RNA 3D Hub //

4LFB Internal, Hairpin and 3-way Junction Loop Motifs

Download loops

Valid loops

#loop idlocationannotation
(mapped to, source)		motif group
(similar to)
1/A/12:22NAHL_67265.4
1/A/80:89NAHL_26055.6
1/A/158:163GNRAHL_43074.18
1/A/190B:190GNAHL_44730.2
1/A/201:216NAHL_57052.3
1/A/259:267NAHL_93727.5
1/A/296:301GNRAHL_43074.18
1/A/320:333NAHL_81205.2
1/A/342:347UNCGHL_79299.11
1/A/379:384GNRAHL_43074.18
1/A/419:424UNCGHL_79299.11
1/A/458:474NAHL_68304.6
1/A/521:528NANA
1/A/617:623NAHL_26055.6
1/A/689:698NAHL_87219.4
1/A/726:731Other HLHL_43074.18
1/A/786:796NAHL_87219.4
1/A/838:848NAHL_18722.3
1/A/862:867GNRAHL_43074.18
1/A/897:902GNRAHL_43074.18
1/A/963:972NANA
1/A/1012:1017GNRAHL_43074.18
1/A/1076:1081GNRAHL_43074.18
1/A/1089:1096NAHL_54035.7
1/A/1134:1140NAHL_01472.4
1/A/1165:1171GNRAHL_43074.18
1/A/1265:1270Other HLHL_43074.18
1/A/1314:1323NAHL_78061.2
1/A/1356:1366NAHL_70505.1
1/A/1449:1454UNCGHL_79299.11
1/A/1515:1520NANA

Problematic loops

#loop idProblemSequence
HL_4LFB_023NA

Valid loops

#loop idlocationannotation
(mapped to, source)		motif group
(similar to)
1/A/30:32,
1/A/552:553		Single bulged GIL_59137.10
1/A/44:45,
1/A/396:398		Single bulged AIL_80007.16
1/A/47:52,
1/A/359:361		NAIL_34626.4
1/A/54:56,
1/A/356:357		Minor groove platformIL_06437.11
1/A/63:66,
1/A/103:104		Multiple bulged basesIL_13730.12
1/A/67:69,
1/A/99:102		NAIL_01312.13
1/A/129:131,
1/A/231:232		Multiple bulged basesIL_13730.12
1/A/132:136,
1/A/227:230		NAIL_58764.1
1/A/148:153,
1/A/168:174		tWH-tWH-tHW-tHWIL_87677.1
1/A/186:188,
1/A/190K:191		NAIL_01312.13
1/A/242:247,
1/A/277:284		Kink-turn with non-sequential stackingIL_29549.9
1/A/249:252,
1/A/274:275		NAIL_83121.7
1/A/292:293,
1/A/304:308		C-loopIL_08376.2
1/A/367:369,
1/A/392:393		Single bulged UIL_83039.11
1/A/371:375,
1/A/389:390		C-loopIL_63596.4
1/A/375:376,
1/A/387:389		Single bulged GIL_59137.10
1/A/409:416,
1/A/427:433		NAIL_45257.1
1/A/446:450,
1/A/483:488		6x5 Sarcin-Ricin; G-bulgeIL_88269.2
1/A/450:455,
1/A/477:483		NAIL_11882.1
1/A/504:511,
1/A/540:541		SSU/LSU pseudoknotIL_15861.6
1/A/515:521,
1/A/528:536		NANA
1/A/569:575,
1/A/880:881		NAIL_19222.1
1/A/580:584,
1/A/757:761		tSH-tHW-tHSIL_39521.5
1/A/594:596,
1/A/644:645		Major groove platformIL_80663.10
1/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loopIL_09061.4
1/A/605:612,
1/A/628:633		NAIL_96596.1
1/A/654:655,
1/A/751:754		Major groove platform; stack outside cWWIL_80663.10
1/A/657:658,
1/A/747:749		Major groove platformIL_80663.10
1/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairsIL_85877.10
1/A/673:678,
1/A/712:717		NAIL_94518.4
1/A/683:688,
1/A/699:707		Kink-turnIL_37722.1
1/A/774:778,
1/A/804:805		Left turnIL_19389.4
1/A/779:783,
1/A/799:803		tSH-tHW-tHSIL_39521.5
1/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulgeIL_24606.1
1/A/922:923,
1/A/1393:1395		Single bulged AIL_80007.16
1/A/925:927,
1/A/1390:1391		Single bulged GIL_59137.10
1/A/933:935,
1/A/1380:1384		Minor groove platformIL_94431.4
1/A/953:954,
1/A/1226:1228		Minor groove platformIL_06437.11
1/A/993:997,
1/A/1044:1045		Minor groove platformIL_94431.4
1/A/1002:1003A,
1/A/1038:1039		Single stack bendIL_04038.4
1/A/1048:1050,
1/A/1208:1209		Single bulged UIL_83039.11
1/A/1050:1052,
1/A/1206:1208		NANA
1/A/1052:1056,
1/A/1204:1206		Isolated cWS basepairIL_67621.5
1/A/1057:1058,
1/A/1199:1203		Minor groove platformIL_06437.11
1/A/1060:1061,
1/A/1195:1197		Single bulged UIL_83039.11
1/A/1061:1063,
1/A/1193:1195		NAIL_01312.13
1/A/1124:1128,
1/A/1143:1149		NAIL_79393.8
1/A/1128:1132,
1/A/1142:1143		Minor groove platformIL_94431.4
1/A/1158:1161,
1/A/1175:1181		NAIL_42032.1
1/A/1247:1253,
1/A/1284:1290		NAIL_09129.1
1/A/1255:1258,
1/A/1277:1282		NAIL_75461.2
1/A/1259:1260,
1/A/1274:1276		Not an internal loopIL_31836.1
1/A/1260:1262,
1/A/1273:1274		Minor groove platformIL_06437.11
1/A/1303:1308,
1/A/1329:1334		NAIL_19954.1
1/A/1399:1401,
1/A/1501:1504		NANA
1/A/1401:1405,
1/A/1496:1501		NANA
1/A/1405:1409,
1/A/1491:1496		NANA
1/A/1412:1414,
1/A/1486:1488		NAIL_01312.13
1/A/1416:1419,
1/A/1481:1484		Double shearedIL_09705.7
1/A/1424:1426,
1/A/1474:1476		UG cWWIL_01312.13
1/A/1431:1435,
1/A/1466:1469		UAA/GAN variationIL_81389.2
1/A/1435:1437,
1/A/1464:1466		NAIL_01312.13
1/A/1440:1447,
1/A/1459:1461		NAIL_09768.1

Problematic loops

#loop idProblemSequence
IL_4LFB_040NA

Valid loops

#loop idlocationannotation
(mapped to, source)		motif group
(similar to)
1/A/826:829,
1/A/857:861,
1/A/868:874		NANA
1/A/936:939,
1/A/1344:1350,
1/A/1372:1379		NANA
1/A/943:946,
1/A/1235:1237,
1/A/1337:1340		NANA
1/A/955:962,
1/A/973:984,
1/A/1221:1225		NANA
1/A/990:993,
1/A/1045:1047,
1/A/1210:1215		NANA
1/A/1003A:1006,
1/A/1023:1028,
1/A/1033:1038		NANA
1/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		NANA
1/A/1116:1118,
1/A/1155:1158,
1/A/1181:1184		NANA
1/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337		NANA

Problematic loops

No problematic loops


Coloring options:
Copyright 2023 BGSU RNA group. Page generated in 0.1502 s