL_7OHP_044 | No text annotation | ||
| HL_7OHP_015 | No text annotation | ||
| HL_7OHP_017 | GNRA related | ||
| HL_7OHP_018 | No text annotation | ||
| HL_7OHP_019 | No text annotation | ||
| HL_7OHP_020 | No text annotation | ||
| HL_7OHP_021 | No text annotation | ||
| HL_7OHP_022 | No text annotation | ||
| HL_7OHP_023 | No text annotation | ||
| HL_7OHP_024 | No text annotation | ||
| HL_7OHP_025 | GNRA wlth tandem sheared | ||
| HL_7OHP_026 | No text annotation | ||
| HL_7OHP_028 | No text annotation | ||
| HL_7OHP_029 | No text annotation | ||
| HL_7OHP_030 | No text annotation | ||
| HL_7OHP_031 | GNRA related | ||
| HL_7OHP_032 | No text annotation | ||
| HL_7OHP_045 | No text annotation | ||
| HL_7OHP_046 | No text annotation | ||
| HL_7OHP_033 | No text annotation | ||
| HL_7OHP_034 | No text annotation | ||
| HL_7OHP_036 | No text annotation | ||
| HL_7OHP_037 | No text annotation | ||
| HL_7OHP_038 | Pseudoknot with intercalation | ||
| HL_7OHP_040 | No text annotation | ||
| HL_7OHP_041 | Externally structured | ||
| HL_7OHP_042 | No text annotation | ||
| HL_7OHP_043 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7OHP_003 | 1/1/27:28, 1/1/56:58 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_7OHP_004 | 1/1/82:89, 1/1/97:103 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_7OHP_005 | 1/1/123:124, 1/1/144:149 | No text annotation | homologous IL_8C3A_007 NA | |
| IL_7OHP_006 | 1/1/125:127, 1/1/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_7OHP_008 | 1/1/169:171, 1/1/247:253 | No text annotation | ||
| IL_7OHP_011 | 1/1/337:339, 1/2/25:26 | Single bulged A | homologous IL_5TBW_013 NA | |
| IL_7OHP_014 | 1/1/427:430, 1/1/630:632 | No text annotation | geometric IL_4N0T_004 IL_32983.1 | |
| IL_7OHP_065 | 1/1/430:431, 1/1/628:630 | Single stack bend | geometric IL_4C7O_002 NA | |
| IL_7OHP_016 | 1/1/512:513, 1/1/577:579 | Single bulged A | homologous IL_8C3A_020 NA | |
| IL_7OHP_017 | 1/1/517:525, 1/1/567:573 | No text annotation | homologous IL_5TBW_019 NA | |
| IL_7OHP_018 | 1/1/531:538, 1/1/553:561 | No text annotation | homologous IL_5TBW_020 NA | |
| IL_7OHP_020 | 1/1/666:667, 1/1/795:797 | Single stack bend | geometric IL_4V9F_081 IL_15011.1 | |
| IL_7OHP_022 | 1/1/680:684, 1/1/696:700 | No text annotation | homologous IL_5TBW_022 NA | |
| IL_7OHP_023 | 1/1/725:728, 1/1/741:745 | No text annotation | homologous IL_8C3A_025 NA | |
| IL_7OHP_025 | 1/1/803:805, 1/1/938:940 | Isolated non-canonical cWW pair | geometric IL_4LFB_010 IL_01003.1 | |
| IL_7OHP_031 | 1/1/1167:1171, 1/1/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_7OHP_032 | 1/1/1173:1180, 1/1/1325:1326 | SSU/LSU pseudoknot | homologous IL_8C3A_052 NA | |
| IL_7OHP_033 | 1/1/1180:1182, 1/1/1324:1325 | Single bulged U | geometric IL_5TBW_050 NA | |
| IL_7OHP_036 | 1/1/1207:1209, 1/1/1296:1297 | Single bulged U | homologous IL_5TBW_053 NA | |
| IL_7OHP_040 | 1/1/1376:1378, 1/1/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_7OHP_041 | 1/1/1385:1387, 1/1/1420:1421 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_7OHP_042 | 1/1/1388:1395, 1/1/1415:1419 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_7OHP_043 | 1/1/1398:1400, 1/1/1411:1412 | Single bulged A | homologous IL_5TBW_060 NA | |
| IL_7OHP_052 | 1/1/3177:3179, 1/1/3210:3211 | Single bulged A | homologous IL_5TBW_123 NA | |
| IL_7OHP_053 | 1/1/3179:3188, 1/1/3204:3210 | No text annotation | geometric IL_5TBW_124 NA | |
| IL_7OHP_066 | 1/2/64:66, 1/2/93:96 | Isolated non-canonical cWW with bulges | geometric IL_8P9A_371 IL_68118.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7OHP_001 | Single bulged C | ||
| IL_7OHP_002 | Single bulged U | ||
| IL_7OHP_007 | Single bulged A | ||
| IL_7OHP_009 | Major groove platform with extra pair | ||
| IL_7OHP_010 | Single bulged U | ||
| IL_7OHP_012 | No text annotation | ||
| IL_7OHP_013 | Triple sheared with non-canonical cWW | ||
| IL_7OHP_015 | No text annotation | ||
| IL_7OHP_019 | Single stack bend | ||
| IL_7OHP_021 | Isolated non-canonical cWW pair | ||
| IL_7OHP_024 | No text annotation | ||
| IL_7OHP_026 | No text annotation | ||
| IL_7OHP_027 | No text annotation | ||
| IL_7OHP_028 | No text annotation | ||
| IL_7OHP_029 | Single bulged G | ||
| IL_7OHP_063 | No text annotation | ||
| IL_7OHP_030 | No text annotation | ||
| IL_7OHP_034 | No text annotation | ||
| IL_7OHP_035 | No text annotation | ||
| IL_7OHP_037 | No text annotation | ||
| IL_7OHP_038 | No text annotation | ||
| IL_7OHP_039 | Major groove platform with extra cWW | ||
| IL_7OHP_044 | Double sheared | ||
| IL_7OHP_045 | Isolated non-canonical cWW pair | ||
| IL_7OHP_046 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_7OHP_047 | Major groove minor groove platform with tHH | ||
| IL_7OHP_048 | No text annotation | ||
| IL_7OHP_049 | UAA/GAN | ||
| IL_7OHP_050 | Isolated non-canonical cWW pair | ||
| IL_7OHP_051 | Isolated non-canonical cWW pair | ||
| IL_7OHP_054 | No text annotation | ||
| IL_7OHP_055 | Isolated non-canonical cWW pair | ||
| IL_7OHP_056 | Tandem non-canonical cWW pairs | ||
| IL_7OHP_057 | Single bulged U | ||
| IL_7OHP_058 | No text annotation | ||
| IL_7OHP_059 | Isolated non-canonical cWW with bulges | ||
| IL_7OHP_060 | No text annotation | ||
| IL_7OHP_061 | Single bulged U | ||
| IL_7OHP_064 | Tandem non-canonical cWW pairs | ||
| IL_7OHP_062 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7OHP_001 | 1/1/113:123, 1/1/149:158, 1/1/263:267 | No text annotation | homologous J3_8P9A_042 J3_69230.1 | |
| J3_7OHP_007 | 1/1/113:124, 1/1/144:158, 1/1/263:267 | No text annotation | ||
| J3_7OHP_002 | 1/1/369:376, 1/1/403:404, 1/2/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_7OHP_003 | 1/1/502:503, 1/1/588:597, 1/1/606:611 | No text annotation | homologous J3_5TBW_003 NA | |
| J3_7OHP_008 | 1/1/3168:3176, 1/1/3212:3220, 1/1/3265:3282 | No text annotation | ||
| J4_7OHP_002 | 1/1/185:189, 1/1/205:208, 1/1/212:214, 1/1/226:231 | No text annotation | homologous J4_8P9A_013 J4_43318.1 | |
| J5_7OHP_001 | 1/1/20:22, 1/2/35:42, 1/2/102:107, 1/2/115:116, 1/2/137:139 | No text annotation | homologous J5_8P9A_010 J5_27223.1 | |
| J5_7OHP_002 | 1/1/658:663, 1/1/799:802, 1/1/941:944, 1/1/1375:1376, 1/1/1431:1437 | No text annotation | ||
| J6_7OHP_003 | 1/1/22:27, 1/1/58:68, 1/1/75:79, 1/1/106:110, 1/1/321:331, 1/2/32:35 | No text annotation | ||
| J6_7OHP_002 | 1/1/949:969, 1/1/1113:1117, 1/1/1141:1146, 1/1/1157:1161, 1/1/1338:1339, 1/1/1365:1370 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7OHP_004 | No text annotation | ||
| J3_7OHP_005 | No text annotation | ||
| J3_7OHP_009 | No text annotation | ||
| J3_7OHP_006 | No text annotation | ||
| J4_7OHP_001 | No text annotation | ||
| J4_7OHP_003 | No text annotation | ||
| J6_7OHP_001 | No text annotation |
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