7OIA Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7OIA_001 | 1/A/52:59 | No text annotation | geometric HL_4WF9_006 HL_48677.1 | |
| HL_7OIA_002 | 1/A/76:82 | No text annotation | geometric HL_7A0S_008 HL_76371.1 | |
| HL_7OIA_003 | 1/A/116:121 | GNRA | homologous HL_7RQB_015 NA | |
| HL_7OIA_004 | 1/A/161:169 | No text annotation | homologous HL_7RQB_017 NA | |
| HL_7OIA_006 | 1/A/214:219 | No text annotation | geometric HL_7RQB_011 NA | |
| HL_7OIA_008 | 1/A/318:326 | No text annotation | geometric HL_5TBW_021 NA | |
| HL_7OIA_009 | 1/A/365:370 | No text annotation | homologous HL_5J7L_157 NA | |
| HL_7OIA_011 | 1/A/437:444 | GNRA | homologous HL_4WF9_027 HL_34789.1 | |
| HL_7OIA_012 | 1/A/459:466 | No text annotation | homologous HL_4WF9_028 HL_47171.1 | |
| HL_7OIA_015 | 1/A/609:616 | No text annotation | geometric HL_5E6M_002 HL_37734.1 | |
| HL_7OIA_016 | 1/A/649:654 | UNCG | geometric HL_6JQ6_004 NA | |
| HL_7OIA_018 | 1/A/730:733 | Mini UNCG | geometric HL_7A0S_039 HL_90436.1 | |
| HL_7OIA_020 | 1/A/848:862 | No text annotation | ||
| HL_7OIA_023 | 1/A/1142:1150 | No text annotation | homologous HL_5J7L_186 NA | |
| HL_7OIA_024 | 1/A/1158:1170 | No text annotation | ||
| HL_7OIA_025 | 1/A/1192:1200 | No text annotation | geometric HL_2ZZM_002 NA | |
| HL_7OIA_026 | 1/A/1232:1237 | GNRA | geometric HL_6N2V_002 HL_34789.1 | |
| HL_7OIA_028 | 1/A/1484:1489 | No text annotation | geometric HL_5FMZ_001 HL_19413.1 | |
| HL_7OIA_029 | 1/A/1506:1523 | No text annotation | geometric HL_7A0S_074 NA | |
| HL_7OIA_030 | 1/A/1546:1554 | No text annotation | geometric HL_7RQB_068 NA | |
| HL_7OIA_032 | 1/B/1630:1638 | Anticodon loop related | geometric HL_5T83_002 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7OIA_005 | No text annotation | ||
| HL_7OIA_007 | Mini UNCG | ||
| HL_7OIA_010 | No text annotation | ||
| HL_7OIA_013 | No text annotation | ||
| HL_7OIA_036 | Pseudoknot geometry | ||
| HL_7OIA_014 | GNRA wlth tandem sheared | ||
| HL_7OIA_017 | No text annotation | ||
| HL_7OIA_019 | No text annotation | ||
| HL_7OIA_021 | No text annotation | ||
| HL_7OIA_022 | No text annotation | ||
| HL_7OIA_027 | GNRA | ||
| HL_7OIA_031 | tRNA D-loop | ||
| HL_7OIA_033 | No text annotation | ||
| HL_7OIA_034 | No text annotation | ||
| HL_7OIA_035 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7OIA_002 | 1/A/12:13, 1/A/98:100 | Single bulged A | homologous IL_7A0S_002 IL_14190.1 | |
| IL_7OIA_003 | 1/A/69:75, 1/A/83:88 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_5J7L_251 NA | |
| IL_7OIA_004 | 1/A/175:177, 1/A/186:188 | Isolated non-canonical cWW pair | geometric IL_4WF9_017 IL_71625.1 | |
| IL_7OIA_005 | 1/A/207:209, 1/A/225:227 | Isolated non-canonical cWW pair | geometric IL_3GM7_002 IL_01003.1 | |
| IL_7OIA_006 | 1/A/210:213, 1/A/220:224 | No text annotation | ||
| IL_7OIA_007 | 1/A/234:236, 1/A/346:348 | Isolated non-canonical cWW pair | homologous IL_4WF9_020 IL_01003.1 | |
| IL_7OIA_008 | 1/A/236:240, 1/A/339:346 | tHW-tHW cross-strand stack | geometric IL_7RQB_018 NA | |
| IL_7OIA_009 | 1/A/243:245, 1/A/334:336 | Isolated non-canonical cWW pair | geometric IL_5TBW_079 NA | |
| IL_7OIA_010 | 1/A/255:257, 1/A/307:309 | Isolated non-canonical cWW pair | geometric IL_1MFQ_003 IL_01003.1 | |
| IL_7OIA_011 | 1/A/259:260, 1/A/303:305 | Single bulged A | geometric IL_5J7L_261 NA | |
| IL_7OIA_012 | 1/A/315:317, 1/A/327:331 | Multiple bulged bases | geometric IL_7A0S_021 IL_89509.1 | |
| IL_7OIA_013 | 1/A/376:378, 1/A/421:424 | No text annotation | geometric IL_4N0T_004 IL_32983.1 | |
| IL_7OIA_014 | 1/A/387:393, 1/A/406:412 | No text annotation | geometric IL_5XWG_002 NA | |
| IL_7OIA_015 | 1/A/475:477, 1/A/584:585 | Single bulged C | homologous IL_5J7L_276 NA | |
| IL_7OIA_016 | 1/A/479:483, 1/A/578:582 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_7OIA_020 | 1/A/636:643, 1/A/1004:1010 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_7OIA_038 | 1/A/660:663, 1/A/771:777 | No text annotation | ||
| IL_7OIA_039 | 1/A/707:711, 1/A/741:749 | No text annotation | ||
| IL_7OIA_040 | 1/A/714:730, 1/A/733:738 | No text annotation | ||
| IL_7OIA_022 | 1/A/786:791, 1/A/996:998 | No text annotation | ||
| IL_7OIA_023 | 1/A/797:799, 1/A/988:990 | Isolated tWW turn | homologous IL_4WF9_063 IL_10432.1 | |
| IL_7OIA_024 | 1/A/800:803, 1/A/986:987 | Major groove platform; stack outside cWW | homologous IL_7RQB_066 NA | |
| IL_7OIA_025 | 1/A/1042:1045, 1/A/1434:1436 | No text annotation | geometric IL_6DME_003 IL_75527.1 | |
| IL_7OIA_027 | 1/A/1060:1062, 1/A/1259:1260 | Single bulged U | homologous IL_7RQB_080 NA | |
| IL_7OIA_028 | 1/A/1063:1064, 1/A/1255:1258 | Minor groove platform | homologous IL_7RQB_081 NA | |
| IL_7OIA_029 | 1/A/1074:1076, 1/A/1132:1133 | Minor groove platform | geometric IL_7A0S_003 IL_34520.1 | |
| IL_7OIA_031 | 1/A/1186:1190, 1/A/1202:1206 | Double sheared with non-canonical cWW | geometric IL_5J7L_274 NA | |
| IL_7OIA_032 | 1/A/1445:1447, 1/A/1469:1471 | Isolated non-canonical cWW pair | geometric IL_3GM7_005 IL_01003.1 | |
| IL_7OIA_034 | 1/A/1478:1482, 1/A/1491:1493 | C-loop | geometric IL_7RQB_104 NA | |
| IL_7OIA_035 | 1/B/1627:1629, 1/B/1639:1641 | Isolated non-canonical cWW pair | geometric IL_3SZX_003 IL_01003.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7OIA_001 | No text annotation | ||
| IL_7OIA_017 | Isolated near basepair | ||
| IL_7OIA_018 | No text annotation | ||
| IL_7OIA_037 | No text annotation | ||
| IL_7OIA_041 | Single stack bend | ||
| IL_7OIA_019 | No text annotation | ||
| IL_7OIA_021 | No text annotation | ||
| IL_7OIA_026 | No text annotation | ||
| IL_7OIA_030 | No text annotation | ||
| IL_7OIA_033 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_7OIA_036 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7OIA_004 | 1/A/8:11, 1/A/101:115, 1/A/122:127 | No text annotation | ||
| J3_7OIA_001 | 1/A/245:251, 1/A/313:315, 1/A/331:334 | No text annotation | homologous J3_4WF9_002 J3_46658.1 | |
| J3_7OIA_002 | 1/A/666:673, 1/A/753:757, 1/A/766:768 | No text annotation | ||
| J3_7OIA_003 | 1/A/673:675, 1/A/698:705, 1/A/751:753 | No text annotation | ||
| J3_7OIA_005 | 1/A/1176:1178, 1/A/1220:1230, 1/A/1239:1245 | No text annotation | ||
| J4_7OIA_001 | 1/A/644:647, 1/A/656:657, 1/A/780:783, 1/A/1001:1003 | No text annotation | ||
| J4_7OIA_002 | 1/A/666:675, 1/A/698:705, 1/A/751:757, 1/A/766:768 | No text annotation | ||
| J5_7OIA_001 | 1/A/157:159, 1/A/171:175, 1/A/188:190, 1/A/635:636, 1/A/1010:1011 | No text annotation | homologous J5_9DFE_003 J5_43153.6 | |
| J5_7OIA_002 | 1/A/195:205, 1/A/229:233, 1/A/349:352, 1/A/601:605, 1/A/620:630 | No text annotation | ||
| J5_7OIA_003 | 1/A/1067:1070, 1/A/1137:1140, 1/A/1152:1153, 1/A/1175:1176, 1/A/1245:1252 | No text annotation | homologous J5_7A0S_007 J5_39529.2 | |
| J6_7OIA_001 | 1/A/357:362, 1/A/373:374, 1/A/426:428, 1/A/453:457, 1/A/468:473, 1/A/587:596 | No text annotation | ||
| J6_7OIA_002 | 1/A/1067:1070, 1/A/1137:1140, 1/A/1152:1153, 1/A/1175:1178, 1/A/1220:1230, 1/A/1239:1252 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7OIA_007 | No text annotation | ||
| J3_7OIA_006 | No text annotation |
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