9H9K Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9H9K_001 | 1/1/963:972 | No text annotation | geometric HL_4LFB_021 HL_97521.1 | |
| HL_9H9K_005 | 1/1/1089:1096 | T-loop related | geometric HL_8CRE_219 HL_63894.2 | |
| HL_9H9K_008 | 1/1/1265:1270 | GNRA | geometric HL_4LFB_024 HL_34789.2 | |
| HL_9H9K_010 | 1/1/1356:1366 | No text annotation | geometric HL_5J7L_029 NA | |
| HL_9H9K_011 | 1/3/32:40 | tRNA anticodon loop | geometric HL_9DFC_104 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9H9K_002 | GNRA | ||
| HL_9H9K_003 | UNCG | ||
| HL_9H9K_004 | GNRA with GA tSW pair | ||
| HL_9H9K_006 | UNCG | ||
| HL_9H9K_007 | GNRA | ||
| HL_9H9K_009 | T-loop with 3 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9H9K_001 | 1/1/933:935, 1/1/1380:1384 | Minor groove platform | geometric IL_5J7L_041 NA | |
| IL_9H9K_002 | 1/1/953:954, 1/1/1226:1228 | Minor groove platform | geometric IL_4LFB_038 IL_34520.2 | |
| IL_9H9K_003 | 1/1/993:997, 1/1/1044:1045 | Minor groove platform | geometric IL_5J7L_043 NA | |
| IL_9H9K_005 | 1/1/1048:1050, 1/1/1208:1209 | Single bulged U | geometric IL_4LFB_042 IL_97561.2 | |
| IL_9H9K_006 | 1/1/1052:1056, 1/1/1204:1206 | Isolated cWS basepair | geometric IL_4LFB_044 IL_82453.1 | |
| IL_9H9K_007 | 1/1/1057:1058, 1/1/1199:1203 | Minor groove platform | geometric IL_5J7L_048 NA | |
| IL_9H9K_008 | 1/1/1060:1061, 1/1/1195:1197 | Single bulged A | geometric IL_5J7L_049 NA | |
| IL_9H9K_009 | 1/1/1061:1063, 1/1/1193:1195 | Isolated non-canonical cWW pair | geometric IL_5T3K_002 IL_71625.2 | |
| IL_9H9K_010 | 1/1/1124:1128, 1/1/1144:1149 | No text annotation | geometric IL_5J7L_051 NA | |
| IL_9H9K_012 | 1/1/1158:1161, 1/1/1175:1181 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_9H9K_013 | 1/1/1247:1253, 1/1/1284:1290 | No text annotation | geometric IL_5J7L_054 NA | |
| IL_9H9K_014 | 1/1/1255:1258, 1/1/1277:1282 | 180 degree turn | geometric IL_5J7L_055 NA | |
| IL_9H9K_015 | 1/1/1259:1263, 1/1/1272:1276 | Double sheared with non-canonical cWW | geometric IL_5J7L_056 NA | |
| IL_9H9K_016 | 1/1/1303:1308, 1/1/1329:1334 | No text annotation | geometric IL_5J7L_057 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9H9K_004 | Single stack bend | ||
| IL_9H9K_011 | Minor groove platform |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9H9K_001 | 1/1/936:939, 1/1/1344:1350, 1/1/1372:1379 | No text annotation | geometric J3_4LFB_002 J3_85722.1 | |
| J3_9H9K_002 | 1/1/943:946, 1/1/1235:1237, 1/1/1337:1340 | No text annotation | geometric J3_4LFB_003 J3_44359.1 | |
| J3_9H9K_003 | 1/1/955:962, 1/1/973:984, 1/1/1221:1225 | No text annotation | geometric J3_8B0X_007 J3_88451.1 | |
| J3_9H9K_004 | 1/1/990:993, 1/1/1045:1047, 1/1/1210:1215 | No text annotation | geometric J3_8B0X_008 J3_84394.1 | |
| J3_9H9K_005 | 1/1/990:997, 1/1/1044:1047, 1/1/1210:1215 | No text annotation | geometric J3_8B0X_029 J3_28881.1 | |
| J3_9H9K_006 | 1/1/1003:1007, 1/1/1022:1027, 1/1/1034:1037 | No text annotation | ||
| J3_9H9K_007 | 1/1/1063:1068, 1/1/1107:1113, 1/1/1187:1193 | No text annotation | geometric J3_4LFB_007 J3_01343.1 | |
| J3_9H9K_008 | 1/1/1073:1074, 1/1/1083:1086, 1/1/1099:1102 | No text annotation | geometric J3_4LFB_017 J3_11018.1 | |
| J3_9H9K_010 | 1/1/1116:1118, 1/1/1155:1161, 1/1/1175:1184 | No text annotation | geometric J3_5J7L_054 NA | |
| J3_9H9K_011 | 1/1/1237:1241, 1/1/1296:1303, 1/1/1334:1337 | No text annotation | geometric J3_4LFB_009 J3_03192.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_9H9K_009 | No text annotation |
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