9GUX Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9GUX_001 | 1/A/12:22 | No text annotation | homologous HL_4LFB_001 HL_31940.1 | |
| HL_9GUX_003 | 1/A/158:163 | GNRA | homologous HL_5J7L_003 NA | |
| HL_9GUX_004 | 1/A/186:191 | GNRA | homologous HL_5J7L_004 NA | |
| HL_9GUX_006 | 1/A/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_9GUX_007 | 1/A/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_9GUX_008 | 1/A/320:333 | No text annotation | homologous HL_6CZR_079 NA | |
| HL_9GUX_009 | 1/A/342:347 | UNCG | homologous HL_6CZR_080 NA | |
| HL_9GUX_010 | 1/A/379:384 | GNRA | homologous HL_5J7L_010 NA | |
| HL_9GUX_011 | 1/A/419:424 | UNCG | homologous HL_4LFB_011 HL_61337.1 | |
| HL_9GUX_012 | 1/A/462:470 | GNRA wlth extra near cWW | homologous HL_5J7L_012 NA | |
| HL_9GUX_013 | 1/A/522:527 | GNRA variation | homologous HL_4LFB_033 HL_34789.1 | |
| HL_9GUX_014 | 1/A/617:623 | GNRA-like with tWH | homologous HL_4LFB_014 HL_92337.1 | |
| HL_9GUX_015 | 1/A/689:698 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_9GUX_016 | 1/A/726:731 | GNRA | homologous HL_4LFB_016 HL_34789.1 | |
| HL_9GUX_017 | 1/A/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_9GUX_019 | 1/A/862:867 | GNRA | homologous HL_5J7L_019 NA | |
| HL_9GUX_020 | 1/A/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.1 | |
| HL_9GUX_021 | 1/A/963:972 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_9GUX_022 | 1/A/1012:1017 | GNRA | homologous HL_4LFB_022 HL_34789.1 | |
| HL_9GUX_024 | 1/A/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_9GUX_025 | 1/A/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.1 | |
| HL_9GUX_026 | 1/A/1134:1140 | No text annotation | homologous HL_4LFB_026 HL_92935.1 | |
| HL_9GUX_027 | 1/A/1165:1171 | GNRA | homologous HL_4LFB_027 HL_34789.1 | |
| HL_9GUX_028 | 1/A/1265:1270 | GNRA | homologous HL_5J7L_027 NA | |
| HL_9GUX_029 | 1/A/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_4LFB_029 HL_93658.1 | |
| HL_9GUX_030 | 1/A/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_9GUX_031 | 1/A/1515:1520 | GNRA | homologous HL_5J7L_031 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9GUX_002 | Externally structured | ||
| HL_9GUX_005 | UNCG | ||
| HL_9GUX_018 | Externally structured | ||
| HL_9GUX_023 | Mini UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9GUX_007 | 1/A/30:32, 1/A/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_9GUX_008 | 1/A/44:45, 1/A/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_9GUX_009 | 1/A/47:52, 1/A/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_9GUX_010 | 1/A/54:56, 1/A/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_9GUX_011 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | homologous IL_4LFB_005 IL_71421.1 | |
| IL_9GUX_012 | 1/A/67:69, 1/A/99:102 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
| IL_9GUX_013 | 1/A/70:73, 1/A/97:98 | Minor groove platform | homologous IL_5J7L_007 NA | |
| IL_9GUX_014 | 1/A/75:76, 1/A/93:95 | Single bulged G | homologous IL_5J7L_395 NA | |
| IL_9GUX_015 | 1/A/128:131, 1/A/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_9GUX_016 | 1/A/132:136, 1/A/227:230 | Minor groove platform related | homologous IL_5J7L_010 NA | |
| IL_9GUX_017 | 1/A/144:146, 1/A/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_9GUX_018 | 1/A/147:153, 1/A/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_9GUX_019 | 1/A/203:206, 1/A/213:214 | Minor groove platform | geometric IL_3MXH_005 IL_87975.1 | |
| IL_9GUX_020 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_9GUX_021 | 1/A/249:252, 1/A/274:275 | No text annotation | homologous IL_5J7L_015 NA | |
| IL_9GUX_022 | 1/A/292:293, 1/A/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_9GUX_023 | 1/A/367:369, 1/A/392:393 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_9GUX_024 | 1/A/371:375, 1/A/389:390 | C-loop | homologous IL_5J7L_018 NA | |
| IL_9GUX_025 | 1/A/375:376, 1/A/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_9GUX_026 | 1/A/409:416, 1/A/427:433 | No text annotation | homologous IL_5J7L_020 NA | |
| IL_9GUX_027 | 1/A/440:442, 1/A/492:497 | No text annotation | geometric IL_5J7L_021 NA | |
| IL_9GUX_028 | 1/A/446:450, 1/A/483:488 | tSH-tHW-tWW | homologous IL_5J7L_022 NA | |
| IL_9GUX_029 | 1/A/450:455, 1/A/477:483 | No text annotation | homologous IL_5J7L_023 NA | |
| IL_9GUX_030 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_11411.1 | |
| IL_9GUX_031 | 1/A/515:521, 1/A/528:536 | Kink-turn related | homologous IL_6CZR_133 NA | |
| IL_9GUX_032 | 1/A/569:575, 1/A/880:881 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_9GUX_033 | 1/A/580:584, 1/A/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_9GUX_034 | 1/A/594:596, 1/A/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_9GUX_035 | 1/A/597:598, 1/A/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_4LFB_025 IL_73108.1 | |
| IL_9GUX_036 | 1/A/605:612, 1/A/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_9GUX_037 | 1/A/654:655, 1/A/751:754 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.1 | |
| IL_9GUX_038 | 1/A/658:659, 1/A/746:748 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_9GUX_039 | 1/A/662:666, 1/A/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_9GUX_040 | 1/A/673:677, 1/A/713:717 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.1 | |
| IL_9GUX_041 | 1/A/684:688, 1/A/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_9GUX_042 | 1/A/774:778, 1/A/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_9GUX_043 | 1/A/779:783, 1/A/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_9GUX_044 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_9GUX_045 | 1/A/933:935, 1/A/1380:1384 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_9GUX_046 | 1/A/953:954, 1/A/1226:1228 | Minor groove platform | homologous IL_4LFB_038 IL_34520.1 | |
| IL_9GUX_047 | 1/A/993:997, 1/A/1044:1045 | Minor groove platform | geometric IL_5J7L_043 NA | |
| IL_9GUX_049 | 1/A/1048:1050, 1/A/1208:1209 | Single bulged U | homologous IL_5J7L_046 NA | |
| IL_9GUX_050 | 1/A/1052:1056, 1/A/1204:1206 | No text annotation | homologous IL_6CZR_154 NA | |
| IL_9GUX_051 | 1/A/1057:1058, 1/A/1199:1203 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_9GUX_052 | 1/A/1060:1061, 1/A/1195:1197 | Single bulged U | homologous IL_4LFB_046 IL_97561.1 | |
| IL_9GUX_053 | 1/A/1061:1063, 1/A/1193:1195 | Isolated non-canonical cWW pair | homologous IL_5J7L_050 NA | |
| IL_9GUX_054 | 1/A/1124:1128, 1/A/1144:1149 | No text annotation | homologous IL_5J7L_051 NA | |
| IL_9GUX_055 | 1/A/1129:1132, 1/A/1142:1143 | Minor groove platform | homologous IL_5J7L_052 NA | |
| IL_9GUX_056 | 1/A/1158:1161, 1/A/1175:1181 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_9GUX_057 | 1/A/1247:1253, 1/A/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_9GUX_058 | 1/A/1255:1258, 1/A/1277:1282 | 180 degree turn | homologous IL_5J7L_055 NA | |
| IL_9GUX_059 | 1/A/1259:1263, 1/A/1272:1276 | Double sheared with non-canonical cWW | homologous IL_5J7L_056 NA | |
| IL_9GUX_060 | 1/A/1303:1308, 1/A/1329:1334 | No text annotation | homologous IL_5J7L_057 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9GUX_001 | No text annotation | ||
| IL_9GUX_002 | No text annotation | ||
| IL_9GUX_003 | No text annotation | ||
| IL_9GUX_004 | No text annotation | ||
| IL_9GUX_005 | No text annotation | ||
| IL_9GUX_006 | No text annotation | ||
| IL_9GUX_048 | No text annotation | ||
| IL_9GUX_066 | Single stack bend | ||
| IL_9GUX_061 | Isolated non-canonical cWW pair | ||
| IL_9GUX_062 | No text annotation | ||
| IL_9GUX_063 | No text annotation | ||
| IL_9GUX_064 | Double sheared | ||
| IL_9GUX_065 | Triple sheared related |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9GUX_001 | 1/A/46:47, 1/A/361:367, 1/A/393:395 | No text annotation | geometric J3_5J7L_001 NA | |
| J3_9GUX_002 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_9GUX_003 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | geometric J3_4LFB_011 J3_01633.1 | |
| J3_9GUX_004 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | homologous J3_4LFB_015 J3_17385.5 | |
| J3_9GUX_005 | 1/A/672:673, 1/A/717:725, 1/A/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_9GUX_006 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_9GUX_007 | 1/A/936:939, 1/A/1344:1350, 1/A/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_9GUX_008 | 1/A/943:946, 1/A/1235:1237, 1/A/1337:1340 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_9GUX_009 | 1/A/955:962, 1/A/973:984, 1/A/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_9GUX_010 | 1/A/990:993, 1/A/1045:1047, 1/A/1210:1215 | No text annotation | geometric J3_5J7L_007 NA | |
| J3_9GUX_011 | 1/A/990:997, 1/A/1044:1047, 1/A/1210:1215 | No text annotation | homologous J3_5J7L_053 NA | |
| J3_9GUX_012 | 1/A/1003:1006, 1/A/1023:1027, 1/A/1034:1037 | No text annotation | ||
| J3_9GUX_013 | 1/A/1063:1068, 1/A/1107:1113, 1/A/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_9GUX_014 | 1/A/1073:1074, 1/A/1083:1087, 1/A/1098:1102 | No text annotation | homologous J3_6CZR_024 NA | |
| J3_9GUX_015 | 1/A/1116:1118, 1/A/1155:1158, 1/A/1181:1184 | No text annotation | geometric J3_5J7L_010 NA | |
| J3_9GUX_016 | 1/A/1116:1118, 1/A/1155:1161, 1/A/1175:1184 | No text annotation | homologous J3_5J7L_054 NA | |
| J3_9GUX_017 | 1/A/1237:1241, 1/A/1296:1303, 1/A/1334:1337 | No text annotation | homologous J3_5J7L_011 NA | |
| J4_9GUX_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_9GUX_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_9GUX_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 | |
| J4_9GUX_004 | 1/A/923:926, 1/A/1391:1399, 1/A/1497:1507, 1/A/1528:1532 | No text annotation | ||
| J5_9GUX_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_9GUX_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_9GUX_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_4LFB_002 J5_58574.1 |
Problematic loops
No problematic loops
Coloring options: