RNA 3D Hub //

8G4S Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8G4S_0011/2/7:17No text annotation
homologous
HL_8C3A_192
NA
HL_8G4S_0031/2/138:143GNRA
geometric
HL_5TBW_019
NA
HL_8G4S_0041/2/181:187No text annotation
geometric
HL_5NFV_001
HL_69752.3
HL_8G4S_0051/2/242:250GNRA related
homologous
HL_4V88_193
NA
HL_8G4S_0061/2/280:285No text annotation
homologous
HL_4V88_194
NA
HL_8G4S_0071/2/305:316No text annotation
homologous
HL_8C3A_201
NA
HL_8G4S_0081/2/326:331UNCG
homologous
HL_4V88_196
NA
HL_8G4S_0091/2/363:367No text annotation
geometric
HL_4WF9_003
HL_75660.6
HL_8G4S_0101/2/390:393Mini UNCG
geometric
HL_4YAZ_004
HL_90436.1
HL_8G4S_0111/2/404:414No text annotation
geometric
HL_4UYK_001
HL_14063.1
HL_8G4S_0121/2/449:454GNRA variation
homologous
HL_8C3A_206
NA
HL_8G4S_0131/2/543:551No text annotation
homologous
HL_4V88_203
NA
HL_8G4S_0141/2/554:558No text annotation
geometric
HL_2Y9H_003
HL_75660.6
HL_8G4S_0151/2/591:599tRNA anticodon loop
geometric
HL_4LCK_002
HL_11974.1
HL_8G4S_0161/2/650:661No text annotation
HL_8G4S_0171/2/688:693GNRA
homologous
HL_8C3A_212
NA
HL_8G4S_0181/2/748:758No text annotation
homologous
HL_4V88_208
NA
HL_8G4S_0191/2/803:806Mini UNCG
geometric
HL_4L8H_001
HL_90436.1
HL_8G4S_0201/2/824:829GNRA
homologous
HL_4V88_210
NA
HL_8G4S_0211/2/862:867GNRA
homologous
HL_8C3A_216
NA
HL_8G4S_0221/2/929:938No text annotation
homologous
HL_4V88_212
NA
HL_8G4S_0231/2/978:986Anticodon loop related
homologous
HL_8C3A_218
NA
HL_8G4S_0241/2/1035:1040GNRA
homologous
HL_8C3A_219
NA
HL_8G4S_0251/2/1048:1055T-loop related
homologous
HL_8C3A_220
NA
HL_8G4S_0261/2/1082:1086No text annotation
geometric
HL_5TBW_006
NA
HL_8G4S_0271/2/1101:1106GNRA
geometric
HL_7RQB_063
NA
HL_8G4S_0281/2/1196:1201GNRA
homologous
HL_8C3A_223
NA
HL_8G4S_0291/2/1238:1245T-loop with 2 stacked bulged bases
geometric
HL_5DH6_002
HL_13999.1
HL_8G4S_0301/2/1279:1287No text annotation
homologous
HL_8C3A_225
NA
HL_8G4S_0311/2/1363:1375No text annotation
HL_8G4S_0321/2/1430:1435GNRA variation
homologous
HL_8C3A_227
NA
HL_8G4S_0421/g/47:63No text annotation
homologous
HL_5E81_221
NA
HL_8G4S_0431/h/31:39tRNA anticodon loop
homologous
HL_6CFJ_107
HL_81376.1
HL_8G4S_0401/i/30:40No text annotation
homologous
HL_5IB8_208
NA
HL_8G4S_0411/i/53:61No text annotation
homologous
HL_2AKE_003
NA

Problematic loops

#loop idProblemSequence
HL_8G4S_002No text annotation
HL_8G4S_033No text annotation
HL_8G4S_034No text annotation
HL_8G4S_035No text annotation
HL_8G4S_036tRNA D-loop
HL_8G4S_037No text annotation
HL_8G4S_038T-loop with 2 stacked bulged bases
HL_8G4S_039No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8G4S_0011/2/37:40,
1/2/378:382		Double sheared
geometric
IL_4WF9_016
IL_58355.1
IL_8G4S_0021/2/41:47,
1/2/343:345		No text annotation
homologous
IL_8C3A_395
NA
IL_8G4S_0031/2/49:51,
1/2/340:341		Minor groove platform
homologous
IL_8C3A_396
NA
IL_8G4S_0041/2/58:60,
1/2/74:75		No text annotation
IL_8G4S_0051/2/96:99,
1/2/216:219		Tandem non-canonical cWW pairs
homologous
IL_8C3A_399
NA
IL_8G4S_0061/2/100:103,
1/2/214:215		Multiple bulged bases
homologous
IL_8C3A_400
NA
IL_8G4S_0071/2/104:108,
1/2/210:213		UAA/GAN related
geometric
IL_3LOA_001
NA
IL_8G4S_0081/2/127:133,
1/2/148:155		No text annotation
homologous
IL_8C3A_402
NA
IL_8G4S_0091/2/160:162,
1/2/197:200		No text annotation
IL_8G4S_0101/2/163:168,
1/2/192:196		No text annotation
IL_8G4S_0121/2/225:230,
1/2/260:267		Kink-turn with non-sequential stacking
homologous
IL_8C3A_410
NA
IL_8G4S_0781/2/232:235,
1/2/257:258		No text annotation
homologous
IL_8P9A_392
IL_01372.1
IL_8G4S_0141/2/275:277,
1/2/288:293		No text annotation
homologous
IL_4V88_404
NA
IL_8G4S_0151/2/323:325,
1/2/332:334		Isolated non-canonical cWW pair
homologous
IL_8C3A_414
NA
IL_8G4S_0161/2/351:353,
1/2/375:376		Single bulged U
homologous
IL_4V88_407
NA
IL_8G4S_0171/2/355:359,
1/2/372:373		C-loop
homologous
IL_8C3A_416
NA
IL_8G4S_0181/2/359:360,
1/2/370:372		Single bulged G
geometric
IL_5J7L_019
NA
IL_8G4S_0191/2/429:436,
1/2/467:468		SSU/LSU pseudoknot
homologous
IL_8C3A_423
NA
IL_8G4S_0201/2/442:448,
1/2/455:463		Kink-turn related
homologous
IL_4V88_415
NA
IL_8G4S_0211/2/496:502,
1/2/845:846		No text annotation
homologous
IL_8C3A_426
NA
IL_8G4S_0221/2/507:511,
1/2/719:723		tSH-tHW-tHS
homologous
IL_8C3A_428
NA
IL_8G4S_0231/2/523:525,
1/2/579:581		Isolated non-canonical cWW pair
geometric
IL_1T0E_002
NA
IL_8G4S_0241/2/525:526,
1/2/576:579		Major groove minor groove platform; mini C-loop
homologous
IL_8C3A_430
NA
IL_8G4S_0251/2/530:532,
1/2/569:572		Isolated non-canonical cWW pair
geometric
IL_1XJR_003
NA
IL_8G4S_0261/2/532:538,
1/2/566:569		No text annotation
IL_8G4S_0271/2/587:589,
1/2/601:605		No text annotation
IL_8G4S_0281/2/616:617,
1/2/713:716		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_8G4S_0291/2/619:620,
1/2/709:711		Single bulged C
geometric
IL_1S03_006
IL_05642.1
IL_8G4S_0301/2/623:625,
1/2/704:706		Isolated non-canonical cWW pair
geometric
IL_3HHN_004
IL_01003.1
IL_8G4S_0311/2/625:629,
1/2/701:704		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_8G4S_0321/2/636:640,
1/2/674:678		No text annotation
geometric
IL_5TBW_121
NA
IL_8G4S_0331/2/643:645,
1/2/669:671		Isolated non-canonical cWW pair
geometric
IL_5TBW_112
NA
IL_8G4S_0341/2/646:650,
1/2/661:668		Kink-turn
geometric
IL_6UFM_001
NA
IL_8G4S_0351/2/736:741,
1/2/765:767		Other IL
geometric
IL_4V88_435
NA
IL_8G4S_0361/2/741:745,
1/2/761:765		tSH-tHW-tHS
homologous
IL_8C3A_442
NA
IL_8G4S_0371/2/746:748,
1/2/758:760		Isolated non-canonical cWW pair
geometric
IL_6IA2_002
NA
IL_8G4S_0381/2/785:787,
1/2/836:842		No text annotation
homologous
IL_8C3A_443
NA
IL_8G4S_0391/2/800:802,
1/2/808:810		Isolated non-canonical cWW pair
geometric
IL_3GM7_006
IL_01003.1
IL_8G4S_0401/2/802:803,
1/2/806:808		Single bulged U
geometric
IL_4V9F_029
IL_97561.1
IL_8G4S_0411/2/852:859,
1/2/870:875		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_8C3A_446
NA
IL_8G4S_0421/2/887:888,
1/2/1315:1317		Single bulged A
homologous
IL_8C3A_447
NA
IL_8G4S_0431/2/890:892,
1/2/1312:1313		Single bulged G
homologous
IL_8C3A_448
NA
IL_8G4S_0441/2/898:901,
1/2/1302:1306		C-loop
homologous
IL_8C3A_449
NA
IL_8G4S_0451/2/914:916,
1/2/1167:1169		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_8G4S_0461/2/919:920,
1/2/1162:1164		Minor groove platform
homologous
IL_8C3A_451
NA
IL_8G4S_0471/2/953:955,
1/2/1151:1153		Isolated non-canonical cWW pair
homologous
IL_8C3A_452
NA
IL_8G4S_0481/2/965:970,
1/2/996:997		No text annotation
IL_8G4S_0751/2/965:972,
1/2/992:997		No text annotation
IL_8G4S_0491/2/970:972,
1/2/992:996		No text annotation
IL_8G4S_0501/2/974:976,
1/2/988:990		No text annotation
homologous
IL_4V88_448
NA
IL_8G4S_0511/2/1007:1009,
1/2/1143:1144		Single bulged U
homologous
IL_8C3A_455
NA
IL_8G4S_0521/2/1010:1015,
1/2/1139:1142		Tandem non-canonical cWW pairs
geometric
IL_4V88_473
NA
IL_8G4S_0761/2/1011:1017,
1/2/1133:1141		No text annotation
homologous
IL_8P9A_439
IL_99893.1
IL_8G4S_0531/2/1015:1017,
1/2/1133:1139		Minor groove platform with extra cWW
geometric
IL_4V88_451
NA
IL_8G4S_0541/2/1019:1020,
1/2/1129:1131		Single bulged A
homologous
IL_8C3A_458
NA
IL_8G4S_0551/2/1028:1030,
1/2/1063:1065		Isolated non-canonical cWW pair
homologous
IL_8C3A_459
NA
IL_8G4S_0561/2/1045:1047,
1/2/1056:1057		Single bulged U
geometric
IL_2R8S_004
IL_97561.1
IL_8G4S_0571/2/1094:1097,
1/2/1110:1116		No text annotation
geometric
IL_4LFB_050
IL_32376.1
IL_8G4S_0771/2/1183:1191,
1/2/1206:1214		No text annotation
IL_8G4S_0581/2/1193:1195,
1/2/1202:1204		Isolated non-canonical cWW pair
homologous
IL_8C3A_468
NA
IL_8G4S_0591/2/1227:1232,
1/2/1251:1256		No text annotation
geometric
IL_5J7L_057
NA
IL_8G4S_0601/2/1233:1235,
1/2/1248:1250		Isolated non-canonical cWW pair
geometric
IL_5MWI_004
NA
IL_8G4S_0611/2/1276:1278,
1/2/1288:1290		Isolated non-canonical cWW pair
geometric
IL_5MWI_002
NA
IL_8G4S_0621/2/1321:1323,
1/2/1416:1419		No text annotation
geometric
IL_4V88_463
NA
IL_8G4S_0631/2/1323:1326,
1/2/1412:1416		No text annotation
homologous
IL_8C3A_471
NA
IL_8G4S_0641/2/1327:1329,
1/2/1409:1411		Isolated non-canonical cWW pair
geometric
IL_5MWI_007
NA
IL_8G4S_0651/2/1329:1331,
1/2/1406:1409		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_8G4S_0661/2/1335:1337,
1/2/1400:1402		Isolated non-canonical cWW pair
homologous
IL_8C3A_474
NA
IL_8G4S_0671/2/1338:1341,
1/2/1396:1399		Double sheared
homologous
IL_8C3A_475
NA
IL_8G4S_0681/2/1341:1343,
1/2/1395:1396		Single bulged U
geometric
IL_4V88_469
NA
IL_8G4S_0691/2/1350:1352,
1/2/1386:1388		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_8G4S_0701/2/1354:1357,
1/2/1381:1384		Double sheared
homologous
IL_8C3A_478
NA
IL_8G4S_0711/2/1359:1361,
1/2/1377:1379		Isolated non-canonical cWW pair
geometric
IL_4V88_470
NA
IL_8G4S_0731/g/47:50,
1/g/60:63		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA

Problematic loops

#loop idProblemSequence
IL_8G4S_011No text annotation
IL_8G4S_013No text annotation
IL_8G4S_072No text annotation
IL_8G4S_074No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8G4S_0111/2/40:41,
1/2/345:351,
1/2/376:378		No text annotation
homologous
J3_8P9A_068
J3_58657.1
J3_8G4S_0011/2/539:542,
1/2/552:554,
1/2/558:565		No text annotation
homologous
J3_4V88_032
NA
J3_8G4S_0021/2/632:635,
1/2/679:687,
1/2/694:698		No text annotation
homologous
J3_4V88_033
NA
J3_8G4S_0031/2/788:791,
1/2/819:823,
1/2/830:835		No text annotation
J3_8G4S_0041/2/902:905,
1/2/1266:1272,
1/2/1294:1301		No text annotation
homologous
J3_4V88_035
NA
J3_8G4S_0051/2/909:912,
1/2/1171:1173,
1/2/1259:1262		No text annotation
homologous
J3_8C3A_039
NA
J3_8G4S_0061/2/921:928,
1/2/939:949,
1/2/1157:1161		No text annotation
homologous
J3_8P9A_078
J3_88451.1
J3_8G4S_0071/2/955:960,
1/2/1002:1006,
1/2/1145:1151		No text annotation
homologous
J3_8C3A_041
NA
J3_8G4S_0081/2/1022:1027,
1/2/1066:1071,
1/2/1122:1127		No text annotation
homologous
J3_4V88_039
NA
J3_8G4S_0121/2/1032:1033,
1/2/1042:1045,
1/2/1057:1061		No text annotation
homologous
J3_8C3A_085
NA
J3_8G4S_0091/2/1074:1077,
1/2/1091:1094,
1/2/1116:1119		No text annotation
J3_8G4S_0131/2/1074:1077,
1/2/1091:1097,
1/2/1110:1119		No text annotation
geometric
J3_4LFB_018
J3_40706.1
J3_8G4S_0101/2/1173:1177,
1/2/1220:1227,
1/2/1256:1259		No text annotation
homologous
J3_8C3A_044
NA
J4_8G4S_0011/2/86:94,
1/2/221:223,
1/2/269:273,
1/2/295:296		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J4_8G4S_0021/2/502:504,
1/2/726:731,
1/2/772:783,
1/2/844:845		No text annotation
homologous
J4_8C3A_022
NA
J4_8G4S_0031/2/513:521,
1/2/583:586,
1/2/606:616,
1/2/716:717		No text annotation
J4_8G4S_0041/2/513:521,
1/2/583:586,
1/2/606:617,
1/2/713:717		No text annotation
J4_8G4S_0051/g/4:10,
1/g/24:25,
1/g/42:47,
1/g/63:67		No text annotation
J4_8G4S_0061/h/7:10,
1/h/25:27,
1/h/43:49,
1/h/65:66		tRNA junction
homologous
J4_8VU0_001
J4_58311.1
J5_8G4S_0011/2/30:33,
1/2/386:390,
1/2/393:399,
1/2/419:425,
1/2/472:475		No text annotation
J5_8G4S_0021/2/53:56,
1/2/77:84,
1/2/298:300,
1/2/321:323,
1/2/334:338		No text annotation
homologous
J5_8C3A_020
NA

Problematic loops

#loop idProblemSequence
J4_8G4S_007No text annotation

Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.0844 s