6W7W Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6W7W_001 | 1/2/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_6W7W_006 | 1/2/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_6W7W_007 | 1/2/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_6W7W_008 | 1/2/320:333 | No text annotation | homologous HL_4LFB_008 HL_39665.1 | |
| HL_6W7W_009 | 1/2/342:347 | UNCG | homologous HL_4LFB_009 HL_61337.2 | |
| HL_6W7W_010 | 1/2/379:384 | GNRA | homologous HL_6CZR_081 NA | |
| HL_6W7W_011 | 1/2/419:424 | UNCG | homologous HL_5J7L_011 NA | |
| HL_6W7W_013 | 1/2/522:527 | No text annotation | geometric HL_4WF9_003 HL_75660.7 | |
| HL_6W7W_014 | 1/2/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_6W7W_016 | 1/2/726:731 | GNRA | homologous HL_6CZR_087 NA | |
| HL_6W7W_018 | 1/2/862:867 | GNRA | homologous HL_4LFB_019 HL_34789.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6W7W_002 | Mini UNCG | ||
| HL_6W7W_003 | GNRA | ||
| HL_6W7W_004 | GNRA | ||
| HL_6W7W_005 | No text annotation | ||
| HL_6W7W_012 | GNRA wlth extra near cWW | ||
| HL_6W7W_015 | No text annotation | ||
| HL_6W7W_017 | No text annotation | ||
| HL_6W7W_019 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6W7W_001 | 1/2/30:32, 1/2/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_6W7W_002 | 1/2/44:45, 1/2/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6W7W_003 | 1/2/47:52, 1/2/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_6W7W_004 | 1/2/54:56, 1/2/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.2 | |
| IL_6W7W_005 | 1/2/63:66, 1/2/103:104 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_6W7W_006 | 1/2/67:69, 1/2/99:102 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
| IL_6W7W_009 | 1/2/128:131, 1/2/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_6W7W_010 | 1/2/132:136, 1/2/227:230 | No text annotation | homologous IL_4LFB_008 IL_60988.2 | |
| IL_6W7W_011 | 1/2/144:146, 1/2/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_6W7W_012 | 1/2/147:153, 1/2/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_6W7W_014 | 1/2/242:247, 1/2/277:284 | Kink-turn with non-sequential stacking | geometric IL_4V88_402 NA | |
| IL_6W7W_015 | 1/2/249:252, 1/2/274:275 | No text annotation | homologous IL_5J7L_015 NA | |
| IL_6W7W_016 | 1/2/292:293, 1/2/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_6W7W_017 | 1/2/367:369, 1/2/392:393 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_6W7W_018 | 1/2/371:375, 1/2/389:390 | C-loop | geometric IL_5J7L_018 NA | |
| IL_6W7W_019 | 1/2/375:376, 1/2/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_6W7W_021 | 1/2/440:442, 1/2/492:497 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_6W7W_022 | 1/2/446:450, 1/2/483:488 | tSH-tHW-tWW | homologous IL_5J7L_022 NA | |
| IL_6W7W_023 | 1/2/450:454, 1/2/479:483 | No text annotation | ||
| IL_6W7W_024 | 1/2/454:455, 1/2/477:479 | Single stack bend | geometric IL_5J7L_032 NA | |
| IL_6W7W_025 | 1/2/504:511, 1/2/540:541 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_11411.1 | |
| IL_6W7W_026 | 1/2/515:521, 1/2/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6W7W_027 | 1/2/569:575, 1/2/880:881 | No text annotation | homologous IL_6CZR_134 NA | |
| IL_6W7W_028 | 1/2/580:584, 1/2/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_6W7W_030 | 1/2/597:598, 1/2/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_4LFB_025 IL_73108.2 | |
| IL_6W7W_031 | 1/2/605:613, 1/2/627:633 | No text annotation | ||
| IL_6W7W_040 | 1/2/887:894, 1/2/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4LFB_034 IL_84044.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6W7W_007 | Minor groove platform | ||
| IL_6W7W_008 | Single bulged G | ||
| IL_6W7W_013 | Minor groove platform | ||
| IL_6W7W_020 | No text annotation | ||
| IL_6W7W_029 | Major groove platform | ||
| IL_6W7W_032 | Major groove platform; stack outside cWW | ||
| IL_6W7W_033 | Single stack bend | ||
| IL_6W7W_039 | Single stack bend | ||
| IL_6W7W_034 | Tandem non-canonical cWW pairs | ||
| IL_6W7W_035 | Single stack bend | ||
| IL_6W7W_036 | No text annotation | ||
| IL_6W7W_037 | tSH-tHW-tHS | ||
| IL_6W7W_038 | 9x7 Sarcin-Ricin with inserted C; G-bulge |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6W7W_001 | 1/2/46:47, 1/2/361:367, 1/2/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_6W7W_002 | 1/2/586:588, 1/2/651:654, 1/2/754:755 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_6W7W_005 | 1/2/586:588, 1/2/651:655, 1/2/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_6W7W_004 | 1/2/826:829, 1/2/857:861, 1/2/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J4_6W7W_001 | 1/2/115:122, 1/2/239:240, 1/2/286:289, 1/2/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_6W7W_002 | 1/2/142:144, 1/2/178:184, 1/2/193:198, 1/2/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_6W7W_003 | 1/2/575:577, 1/2/764:769, 1/2/810:821, 1/2/879:880 | No text annotation | homologous J4_4LFB_003 J4_14595.1 | |
| J5_6W7W_001 | 1/2/36:39, 1/2/403:406, 1/2/436:440, 1/2/497:500, 1/2/545:548 | No text annotation | ||
| J5_6W7W_002 | 1/2/36:39, 1/2/403:406, 1/2/436:442, 1/2/492:500, 1/2/545:548 | No text annotation | ||
| J5_6W7W_003 | 1/2/58:61, 1/2/106:113, 1/2/314:316, 1/2/337:339, 1/2/350:354 | No text annotation | homologous J5_5J7L_003 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6W7W_003 | No text annotation |
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