7AFO Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7AFO_001 | 1/A/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_7AFO_004 | 1/A/186:191 | GNRA | homologous HL_5J7L_004 NA | |
| HL_7AFO_006 | 1/A/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_7AFO_007 | 1/A/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_7AFO_008 | 1/A/320:333 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_7AFO_010 | 1/A/379:384 | GNRA | homologous HL_5J7L_010 NA | |
| HL_7AFO_013 | 1/A/522:527 | Mini UNCG | geometric HL_4YAZ_004 HL_90436.3 | |
| HL_7AFO_014 | 1/A/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_7AFO_016 | 1/A/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_7AFO_019 | 1/A/862:867 | GNRA | homologous HL_5J7L_019 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7AFO_002 | No text annotation | ||
| HL_7AFO_003 | GNRA | ||
| HL_7AFO_005 | UNCG | ||
| HL_7AFO_009 | UNCG | ||
| HL_7AFO_011 | UNCG | ||
| HL_7AFO_012 | GNRA wlth extra near cWW | ||
| HL_7AFO_015 | No text annotation | ||
| HL_7AFO_017 | No text annotation | ||
| HL_7AFO_018 | No text annotation | ||
| HL_7AFO_020 | GNRA | ||
| HL_7AFO_021 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7AFO_001 | 1/A/30:32, 1/A/552:553 | Single bulged G | homologous IL_6CZR_113 NA | |
| IL_7AFO_002 | 1/A/44:45, 1/A/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_7AFO_003 | 1/A/47:52, 1/A/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_7AFO_004 | 1/A/54:56, 1/A/356:357 | Minor groove platform | homologous IL_5J7L_004 NA | |
| IL_7AFO_005 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | homologous IL_4LFB_005 IL_71421.2 | |
| IL_7AFO_006 | 1/A/67:69, 1/A/99:102 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
| IL_7AFO_010 | 1/A/128:131, 1/A/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_7AFO_011 | 1/A/132:136, 1/A/227:230 | No text annotation | homologous IL_4LFB_008 IL_60988.2 | |
| IL_7AFO_013 | 1/A/147:153, 1/A/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_7AFO_015 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_7AFO_016 | 1/A/249:252, 1/A/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_7AFO_017 | 1/A/292:293, 1/A/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_7AFO_018 | 1/A/367:369, 1/A/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_7AFO_019 | 1/A/371:375, 1/A/389:390 | C-loop | homologous IL_5J7L_018 NA | |
| IL_7AFO_020 | 1/A/375:376, 1/A/387:389 | Single bulged G | geometric IL_4LFB_016 IL_28408.2 | |
| IL_7AFO_021 | 1/A/409:416, 1/A/427:433 | No text annotation | homologous IL_5J7L_020 NA | |
| IL_7AFO_022 | 1/A/440:442, 1/A/492:497 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_7AFO_023 | 1/A/446:450, 1/A/483:488 | tSH-tHW-tWW | geometric IL_5J7L_022 NA | |
| IL_7AFO_024 | 1/A/450:455, 1/A/477:483 | No text annotation | homologous IL_5J7L_023 NA | |
| IL_7AFO_025 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_7AFO_026 | 1/A/515:521, 1/A/528:536 | Kink-turn related | homologous IL_5J7L_025 NA | |
| IL_7AFO_027 | 1/A/569:575, 1/A/880:881 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_7AFO_028 | 1/A/580:584, 1/A/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_7AFO_029 | 1/A/594:596, 1/A/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_7AFO_030 | 1/A/597:598, 1/A/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_4LFB_025 IL_73108.2 | |
| IL_7AFO_031 | 1/A/605:612, 1/A/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_7AFO_032 | 1/A/654:655, 1/A/751:754 | Major groove platform; stack outside cWW | geometric IL_5J7L_031 NA | |
| IL_7AFO_034 | 1/A/662:666, 1/A/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_7AFO_035 | 1/A/673:678, 1/A/712:717 | No text annotation | homologous IL_4LFB_030 NA | |
| IL_7AFO_037 | 1/A/774:778, 1/A/804:805 | Left turn | homologous IL_5J7L_036 NA | |
| IL_7AFO_038 | 1/A/779:783, 1/A/799:803 | tSH-tHW-tHS | homologous IL_4LFB_033 IL_05821.1 | |
| IL_7AFO_039 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7AFO_007 | Minor groove platform | ||
| IL_7AFO_008 | Single bulged G | ||
| IL_7AFO_009 | No text annotation | ||
| IL_7AFO_012 | Isolated cWH basepair | ||
| IL_7AFO_014 | Minor groove platform | ||
| IL_7AFO_033 | No text annotation | ||
| IL_7AFO_040 | Single stack bend | ||
| IL_7AFO_036 | Kink-turn |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7AFO_001 | 1/A/46:47, 1/A/361:367, 1/A/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_7AFO_005 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_7AFO_002 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_7AFO_006 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_7AFO_003 | 1/A/672:673, 1/A/717:725, 1/A/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_7AFO_004 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J4_7AFO_001 | 1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_7AFO_002 | 1/A/142:144, 1/A/178:184, 1/A/193:198, 1/A/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_7AFO_003 | 1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J5_7AFO_001 | 1/A/36:39, 1/A/403:406, 1/A/436:440, 1/A/497:500, 1/A/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_7AFO_002 | 1/A/36:39, 1/A/403:406, 1/A/436:442, 1/A/492:500, 1/A/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_7AFO_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_5J7L_003 NA |
Problematic loops
No problematic loops
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