9XTD Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9XTD_001 | 1/A/12:22 | No text annotation | homologous HL_6CZR_072 NA | |
| HL_9XTD_003 | 1/A/158:163 | GNRA | homologous HL_6CZR_074 NA | |
| HL_9XTD_004 | 1/A/186:191 | No text annotation | geometric HL_9H3G_075 HL_34789.5 | |
| HL_9XTD_005 | 1/A/207:212 | UNCG | geometric HL_3U4M_001 HL_61337.5 | |
| HL_9XTD_006 | 1/A/259:267 | GNRA related | homologous HL_6CZR_077 NA | |
| HL_9XTD_007 | 1/A/296:301 | GNRA | homologous HL_6CZR_078 NA | |
| HL_9XTD_008 | 1/A/320:333 | No text annotation | homologous HL_6CZR_079 NA | |
| HL_9XTD_009 | 1/A/342:347 | UNCG | homologous HL_6CZR_080 NA | |
| HL_9XTD_010 | 1/A/379:384 | GNRA | homologous HL_6CZR_081 NA | |
| HL_9XTD_011 | 1/A/419:424 | No text annotation | homologous HL_6CZR_082 NA | |
| HL_9XTD_012 | 1/A/462:470 | No text annotation | geometric HL_8B0X_011 HL_98423.4 | |
| HL_9XTD_013 | 1/A/522:527 | GNRA variation | homologous HL_6CZR_216 NA | |
| HL_9XTD_014 | 1/A/617:623 | No text annotation | homologous HL_6CZR_085 NA | |
| HL_9XTD_015 | 1/A/689:698 | No text annotation | homologous HL_6CZR_086 NA | |
| HL_9XTD_016 | 1/A/726:731 | GNRA | homologous HL_6CZR_087 NA | |
| HL_9XTD_017 | 1/A/786:796 | No text annotation | ||
| HL_9XTD_018 | 1/A/840:846 | No text annotation | ||
| HL_9XTD_019 | 1/A/862:867 | GNRA | homologous HL_6CZR_090 NA | |
| HL_9XTD_020 | 1/A/897:902 | GNRA | homologous HL_6CZR_091 NA | |
| HL_9XTD_021 | 1/A/1076:1081 | GNRA | homologous HL_6CZR_095 NA | |
| HL_9XTD_022 | 1/A/1089:1096 | T-loop related | homologous HL_6CZR_096 NA | |
| HL_9XTD_023 | 1/A/1449:1454 | UNCG | geometric HL_5D5L_003 HL_61337.5 | |
| HL_9XTD_024 | 1/A/1515:1520 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9XTD_002 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9XTD_001 | 1/A/30:32, 1/A/552:553 | Single bulged G | homologous IL_6CZR_113 NA | |
| IL_9XTD_002 | 1/A/44:45, 1/A/396:398 | Single bulged A | homologous IL_6CZR_114 NA | |
| IL_9XTD_003 | 1/A/47:52, 1/A/359:361 | No text annotation | geometric IL_8B0X_003 IL_32983.2 | |
| IL_9XTD_004 | 1/A/54:56, 1/A/356:357 | Minor groove platform | homologous IL_6CZR_116 NA | |
| IL_9XTD_005 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | homologous IL_6CZR_117 NA | |
| IL_9XTD_006 | 1/A/67:69, 1/A/99:102 | No text annotation | geometric IL_8B0X_006 IL_82096.1 | |
| IL_9XTD_007 | 1/A/70:73, 1/A/97:98 | No text annotation | geometric IL_8B0X_007 IL_87975.1 | |
| IL_9XTD_008 | 1/A/75:76, 1/A/93:95 | No text annotation | geometric IL_8B0X_008 IL_28408.3 | |
| IL_9XTD_009 | 1/A/128:131, 1/A/231:233 | No text annotation | geometric IL_8B0X_009 IL_76400.2 | |
| IL_9XTD_010 | 1/A/132:136, 1/A/227:230 | Minor groove platform related | homologous IL_6CZR_120 NA | |
| IL_9XTD_011 | 1/A/144:146, 1/A/176:178 | No text annotation | geometric IL_8B0X_011 IL_10892.3 | |
| IL_9XTD_012 | 1/A/147:153, 1/A/168:175 | tWH-tWH-tHW-tHW | homologous IL_6CZR_121 NA | |
| IL_9XTD_013 | 1/A/203:206, 1/A/213:214 | No text annotation | geometric IL_9E6Q_071 IL_87975.1 | |
| IL_9XTD_014 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | homologous IL_6CZR_123 NA | |
| IL_9XTD_015 | 1/A/249:252, 1/A/274:275 | No text annotation | homologous IL_6CZR_405 NA | |
| IL_9XTD_016 | 1/A/292:293, 1/A/304:308 | C-loop | homologous IL_6CZR_125 NA | |
| IL_9XTD_017 | 1/A/367:369, 1/A/392:393 | Single bulged U | homologous IL_6CZR_126 NA | |
| IL_9XTD_018 | 1/A/371:375, 1/A/389:390 | C-loop | homologous IL_6CZR_127 NA | |
| IL_9XTD_019 | 1/A/375:376, 1/A/387:389 | Single bulged G | homologous IL_6CZR_358 NA | |
| IL_9XTD_020 | 1/A/409:416, 1/A/427:433 | No text annotation | geometric IL_8B0X_019 IL_62329.1 | |
| IL_9XTD_021 | 1/A/440:442, 1/A/492:497 | No text annotation | geometric IL_8B0X_020 IL_02111.1 | |
| IL_9XTD_022 | 1/A/446:450, 1/A/483:488 | tWW-tWH-tHS | geometric IL_8B0X_021 IL_82100.1 | |
| IL_9XTD_023 | 1/A/450:455, 1/A/477:483 | No text annotation | homologous IL_6CZR_406 NA | |
| IL_9XTD_024 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | homologous IL_6CZR_132 NA | |
| IL_9XTD_025 | 1/A/515:521, 1/A/528:536 | Kink-turn related | homologous IL_6CZR_133 NA | |
| IL_9XTD_026 | 1/A/569:575, 1/A/880:881 | No text annotation | homologous IL_6CZR_134 NA | |
| IL_9XTD_027 | 1/A/580:584, 1/A/757:761 | tSH-tWH-tHS | homologous IL_6CZR_135 NA | |
| IL_9XTD_028 | 1/A/594:596, 1/A/644:645 | Major groove platform | homologous IL_6CZR_407 NA | |
| IL_9XTD_029 | 1/A/597:598, 1/A/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_6CZR_137 NA | |
| IL_9XTD_030 | 1/A/605:612, 1/A/628:633 | No text annotation | homologous IL_6CZR_408 NA | |
| IL_9XTD_031 | 1/A/654:655, 1/A/751:754 | No text annotation | geometric IL_8B0X_030 IL_74641.3 | |
| IL_9XTD_032 | 1/A/659:660, 1/A/745:747 | Single stack bend | geometric IL_7A0S_054 IL_15011.4 | |
| IL_9XTD_033 | 1/A/662:666, 1/A/740:743 | Tandem non-canonical cWW pairs | homologous IL_6CZR_141 NA | |
| IL_9XTD_034 | 1/A/673:677, 1/A/713:717 | Triple non-canonical cWW pairs | homologous IL_6CZR_409 NA | |
| IL_9XTD_035 | 1/A/684:688, 1/A/699:706 | Kink-turn | geometric IL_4WF9_004 IL_71972.2 | |
| IL_9XTD_036 | 1/A/774:778, 1/A/804:805 | Left turn | homologous IL_6CZR_144 NA | |
| IL_9XTD_037 | 1/A/779:783, 1/A/799:803 | tSH-tWH-tHS | homologous IL_6CZR_145 NA | |
| IL_9XTD_038 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_6CZR_364 NA | |
| IL_9XTD_042 | 1/A/1430:1435, 1/A/1466:1470 | No text annotation | geometric IL_8GLP_051 IL_47352.3 | |
| IL_9XTD_043 | 1/A/1440:1442, 1/A/1460:1461 | No text annotation | geometric IL_2OZB_003 IL_14190.3 | |
| IL_9XTD_044 | 1/A/1445:1448, 1/A/1455:1457 | No text annotation | geometric IL_8B0X_064 IL_05502.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9XTD_039 | No text annotation | ||
| IL_9XTD_040 | No text annotation | ||
| IL_9XTD_041 | Double sheared |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9XTD_001 | 1/A/46:47, 1/A/361:367, 1/A/393:395 | No text annotation | geometric J3_8B0X_001 J3_58657.2 | |
| J3_9XTD_002 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | homologous J3_6CZR_058 NA | |
| J3_9XTD_003 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | geometric J3_8B0X_002 J3_01633.2 | |
| J3_9XTD_004 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | homologous J3_6CZR_077 NA | |
| J3_9XTD_005 | 1/A/672:673, 1/A/717:725, 1/A/732:734 | No text annotation | homologous J3_6CZR_017 NA | |
| J3_9XTD_006 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | homologous J3_6CZR_018 NA | |
| J3_9XTD_007 | 1/A/1073:1074, 1/A/1083:1086, 1/A/1099:1102 | No text annotation | homologous J3_6CZR_079 NA | |
| J4_9XTD_001 | 1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312 | No text annotation | homologous J4_6CZR_027 NA | |
| J4_9XTD_002 | 1/A/142:144, 1/A/178:184, 1/A/193:198, 1/A/219:221 | No text annotation | ||
| J4_9XTD_003 | 1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880 | No text annotation | homologous J4_6CZR_013 NA | |
| J4_9XTD_004 | 1/A/923:927, 1/A/1390:1397, 1/A/1505:1507, 1/A/1528:1532 | No text annotation | ||
| J5_9XTD_001 | 1/A/36:39, 1/A/403:406, 1/A/436:440, 1/A/497:500, 1/A/545:548 | No text annotation | ||
| J5_9XTD_002 | 1/A/36:39, 1/A/403:406, 1/A/436:442, 1/A/492:500, 1/A/545:548 | No text annotation | ||
| J5_9XTD_003 | 1/A/58:61, 1/A/106:113, 1/A/314:316, 1/A/337:339, 1/A/350:354 | No text annotation | homologous J5_6CZR_021 NA |
Problematic loops
No problematic loops
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