RNA 3D Hub //

3J2A Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3J2A_0011/N/12:22No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_3J2A_0021/N/82:87No text annotation
HL_3J2A_0031/N/158:163GNRA
homologous
HL_4LFB_003
HL_37824.7
HL_3J2A_0041/N/186:191GNRA
homologous
HL_5J7L_004
HL_37824.7
HL_3J2A_0051/N/207:212No text annotation
HL_3J2A_0061/N/258:268No text annotation
geometric
HL_6DME_003
HL_60266.1
HL_3J2A_0071/N/296:301GNRA
homologous
HL_4LFB_007
HL_37824.7
HL_3J2A_0081/N/320:333No text annotation
homologous
HL_4LFB_008
HL_81205.3
HL_3J2A_0091/N/342:347UNCG
homologous
HL_6CZR_080
NA
HL_3J2A_0101/N/379:384GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_3J2A_0111/N/419:424No text annotation
homologous
HL_6CZR_082
NA
HL_3J2A_0361/N/459:473No text annotation
HL_3J2A_0131/N/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_3J2A_0141/N/617:623No text annotation
homologous
HL_5J7L_014
HL_10453.3
HL_3J2A_0151/N/689:698No text annotation
homologous
HL_4LFB_015
HL_75293.5
HL_3J2A_0161/N/726:731GNRA
homologous
HL_5J7L_016
HL_37824.7
HL_3J2A_0341/N/785:797No text annotation
HL_3J2A_0171/N/786:796No text annotation
homologous
HL_4LFB_017
HL_75293.5
HL_3J2A_0181/N/840:846No text annotation
geometric
HL_8VM9_005
HL_32346.3
HL_3J2A_0191/N/862:867GNRA
homologous
HL_5J7L_019
HL_37824.7
HL_3J2A_0201/N/897:902GNRA
homologous
HL_4LFB_020
HL_37824.7
HL_3J2A_0211/N/963:972No text annotation
HL_3J2A_0221/N/1012:1017GNRA
homologous
HL_4LFB_022
HL_37824.7
HL_3J2A_0231/N/1028:1033No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_3J2A_0241/N/1076:1081GNRA
homologous
HL_4LFB_024
HL_37824.7
HL_3J2A_0251/N/1089:1096No text annotation
geometric
HL_5TBW_024
NA
HL_3J2A_0261/N/1134:1140No text annotation
homologous
HL_5J7L_025
HL_87954.2
HL_3J2A_0271/N/1165:1171GNRA
homologous
HL_5J7L_026
HL_93535.1
HL_3J2A_0281/N/1265:1270GNRA
homologous
HL_4LFB_028
HL_37824.7
HL_3J2A_0291/N/1314:1323T-loop with 2 stacked bulged bases
geometric
HL_5DH6_002
HL_01609.3
HL_3J2A_0301/N/1356:1366No text annotation
homologous
HL_5J7L_029
HL_06226.4
HL_3J2A_0311/N/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_3J2A_0321/N/1515:1520GNRA
homologous
HL_4LFB_032
HL_37824.7

Problematic loops

#loop idProblemSequence
HL_3J2A_033No text annotation
HL_3J2A_012No text annotation
HL_3J2A_035No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3J2A_0011/N/30:32,
1/N/552:553		Single bulged G
homologous
IL_6CZR_113
NA
IL_3J2A_0731/N/44:45,
1/N/396:398		Single bulged A
homologous
IL_5J7L_002
IL_31462.5
IL_3J2A_0031/N/47:52,
1/N/359:361		No text annotation
homologous
IL_5J7L_003
IL_14177.2
IL_3J2A_0041/N/54:56,
1/N/356:357		Minor groove platform
homologous
IL_5J7L_004
IL_51454.2
IL_3J2A_0061/N/63:66,
1/N/103:104		Multiple bulged bases
homologous
IL_5J7L_005
IL_82107.4
IL_3J2A_0071/N/67:69,
1/N/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
IL_90351.1
IL_3J2A_0081/N/70:73,
1/N/97:98		Minor groove platform
homologous
IL_5J7L_007
IL_15052.4
IL_3J2A_0741/N/75:76,
1/N/93:95		No text annotation
IL_3J2A_0101/N/128:136,
1/N/227:233		No text annotation
IL_3J2A_0111/N/144:146,
1/N/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
IL_10167.5
IL_3J2A_0121/N/147:153,
1/N/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_3J2A_0141/N/202:206,
1/N/213:215		No text annotation
IL_3J2A_0151/N/242:247,
1/N/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_3J2A_0751/N/249:252,
1/N/274:275		No text annotation
homologous
IL_5J7L_015
IL_47074.2
IL_3J2A_0171/N/292:293,
1/N/304:308		No text annotation
IL_3J2A_0861/N/371:375,
1/N/389:390		C-loop
homologous
IL_5J7L_018
IL_03109.3
IL_3J2A_0201/N/375:376,
1/N/387:389		Single bulged G
homologous
IL_4LFB_016
IL_00225.13
IL_3J2A_0761/N/409:416,
1/N/427:433		No text annotation
homologous
IL_4LFB_017
IL_28026.3
IL_3J2A_0771/N/440:442,
1/N/492:497		No text annotation
geometric
IL_5J7L_021
IL_33323.1
IL_3J2A_0231/N/446:450,
1/N/483:488		tSH-tHW-tWW
homologous
IL_5J7L_022
IL_88269.4
IL_3J2A_0241/N/450:455,
1/N/477:483		No text annotation
IL_3J2A_0251/N/504:511,
1/N/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
IL_41203.4
IL_3J2A_0871/N/515:521,
1/N/528:536		No text annotation
IL_3J2A_0781/N/567:575,
1/N/880:883		No text annotation
geometric
IL_1GID_008
NA
IL_3J2A_0271/N/568:575,
1/N/880:882		No text annotation
IL_3J2A_0281/N/580:584,
1/N/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
IL_17136.7
IL_3J2A_0291/N/594:596,
1/N/644:645		Major groove platform
homologous
IL_5J7L_028
IL_48076.6
IL_3J2A_0301/N/597:598,
1/N/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
IL_68140.4
IL_3J2A_0311/N/605:612,
1/N/628:633		No text annotation
IL_3J2A_0321/N/654:655,
1/N/751:754		Major groove platform; stack outside cWW
geometric
IL_4V9F_061
IL_50694.7
IL_3J2A_0341/N/658:659,
1/N/746:748		Single stack bend
homologous
IL_5J7L_032
IL_26793.1
IL_3J2A_0361/N/662:666,
1/N/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
IL_85033.2
IL_3J2A_0371/N/684:688,
1/N/699:706		Kink-turn
homologous
IL_5J7L_035
IL_01488.3
IL_3J2A_0381/N/773:783,
1/N/799:806		No text annotation
IL_3J2A_0401/N/887:894,
1/N/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_3J2A_0801/N/921:923,
1/N/1393:1396		Isolated non-canonical cWW pair
geometric
IL_4V9K_064
IL_87907.2
IL_3J2A_0411/N/922:924,
1/N/1392:1395		Isolated non-canonical cWW pair
geometric
IL_4V88_417
NA
IL_3J2A_0421/N/924:927,
1/N/1390:1392		Isolated non-canonical cWW pair
geometric
IL_4V88_424
NA
IL_3J2A_0431/N/933:935,
1/N/1380:1384		Minor groove platform
homologous
IL_4LFB_037
IL_47078.3
IL_3J2A_0461/N/993:997,
1/N/1044:1045		Minor groove platform
geometric
IL_5J7L_043
IL_47078.3
IL_3J2A_0471/N/998:999,
1/N/1041:1043		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_3J2A_0491/N/1048:1050,
1/N/1208:1209		Single bulged U
homologous
IL_4LFB_042
IL_89505.4
IL_3J2A_0501/N/1052:1056,
1/N/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_3J2A_0511/N/1057:1058,
1/N/1199:1203		Minor groove platform
homologous
IL_4LFB_045
IL_95583.2
IL_3J2A_0521/N/1060:1061,
1/N/1195:1197		Single bulged U
homologous
IL_4LFB_046
IL_89505.4
IL_3J2A_0551/N/1124:1128,
1/N/1144:1149		No text annotation
geometric
IL_5J7L_051
IL_06691.1
IL_3J2A_0561/N/1129:1132,
1/N/1142:1143		Minor groove platform
homologous
IL_5J7L_052
IL_15052.4
IL_3J2A_0881/N/1158:1162,
1/N/1174:1181		No text annotation
IL_3J2A_0581/N/1247:1254,
1/N/1283:1290		No text annotation
IL_3J2A_0591/N/1255:1258,
1/N/1277:1282		180 degree turn
homologous
IL_5J7L_055
IL_11344.2
IL_3J2A_0601/N/1259:1263,
1/N/1272:1276		Triple sheared
geometric
IL_7A0S_087
IL_17948.2
IL_3J2A_0621/N/1303:1308,
1/N/1329:1334		No text annotation
geometric
IL_5J7L_057
IL_85536.2
IL_3J2A_0641/N/1401:1404,
1/N/1497:1501		No text annotation
homologous
IL_4LFB_068
IL_65718.4
IL_3J2A_0651/N/1405:1407,
1/N/1494:1496		Isolated non-canonical cWW pair
geometric
IL_1ZX7_006
IL_28037.2
IL_3J2A_0831/N/1405:1409,
1/N/1491:1496		Partly complementary
homologous
IL_6CZR_167
NA
IL_3J2A_0661/N/1407:1411,
1/N/1489:1494		No text annotation
IL_3J2A_0671/N/1412:1414,
1/N/1486:1488		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_3J2A_0681/N/1416:1419,
1/N/1481:1484		Double sheared
homologous
IL_6CZR_169
NA
IL_3J2A_0691/N/1430:1435,
1/N/1466:1470		Triple sheared related
homologous
IL_5J7L_063
IL_80231.1
IL_3J2A_0891/N/1440:1442,
1/N/1460:1461		Single bulged A
homologous
IL_5J7L_064
IL_31462.5
IL_3J2A_0851/N/1445:1448,
1/N/1455:1457		No text annotation
homologous
IL_5J7L_065
IL_31531.3

Problematic loops

#loop idProblemSequence
IL_3J2A_002Isolated non-canonical cWW pair
IL_3J2A_005Isolated non-canonical cWW pair
IL_3J2A_009No text annotation
IL_3J2A_013Isolated non-canonical cWW pair
IL_3J2A_016No text annotation
IL_3J2A_018Isolated non-canonical cWW pair
IL_3J2A_019No text annotation
IL_3J2A_021Isolated non-canonical cWW pair
IL_3J2A_022No text annotation
IL_3J2A_026No text annotation
IL_3J2A_079No text annotation
IL_3J2A_033No text annotation
IL_3J2A_035Isolated non-canonical cWW pair
IL_3J2A_039No text annotation
IL_3J2A_081Tandem non-canonical cWW pairs
IL_3J2A_044No text annotation
IL_3J2A_045Isolated non-canonical cWW pair
IL_3J2A_082No text annotation
IL_3J2A_048No text annotation
IL_3J2A_053Isolated non-canonical cWW pair
IL_3J2A_054No text annotation
IL_3J2A_057No text annotation
IL_3J2A_061Isolated cWH basepair
IL_3J2A_063Isolated non-canonical cWW pair
IL_3J2A_084No text annotation
IL_3J2A_070Isolated non-canonical cWW pair
IL_3J2A_071Minor groove platform with extra cWW
IL_3J2A_072No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3J2A_0131/N/46:52,
1/N/359:369,
1/N/392:395		No text annotation
J3_3J2A_0211/N/586:588,
1/N/651:654,
1/N/754:755		No text annotation
geometric
J3_6CZR_016
NA
J3_3J2A_0221/N/586:588,
1/N/651:655,
1/N/751:755		No text annotation
homologous
J3_4LFB_015
J3_17385.4
J3_3J2A_0151/N/672:677,
1/N/713:725,
1/N/732:734		No text annotation
J3_3J2A_0021/N/826:829,
1/N/857:861,
1/N/868:874		No text annotation
J3_3J2A_0031/N/936:939,
1/N/1344:1350,
1/N/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_25303.4
J3_3J2A_0041/N/943:946,
1/N/1235:1237,
1/N/1337:1340		No text annotation
J3_3J2A_0231/N/951:962,
1/N/973:984,
1/N/1221:1230		No text annotation
J3_3J2A_0051/N/953:962,
1/N/973:985,
1/N/1220:1228		No text annotation
J3_3J2A_0061/N/990:993,
1/N/1045:1047,
1/N/1210:1215		No text annotation
homologous
J3_4LFB_005
J3_82572.1
J3_3J2A_0241/N/990:997,
1/N/1044:1047,
1/N/1210:1215		No text annotation
homologous
J3_5J7L_053
J3_76475.2
J3_3J2A_0251/N/1003:1006,
1/N/1023:1027,
1/N/1034:1037		No text annotation
J3_3J2A_0261/N/1061:1068,
1/N/1107:1113,
1/N/1187:1195		No text annotation
J3_3J2A_0121/N/1073:1074,
1/N/1083:1087,
1/N/1098:1102		No text annotation
J3_3J2A_0091/N/1116:1118,
1/N/1155:1158,
1/N/1181:1184		No text annotation
homologous
J3_5J7L_010
J3_82365.4
J3_3J2A_0271/N/1116:1118,
1/N/1155:1162,
1/N/1174:1184		No text annotation
J3_3J2A_0101/N/1237:1241,
1/N/1296:1303,
1/N/1334:1337		No text annotation
homologous
J3_5J7L_011
J3_37047.6
J4_3J2A_0011/N/115:122,
1/N/239:240,
1/N/286:289,
1/N/311:312		No text annotation
J4_3J2A_0041/N/141:144,
1/N/178:184,
1/N/193:198,
1/N/219:222		No text annotation
J4_3J2A_0031/N/575:577,
1/N/764:769,
1/N/810:821,
1/N/879:880		No text annotation
homologous
J4_5J7L_003
J4_61885.6
J5_3J2A_0011/N/36:39,
1/N/403:406,
1/N/436:440,
1/N/497:500,
1/N/545:548		No text annotation
homologous
J5_5J7L_001
J5_92941.1
J5_3J2A_0021/N/36:39,
1/N/403:406,
1/N/436:442,
1/N/492:500,
1/N/545:548		No text annotation
homologous
J5_5J7L_002
J5_67416.1
J5_3J2A_0031/N/58:63,
1/N/104:113,
1/N/314:316,
1/N/337:339,
1/N/350:354		No text annotation

Problematic loops

#loop idProblemSequence
J3_3J2A_001No text annotation
J3_3J2A_014No text annotation
J3_3J2A_016No text annotation
J3_3J2A_017No text annotation
J3_3J2A_007No text annotation
J3_3J2A_018No text annotation
J3_3J2A_008No text annotation
J3_3J2A_019No text annotation
J3_3J2A_020No text annotation
J4_3J2A_002No text annotation

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