9H9J Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9H9J_001 | 1/A/12:22 | No text annotation | geometric HL_8CRE_191 HL_31940.1 | |
| HL_9H9J_003 | 1/A/158:163 | GNRA | geometric HL_5FJC_002 HL_34789.1 | |
| HL_9H9J_004 | 1/A/186:191 | GNRA | geometric HL_6DVK_001 NA | |
| HL_9H9J_006 | 1/A/259:267 | GNRA related | geometric HL_5J7L_006 NA | |
| HL_9H9J_007 | 1/A/296:301 | GNRA | geometric HL_5J7L_007 NA | |
| HL_9H9J_008 | 1/A/320:333 | No text annotation | geometric HL_5J7L_008 NA | |
| HL_9H9J_010 | 1/A/379:384 | GNRA | geometric HL_5J7L_004 NA | |
| HL_9H9J_011 | 1/A/419:424 | UNCG | geometric HL_5J7L_030 NA | |
| HL_9H9J_012 | 1/A/462:470 | GNRA wlth extra near cWW | geometric HL_5J7L_012 NA | |
| HL_9H9J_013 | 1/A/522:527 | GNRA variation | geometric HL_4LFB_033 HL_34789.1 | |
| HL_9H9J_014 | 1/A/617:623 | GNRA-like with tWH | geometric HL_4LFB_014 HL_92337.1 | |
| HL_9H9J_015 | 1/A/689:698 | No text annotation | geometric HL_4LFB_015 HL_38491.1 | |
| HL_9H9J_016 | 1/A/726:731 | GNRA | geometric HL_8CRE_211 HL_34789.1 | |
| HL_9H9J_017 | 1/A/786:796 | No text annotation | geometric HL_5J7L_017 NA | |
| HL_9H9J_019 | 1/A/862:867 | GNRA | geometric HL_4LCK_004 HL_34789.1 | |
| HL_9H9J_020 | 1/A/897:902 | GNRA | geometric HL_4LFB_020 HL_34789.1 | |
| HL_9H9J_021 | 1/A/1449:1454 | UNCG | geometric HL_5J7L_030 NA | |
| HL_9H9J_022 | 1/A/1515:1520 | GNRA | geometric HL_4LFB_032 HL_34789.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9H9J_002 | No text annotation | ||
| HL_9H9J_005 | No text annotation | ||
| HL_9H9J_009 | UNCG | ||
| HL_9H9J_018 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9H9J_001 | 1/A/30:32, 1/A/552:553 | Single bulged G | geometric IL_5J7L_001 NA | |
| IL_9H9J_002 | 1/A/44:45, 1/A/396:398 | Single bulged A | geometric IL_5J7L_002 NA | |
| IL_9H9J_003 | 1/A/47:52, 1/A/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_9H9J_004 | 1/A/54:56, 1/A/356:357 | Minor groove platform | geometric IL_4LFB_004 IL_34520.1 | |
| IL_9H9J_005 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | geometric IL_5J7L_005 NA | |
| IL_9H9J_006 | 1/A/67:69, 1/A/99:102 | Minor groove platform with extra cWW | geometric IL_5J7L_006 NA | |
| IL_9H9J_007 | 1/A/70:73, 1/A/97:98 | Minor groove platform | geometric IL_5J7L_007 NA | |
| IL_9H9J_008 | 1/A/75:76, 1/A/93:95 | Single bulged G | geometric IL_5DEA_002 NA | |
| IL_9H9J_009 | 1/A/128:131, 1/A/231:233 | Isolated non-canonical cWW pair | geometric IL_5J7L_009 NA | |
| IL_9H9J_010 | 1/A/132:136, 1/A/227:230 | Minor groove platform related | geometric IL_5J7L_010 NA | |
| IL_9H9J_011 | 1/A/144:146, 1/A/176:178 | Isolated cWH basepair | geometric IL_5J7L_011 NA | |
| IL_9H9J_012 | 1/A/147:153, 1/A/168:175 | tWH-tWH-tHW-tHW | geometric IL_5J7L_012 NA | |
| IL_9H9J_013 | 1/A/203:206, 1/A/213:214 | Minor groove platform | geometric IL_3MXH_005 IL_87975.1 | |
| IL_9H9J_014 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | geometric IL_5J7L_014 NA | |
| IL_9H9J_015 | 1/A/249:252, 1/A/274:275 | No text annotation | geometric IL_4LFB_012 IL_22002.1 | |
| IL_9H9J_016 | 1/A/292:293, 1/A/304:308 | C-loop | geometric IL_4LFB_013 IL_06671.1 | |
| IL_9H9J_017 | 1/A/367:369, 1/A/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_9H9J_018 | 1/A/371:375, 1/A/389:390 | C-loop | geometric IL_5J7L_018 NA | |
| IL_9H9J_019 | 1/A/375:376, 1/A/387:389 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_9H9J_020 | 1/A/409:416, 1/A/427:433 | No text annotation | geometric IL_5J7L_020 NA | |
| IL_9H9J_021 | 1/A/440:442, 1/A/492:497 | No text annotation | geometric IL_5J7L_021 NA | |
| IL_9H9J_022 | 1/A/446:450, 1/A/483:488 | tSH-tHW-tWW | geometric IL_5J7L_022 NA | |
| IL_9H9J_023 | 1/A/450:455, 1/A/477:483 | No text annotation | geometric IL_5J7L_023 NA | |
| IL_9H9J_024 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | geometric IL_4LFB_020 IL_11411.1 | |
| IL_9H9J_025 | 1/A/515:521, 1/A/528:536 | Kink-turn related | geometric IL_5J7L_025 NA | |
| IL_9H9J_026 | 1/A/569:575, 1/A/880:881 | No text annotation | geometric IL_4LFB_022 IL_20847.1 | |
| IL_9H9J_027 | 1/A/580:584, 1/A/757:761 | tSH-tHW-tHS | geometric IL_5J7L_027 NA | |
| IL_9H9J_028 | 1/A/594:596, 1/A/644:645 | Major groove platform | geometric IL_1I6U_001 IL_48076.7 | |
| IL_9H9J_029 | 1/A/597:598, 1/A/640:643 | Major groove minor groove platform; mini C-loop | geometric IL_1S03_003 IL_73108.1 | |
| IL_9H9J_030 | 1/A/605:612, 1/A/628:633 | No text annotation | geometric IL_5J7L_030 NA | |
| IL_9H9J_031 | 1/A/654:655, 1/A/751:754 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.1 | |
| IL_9H9J_032 | 1/A/659:660, 1/A/745:747 | Single stack bend | geometric IL_7A0S_054 IL_15011.1 | |
| IL_9H9J_033 | 1/A/662:666, 1/A/740:743 | Tandem non-canonical cWW pairs | geometric IL_5J7L_033 NA | |
| IL_9H9J_034 | 1/A/673:677, 1/A/713:717 | Triple non-canonical cWW pairs | geometric IL_4LFB_065 IL_71154.1 | |
| IL_9H9J_035 | 1/A/684:688, 1/A/699:706 | Kink-turn | geometric IL_5J7L_035 NA | |
| IL_9H9J_036 | 1/A/774:778, 1/A/804:805 | Left turn | geometric IL_4LFB_032 IL_29346.3 | |
| IL_9H9J_037 | 1/A/779:783, 1/A/799:803 | tSH-tHW-tHS | geometric IL_4LFB_033 IL_05821.1 | |
| IL_9H9J_038 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | geometric IL_5J7L_038 NA | |
| IL_9H9J_039 | 1/A/922:923, 1/A/1393:1395 | Single bulged A | geometric IL_5J7L_039 NA | |
| IL_9H9J_040 | 1/A/925:927, 1/A/1390:1391 | Single bulged G | geometric IL_5J7L_040 NA | |
| IL_9H9J_041 | 1/A/1399:1401, 1/A/1501:1504 | No text annotation | geometric IL_8CRE_466 IL_18228.1 | |
| IL_9H9J_042 | 1/A/1401:1404, 1/A/1497:1501 | No text annotation | geometric IL_8P9A_453 IL_25873.1 | |
| IL_9H9J_043 | 1/A/1405:1407, 1/A/1494:1496 | Isolated non-canonical cWW pair | geometric IL_8CRE_049 NA | |
| IL_9H9J_044 | 1/A/1407:1409, 1/A/1491:1494 | Decoding loop related | geometric IL_2O3X_003 IL_61702.1 | |
| IL_9H9J_045 | 1/A/1412:1414, 1/A/1486:1488 | Isolated non-canonical cWW pair | geometric IL_8P9A_354 IL_01003.1 | |
| IL_9H9J_046 | 1/A/1416:1419, 1/A/1481:1484 | Double sheared | geometric IL_4LFB_060 IL_58355.1 | |
| IL_9H9J_047 | 1/A/1430:1435, 1/A/1466:1470 | No text annotation | ||
| IL_9H9J_048 | 1/A/1440:1442, 1/A/1460:1461 | No text annotation | ||
| IL_9H9J_049 | 1/A/1445:1448, 1/A/1455:1457 | No text annotation | geometric IL_5J7L_065 NA |
Problematic loops
No problematic loops
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9H9J_001 | 1/A/46:47, 1/A/361:367, 1/A/393:395 | No text annotation | geometric J3_4LFB_010 J3_58657.1 | |
| J3_9H9J_002 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | geometric J3_5J7L_050 NA | |
| J3_9H9J_003 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | geometric J3_5J7L_002 NA | |
| J3_9H9J_004 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | geometric J3_5J7L_051 NA | |
| J3_9H9J_005 | 1/A/672:673, 1/A/717:725, 1/A/732:734 | No text annotation | geometric J3_5J7L_003 NA | |
| J3_9H9J_006 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | geometric J3_5J7L_004 NA | |
| J4_9H9J_001 | 1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312 | No text annotation | ||
| J4_9H9J_002 | 1/A/142:144, 1/A/178:184, 1/A/193:198, 1/A/219:221 | No text annotation | ||
| J4_9H9J_003 | 1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880 | No text annotation | ||
| J5_9H9J_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_9H9J_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_9H9J_003 | 1/A/58:61, 1/A/106:113, 1/A/314:316, 1/A/337:339, 1/A/350:354 | No text annotation |
Problematic loops
No problematic loops
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