8WID Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8WID_001 | 1/a/16:26 | No text annotation | homologous HL_4LFB_001 HL_31940.1 | |
| HL_8WID_003 | 1/a/155:160 | GNRA | homologous HL_5J7L_003 NA | |
| HL_8WID_004 | 1/a/191:196 | No text annotation | ||
| HL_8WID_005 | 1/a/213:218 | No text annotation | ||
| HL_8WID_006 | 1/a/259:267 | GNRA related | homologous HL_4LFB_006 HL_36455.1 | |
| HL_8WID_007 | 1/a/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_8WID_008 | 1/a/320:333 | No text annotation | ||
| HL_8WID_009 | 1/a/342:347 | UNCG | homologous HL_5J7L_009 NA | |
| HL_8WID_010 | 1/a/379:384 | GNRA | homologous HL_4LFB_010 HL_34789.1 | |
| HL_8WID_011 | 1/a/419:424 | UNCG | homologous HL_5J7L_011 NA | |
| HL_8WID_012 | 1/a/454:459 | No text annotation | geometric HL_4WF9_003 HL_75660.6 | |
| HL_8WID_013 | 1/a/502:507 | No text annotation | geometric HL_4WF9_003 HL_75660.6 | |
| HL_8WID_014 | 1/a/597:603 | GNRA-like with tWH | homologous HL_4LFB_014 HL_92337.1 | |
| HL_8WID_015 | 1/a/669:678 | No text annotation | homologous HL_4LFB_015 HL_38491.1 | |
| HL_8WID_016 | 1/a/706:711 | GNRA | homologous HL_4LFB_016 HL_34789.1 | |
| HL_8WID_017 | 1/a/766:776 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_8WID_019 | 1/a/844:849 | GNRA | homologous HL_4LFB_019 HL_34789.1 | |
| HL_8WID_020 | 1/a/879:884 | GNRA | homologous HL_4LFB_020 HL_34789.1 | |
| HL_8WID_021 | 1/a/945:954 | No text annotation | homologous HL_4LFB_021 HL_97521.1 | |
| HL_8WID_022 | 1/a/995:1000 | GNRA | homologous HL_4LFB_022 HL_34789.1 | |
| HL_8WID_024 | 1/a/1056:1061 | GNRA | homologous HL_5J7L_023 NA | |
| HL_8WID_025 | 1/a/1069:1076 | T-loop related | homologous HL_4LFB_025 HL_63894.1 | |
| HL_8WID_026 | 1/a/1114:1121 | No text annotation | homologous HL_6CZR_097 NA | |
| HL_8WID_027 | 1/a/1146:1152 | GNRA | homologous HL_4LFB_027 HL_34789.1 | |
| HL_8WID_028 | 1/a/1246:1251 | GNRA | homologous HL_5J7L_027 NA | |
| HL_8WID_029 | 1/a/1296:1305 | T-loop with 3 stacked bulged bases | homologous HL_5J7L_028 NA | |
| HL_8WID_030 | 1/a/1338:1349 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_8WID_031 | 1/a/1433:1436 | No text annotation | geometric HL_2Y8W_001 NA | |
| HL_8WID_032 | 1/a/1499:1504 | GNRA variation | geometric HL_4V88_222 NA | |
| HL_8WID_033 | 1/b/31:39 | tRNA anticodon loop | homologous HL_6UFM_002 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8WID_002 | UNCG variation | ||
| HL_8WID_034 | No text annotation | ||
| HL_8WID_018 | No text annotation | ||
| HL_8WID_023 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8WID_001 | 1/a/34:36, 1/a/532:533 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_8WID_002 | 1/a/48:49, 1/a/396:398 | Single bulged A | homologous IL_4LFB_002 IL_14190.1 | |
| IL_8WID_003 | 1/a/51:56, 1/a/359:361 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_8WID_004 | 1/a/58:60, 1/a/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_8WID_005 | 1/a/67:70, 1/a/99:100 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_8WID_006 | 1/a/71:73, 1/a/95:98 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
| IL_8WID_007 | 1/a/74:77, 1/a/93:94 | Minor groove platform | geometric IL_3IWN_005 IL_87975.1 | |
| IL_8WID_008 | 1/a/77:78, 1/a/91:93 | Major groove platform | geometric IL_7A0S_082 IL_48076.7 | |
| IL_8WID_009 | 1/a/125:128, 1/a/231:232 | Multiple bulged bases | homologous IL_4LFB_007 IL_75289.1 | |
| IL_8WID_010 | 1/a/129:133, 1/a/227:230 | No text annotation | homologous IL_4LFB_008 IL_60988.1 | |
| IL_8WID_011 | 1/a/144:150, 1/a/165:172 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_8WID_012 | 1/a/187:188, 1/a/199:201 | Single bulged U | geometric IL_4V88_469 NA | |
| IL_8WID_013 | 1/a/242:247, 1/a/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_8WID_014 | 1/a/249:252, 1/a/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_8WID_015 | 1/a/292:293, 1/a/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_8WID_016 | 1/a/367:369, 1/a/392:393 | Single bulged U | homologous IL_4LFB_014 IL_97561.1 | |
| IL_8WID_017 | 1/a/371:375, 1/a/389:390 | C-loop | geometric IL_5J7L_018 NA | |
| IL_8WID_018 | 1/a/375:376, 1/a/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_8WID_019 | 1/a/409:416, 1/a/427:433 | No text annotation | homologous IL_4LFB_017 IL_62329.1 | |
| IL_8WID_020 | 1/a/440:442, 1/a/472:477 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_8WID_021 | 1/a/446:450, 1/a/463:468 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_4LFB_018 IL_82100.1 | |
| IL_8WID_022 | 1/a/450:453, 1/a/460:463 | No text annotation | ||
| IL_8WID_023 | 1/a/484:491, 1/a/520:521 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_11411.1 | |
| IL_8WID_024 | 1/a/495:501, 1/a/508:516 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_8WID_025 | 1/a/549:555, 1/a/862:863 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_8WID_026 | 1/a/560:564, 1/a/737:741 | tSH-tHW-tHS | homologous IL_4LFB_023 IL_05821.1 | |
| IL_8WID_027 | 1/a/574:576, 1/a/624:625 | Major groove platform | homologous IL_4LFB_024 IL_48076.7 | |
| IL_8WID_028 | 1/a/577:578, 1/a/620:623 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_8WID_029 | 1/a/585:591, 1/a/609:613 | No text annotation | geometric IL_8C3A_433 NA | |
| IL_8WID_030 | 1/a/634:635, 1/a/731:734 | Major groove platform; stack outside cWW | homologous IL_4LFB_027 IL_74641.1 | |
| IL_8WID_031 | 1/a/637:638, 1/a/727:729 | Major groove platform | homologous IL_4LFB_028 IL_48076.7 | |
| IL_8WID_032 | 1/a/642:646, 1/a/720:723 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_8WID_068 | 1/a/653:657, 1/a/693:697 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.1 | |
| IL_8WID_034 | 1/a/664:668, 1/a/679:686 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_8WID_035 | 1/a/754:758, 1/a/784:785 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_8WID_036 | 1/a/759:763, 1/a/779:783 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_8WID_038 | 1/a/869:876, 1/a/887:892 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_8WID_039 | 1/a/904:905, 1/a/1376:1378 | Single bulged A | homologous IL_6CZR_147 NA | |
| IL_8WID_040 | 1/a/907:909, 1/a/1373:1374 | Single bulged G | homologous IL_5J7L_040 NA | |
| IL_8WID_041 | 1/a/915:917, 1/a/1363:1367 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_8WID_042 | 1/a/935:936, 1/a/1207:1209 | Minor groove platform | homologous IL_4LFB_038 IL_34520.1 | |
| IL_8WID_043 | 1/a/975:979, 1/a/1024:1025 | Minor groove platform | geometric IL_5J7L_043 NA | |
| IL_8WID_044 | 1/a/1028:1030, 1/a/1189:1190 | Single bulged U | homologous IL_5J7L_046 NA | |
| IL_8WID_045 | 1/a/1032:1036, 1/a/1185:1187 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_8WID_046 | 1/a/1037:1038, 1/a/1180:1184 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_8WID_047 | 1/a/1040:1041, 1/a/1176:1178 | Single bulged A | homologous IL_5J7L_049 NA | |
| IL_8WID_048 | 1/a/1041:1043, 1/a/1174:1176 | Isolated non-canonical cWW pair | geometric IL_4LFB_047 IL_68118.1 | |
| IL_8WID_049 | 1/a/1104:1108, 1/a/1125:1130 | No text annotation | homologous IL_5J7L_051 NA | |
| IL_8WID_050 | 1/a/1109:1112, 1/a/1123:1124 | Minor groove platform | homologous IL_5J7L_052 NA | |
| IL_8WID_051 | 1/a/1139:1142, 1/a/1156:1162 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_8WID_052 | 1/a/1228:1234, 1/a/1265:1272 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_8WID_053 | 1/a/1236:1239, 1/a/1258:1263 | 180 degree turn | homologous IL_4LFB_052 IL_08849.1 | |
| IL_8WID_054 | 1/a/1240:1244, 1/a/1253:1257 | Double sheared with non-canonical cWW | homologous IL_5J7L_056 NA | |
| IL_8WID_055 | 1/a/1285:1290, 1/a/1311:1316 | No text annotation | geometric IL_4LFB_055 IL_57885.1 | |
| IL_8WID_056 | 1/a/1382:1384, 1/a/1485:1488 | No text annotation | homologous IL_4LFB_056 IL_18228.1 | |
| IL_8WID_057 | 1/a/1384:1387, 1/a/1481:1485 | No text annotation | geometric IL_4V88_464 NA | |
| IL_8WID_058 | 1/a/1388:1390, 1/a/1478:1480 | Isolated non-canonical cWW pair | geometric IL_5MWI_004 NA | |
| IL_8WID_059 | 1/a/1390:1392, 1/a/1475:1478 | Decoding loop related | geometric IL_3C3Z_002 IL_29925.1 | |
| IL_8WID_060 | 1/a/1395:1397, 1/a/1470:1472 | Isolated non-canonical cWW pair | homologous IL_4LFB_059 IL_01003.1 | |
| IL_8WID_061 | 1/a/1399:1402, 1/a/1465:1468 | Double sheared | homologous IL_5J7L_062 NA | |
| IL_8WID_062 | 1/a/1407:1410, 1/a/1457:1460 | Tandem non-canonical cWW pairs | geometric IL_5TBW_100 NA | |
| IL_8WID_063 | 1/a/1413:1418, 1/a/1450:1454 | Triple sheared related | geometric IL_4V9F_018 IL_67427.1 | |
| IL_8WID_064 | 1/a/1418:1420, 1/a/1448:1450 | Isolated non-canonical cWW pair | homologous IL_4LFB_063 IL_01003.1 | |
| IL_8WID_065 | 1/a/1423:1426, 1/a/1443:1445 | Isolated tHS basepair with bulges | geometric IL_7RQB_012 NA | |
| IL_8WID_066 | 1/a/1428:1431, 1/a/1439:1441 | No text annotation | homologous IL_5J7L_065 NA | |
| IL_8WID_067 | 1/a/1432:1433, 1/a/1436:1438 | Single bulged U | geometric IL_7RQB_038 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8WID_033 | No text annotation | ||
| IL_8WID_037 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8WID_010 | 1/a/50:51, 1/a/361:367, 1/a/393:395 | No text annotation | geometric J3_4LFB_010 J3_58657.1 | |
| J3_8WID_011 | 1/a/50:56, 1/a/359:367, 1/a/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_8WID_012 | 1/a/566:568, 1/a/631:634, 1/a/734:735 | No text annotation | geometric J3_6CZR_016 NA | |
| J3_8WID_013 | 1/a/566:568, 1/a/631:635, 1/a/731:735 | No text annotation | homologous J3_4LFB_015 J3_17385.5 | |
| J3_8WID_014 | 1/a/652:653, 1/a/697:705, 1/a/712:714 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_8WID_001 | 1/a/806:809, 1/a/839:843, 1/a/850:856 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_8WID_002 | 1/a/918:921, 1/a/1326:1332, 1/a/1355:1362 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_8WID_003 | 1/a/925:928, 1/a/1216:1218, 1/a/1319:1322 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_8WID_004 | 1/a/937:944, 1/a/955:966, 1/a/1202:1206 | No text annotation | homologous J3_4LFB_004 J3_88451.1 | |
| J3_8WID_005 | 1/a/972:975, 1/a/1025:1027, 1/a/1191:1196 | No text annotation | homologous J3_4LFB_005 J3_84394.1 | |
| J3_8WID_015 | 1/a/972:979, 1/a/1024:1027, 1/a/1191:1196 | No text annotation | homologous J3_4LFB_016 J3_28881.1 | |
| J3_8WID_007 | 1/a/1043:1048, 1/a/1087:1093, 1/a/1168:1174 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_8WID_016 | 1/a/1053:1054, 1/a/1063:1066, 1/a/1079:1082 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_8WID_008 | 1/a/1096:1098, 1/a/1136:1139, 1/a/1162:1165 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_8WID_017 | 1/a/1096:1098, 1/a/1136:1142, 1/a/1156:1165 | No text annotation | homologous J3_5J7L_054 NA | |
| J3_8WID_009 | 1/a/1218:1222, 1/a/1278:1285, 1/a/1316:1319 | No text annotation | homologous J3_4LFB_009 J3_03192.1 | |
| J4_8WID_001 | 1/a/111:119, 1/a/238:240, 1/a/286:289, 1/a/311:312 | No text annotation | ||
| J4_8WID_004 | 1/a/140:141, 1/a/175:181, 1/a/207:212, 1/a/219:220 | No text annotation | ||
| J4_8WID_003 | 1/a/555:557, 1/a/744:749, 1/a/790:801, 1/a/861:862 | No text annotation | homologous J4_5J7L_003 NA | |
| J5_8WID_001 | 1/a/40:43, 1/a/403:406, 1/a/436:440, 1/a/477:480, 1/a/525:528 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_8WID_002 | 1/a/40:43, 1/a/403:406, 1/a/436:442, 1/a/472:480, 1/a/525:528 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_8WID_003 | 1/a/62:65, 1/a/102:109, 1/a/314:316, 1/a/337:339, 1/a/350:354 | No text annotation | homologous J5_4LFB_002 J5_58574.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8WID_006 | No text annotation | ||
| J4_8WID_002 | No text annotation |
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