6SPC Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6SPC_001 | 1/a/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_6SPC_003 | 1/a/152:157 | GNRA | homologous HL_5J7L_003 NA | |
| HL_6SPC_004 | 1/a/180:185 | No text annotation | geometric HL_2Y9H_003 HL_75660.7 | |
| HL_6SPC_005 | 1/a/201:206 | No text annotation | geometric HL_5U3G_001 HL_75660.7 | |
| HL_6SPC_006 | 1/a/253:261 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_6SPC_007 | 1/a/290:295 | GNRA | homologous HL_5J7L_007 NA | |
| HL_6SPC_008 | 1/a/314:327 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_6SPC_009 | 1/a/336:341 | UNCG | homologous HL_4LFB_009 HL_61337.3 | |
| HL_6SPC_010 | 1/a/373:378 | GNRA | homologous HL_4LFB_010 HL_34789.4 | |
| HL_6SPC_012 | 1/a/449:472 | No text annotation | ||
| HL_6SPC_013 | 1/a/516:521 | No text annotation | geometric HL_4WF9_003 HL_75660.7 | |
| HL_6SPC_014 | 1/a/611:617 | GNRA-like with tWH | homologous HL_4LFB_014 HL_86621.1 | |
| HL_6SPC_015 | 1/a/675:703 | No text annotation | ||
| HL_6SPC_016 | 1/a/779:791 | No text annotation | geometric HL_2Y9H_005 HL_44506.2 | |
| HL_6SPC_018 | 1/a/856:861 | GNRA | homologous HL_4LFB_019 HL_34789.4 | |
| HL_6SPC_019 | 1/a/891:896 | GNRA | homologous HL_4LFB_020 HL_34789.4 | |
| HL_6SPC_021 | 1/a/1069:1076 | GNRA with extra cWW | geometric HL_7A0S_056 HL_87268.2 | |
| HL_6SPC_022 | 1/a/1083:1090 | T-loop related | homologous HL_6CZR_096 NA | |
| HL_6SPC_024 | 1/a/1158:1167 | tRNA anticodon loop | geometric HL_6NTA_138 NA | |
| HL_6SPC_028 | 1/a/1231:1331 | No text annotation | ||
| HL_6SPC_026 | 1/a/1443:1448 | UNCG | homologous HL_5J7L_030 NA | |
| HL_6SPC_027 | 1/a/1509:1514 | GNRA | homologous HL_6CZR_103 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6SPC_002 | No text annotation | ||
| HL_6SPC_029 | No text annotation | ||
| HL_6SPC_011 | No text annotation | ||
| HL_6SPC_030 | No text annotation | ||
| HL_6SPC_017 | No text annotation | ||
| HL_6SPC_020 | No text annotation | ||
| HL_6SPC_023 | No text annotation | ||
| HL_6SPC_025 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6SPC_001 | 1/a/30:32, 1/a/546:547 | Single bulged G | homologous IL_4LFB_001 IL_28408.2 | |
| IL_6SPC_002 | 1/a/44:45, 1/a/390:392 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6SPC_003 | 1/a/47:56, 1/a/350:355 | No text annotation | ||
| IL_6SPC_004 | 1/a/62:69, 1/a/94:98 | No text annotation | ||
| IL_6SPC_005 | 1/a/69:77, 1/a/86:94 | No text annotation | ||
| IL_6SPC_006 | 1/a/122:125, 1/a/225:227 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_6SPC_007 | 1/a/126:130, 1/a/221:224 | No text annotation | homologous IL_4LFB_008 IL_60988.2 | |
| IL_6SPC_008 | 1/a/130:132, 1/a/219:221 | Isolated non-canonical cWW pair | geometric IL_4WF9_042 IL_01003.3 | |
| IL_6SPC_009 | 1/a/138:140, 1/a/170:172 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_6SPC_010 | 1/a/141:147, 1/a/162:169 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_6SPC_011 | 1/a/197:201, 1/a/206:208 | No text annotation | homologous IL_5J7L_013 NA | |
| IL_6SPC_012 | 1/a/236:241, 1/a/271:278 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_6SPC_013 | 1/a/243:246, 1/a/268:269 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_6SPC_014 | 1/a/286:287, 1/a/298:302 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_6SPC_015 | 1/a/361:363, 1/a/386:387 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_6SPC_016 | 1/a/365:371, 1/a/380:384 | No text annotation | ||
| IL_6SPC_017 | 1/a/434:436, 1/a/486:491 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_6SPC_018 | 1/a/440:447, 1/a/474:482 | No text annotation | ||
| IL_6SPC_019 | 1/a/497:508, 1/a/531:536 | No text annotation | ||
| IL_6SPC_020 | 1/a/509:515, 1/a/522:530 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6SPC_021 | 1/a/563:569, 1/a/874:875 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_6SPC_022 | 1/a/574:578, 1/a/751:755 | tSH-tHW-tHS | homologous IL_6CZR_135 NA | |
| IL_6SPC_023 | 1/a/587:591, 1/a/637:640 | No text annotation | ||
| IL_6SPC_024 | 1/a/591:592, 1/a/634:637 | Minor groove platform | geometric IL_4KQY_004 IL_94991.2 | |
| IL_6SPC_025 | 1/a/599:606, 1/a/622:627 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_6SPC_026 | 1/a/648:649, 1/a/745:748 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.2 | |
| IL_6SPC_027 | 1/a/652:653, 1/a/740:742 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_6SPC_052 | 1/a/656:660, 1/a/734:737 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_6SPC_029 | 1/a/666:667, 1/a/711:728 | No text annotation | ||
| IL_6SPC_053 | 1/a/667:671, 1/a/707:711 | Triple non-canonical cWW pairs | homologous IL_5J7L_361 NA | |
| IL_6SPC_031 | 1/a/672:674, 1/a/704:706 | Isolated non-canonical cWW pair | geometric IL_6OL3_002 IL_01003.3 | |
| IL_6SPC_032 | 1/a/767:772, 1/a/798:800 | No text annotation | ||
| IL_6SPC_033 | 1/a/773:777, 1/a/793:797 | tSH-tHW-tHS | homologous IL_4LFB_033 IL_05821.1 | |
| IL_6SPC_034 | 1/a/881:888, 1/a/899:904 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_6SPC_035 | 1/a/916:917, 1/a/1387:1389 | Single bulged A | homologous IL_4LFB_035 IL_14190.2 | |
| IL_6SPC_036 | 1/a/919:921, 1/a/1384:1385 | Single bulged G | homologous IL_4LFB_036 IL_28408.2 | |
| IL_6SPC_037 | 1/a/927:929, 1/a/1374:1378 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_6SPC_042 | 1/a/1156:1158, 1/a/1167:1168 | Single stack bend | geometric IL_7KGA_003 IL_15011.2 | |
| IL_6SPC_056 | 1/a/1231:1253, 1/a/1270:1331 | No text annotation | ||
| IL_6SPC_043 | 1/a/1393:1395, 1/a/1495:1498 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_6SPC_044 | 1/a/1395:1398, 1/a/1491:1495 | No text annotation | geometric IL_4V88_464 NA | |
| IL_6SPC_045 | 1/a/1399:1401, 1/a/1488:1490 | Isolated non-canonical cWW pair | geometric IL_3GM7_006 IL_01003.3 | |
| IL_6SPC_046 | 1/a/1401:1403, 1/a/1485:1488 | Decoding loop related | geometric IL_5Z1I_003 NA | |
| IL_6SPC_047 | 1/a/1406:1408, 1/a/1480:1482 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_6SPC_048 | 1/a/1410:1413, 1/a/1475:1478 | Double sheared | homologous IL_5J7L_062 NA | |
| IL_6SPC_049 | 1/a/1424:1429, 1/a/1460:1464 | Triple sheared related | geometric IL_4V9F_018 IL_67427.1 | |
| IL_6SPC_057 | 1/a/1434:1437, 1/a/1452:1455 | No text annotation | geometric IL_8GLP_337 IL_59580.1 | |
| IL_6SPC_051 | 1/a/1438:1442, 1/a/1449:1451 | No text annotation | geometric IL_5J7L_065 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6SPC_028 | Partly complementary | ||
| IL_6SPC_030 | No text annotation | ||
| IL_6SPC_054 | No text annotation | ||
| IL_6SPC_038 | No text annotation | ||
| IL_6SPC_055 | No text annotation | ||
| IL_6SPC_039 | Single stack bend | ||
| IL_6SPC_058 | No text annotation | ||
| IL_6SPC_040 | No text annotation | ||
| IL_6SPC_041 | Minor groove platform | ||
| IL_6SPC_050 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6SPC_001 | 1/a/46:47, 1/a/355:361, 1/a/387:389 | No text annotation | geometric J3_5J7L_001 NA | |
| J3_6SPC_005 | 1/a/46:56, 1/a/350:361, 1/a/387:389 | No text annotation | ||
| J3_6SPC_006 | 1/a/46:56, 1/a/350:363, 1/a/386:389 | No text annotation | ||
| J3_6SPC_002 | 1/a/580:582, 1/a/645:648, 1/a/748:749 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_6SPC_007 | 1/a/580:582, 1/a/645:649, 1/a/745:749 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_6SPC_003 | 1/a/820:823, 1/a/851:855, 1/a/862:868 | No text annotation | homologous J3_4LFB_001 J3_02285.1 | |
| J3_6SPC_008 | 1/a/1067:1068, 1/a/1077:1080, 1/a/1093:1096 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J4_6SPC_001 | 1/a/109:116, 1/a/233:234, 1/a/280:283, 1/a/305:306 | No text annotation | homologous J4_4LFB_001 J4_90044.1 | |
| J4_6SPC_004 | 1/a/137:138, 1/a/172:178, 1/a/187:193, 1/a/212:214 | No text annotation | ||
| J4_6SPC_003 | 1/a/569:571, 1/a/758:763, 1/a/804:815, 1/a/873:874 | No text annotation | homologous J4_5J7L_003 NA | |
| J5_6SPC_001 | 1/a/35:39, 1/a/397:412, 1/a/419:434, 1/a/491:494, 1/a/539:543 | No text annotation | ||
| J5_6SPC_002 | 1/a/35:39, 1/a/397:412, 1/a/419:436, 1/a/486:494, 1/a/539:543 | No text annotation | ||
| J5_6SPC_003 | 1/a/57:69, 1/a/94:107, 1/a/308:310, 1/a/331:333, 1/a/344:349 | No text annotation | ||
| J6_6SPC_001 | 1/a/930:987, 1/a/1039:1063, 1/a/1100:1114, 1/a/1147:1155, 1/a/1169:1231, 1/a/1331:1373 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6SPC_004 | No text annotation | ||
| J4_6SPC_002 | No text annotation |
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