RNA 3D Hub //

4BPP Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4BPP_0011/A/7:17No text annotation
geometric
HL_4V88_186
NA
HL_4BPP_0021/A/68:77No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_4BPP_0031/A/148:154GNRA related
geometric
HL_4V88_188
NA
HL_4BPP_0041/A/185:190No text annotation
geometric
HL_5TBW_075
NA
HL_4BPP_0061/A/240:247T-loop with 1 bulged base
geometric
HL_4V88_191
NA
HL_4BPP_0071/A/269:274No text annotation
HL_4BPP_0081/A/321:329GNRA related
geometric
HL_4V88_193
NA
HL_4BPP_0091/A/359:364No text annotation
geometric
HL_4V88_194
NA
HL_4BPP_0101/A/384:395No text annotation
geometric
HL_4V88_195
NA
HL_4BPP_0111/A/405:410UNCG
geometric
HL_6QN3_003
HL_34617.5
HL_4BPP_0121/A/442:448No text annotation
geometric
HL_5TBW_006
NA
HL_4BPP_0131/A/483:488No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_4BPP_0141/A/514:524No text annotation
geometric
HL_4UYK_001
HL_36684.4
HL_4BPP_0151/A/563:568GNRA variation
geometric
HL_4V88_200
NA
HL_4BPP_0161/A/652:657No text annotation
HL_4BPP_0171/A/748:756No text annotation
geometric
HL_4V88_203
NA
HL_4BPP_0181/A/761:766No text annotation
HL_4BPP_0201/A/878:887No text annotation
geometric
HL_4V88_206
NA
HL_4BPP_0211/A/915:920GNRA
geometric
HL_4V88_207
NA
HL_4BPP_0221/A/975:985No text annotation
geometric
HL_5J7L_017
HL_75293.5
HL_4BPP_0231/A/1030:1038No text annotation
HL_4BPP_0241/A/1056:1061GNRA
geometric
HL_4V88_210
NA
HL_4BPP_0251/A/1094:1099GNRA
geometric
HL_4LFB_020
HL_37824.7
HL_4BPP_0261/A/1160:1169No text annotation
geometric
HL_4V88_212
NA
HL_4BPP_0271/A/1210:1219GNRA wlth tandem sheared
geometric
HL_5D8H_002
HL_81538.2
HL_4BPP_0281/A/1268:1273GNRA
geometric
HL_4LFB_024
HL_37824.7
HL_4BPP_0291/A/1281:1288No text annotation
geometric
HL_4V88_215
NA
HL_4BPP_0301/A/1330:1336GNRA
geometric
HL_5J7L_174
HL_37824.7
HL_4BPP_0311/A/1367:1373No text annotation
geometric
HL_1F1T_001
HL_63801.1
HL_4BPP_0321/A/1472:1477GNRA
geometric
HL_2OIU_003
HL_37824.7
HL_4BPP_0331/A/1522:1533No text annotation
geometric
HL_4V88_219
NA
HL_4BPP_0341/A/1566:1574No text annotation
geometric
HL_4V88_220
NA
HL_4BPP_0351/A/1660:1665No text annotation
HL_4BPP_0361/A/1731:1736No text annotation
geometric
HL_5TBW_006
NA

Problematic loops

#loop idProblemSequence
HL_4BPP_005No text annotation
HL_4BPP_019No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4BPP_0011/A/21:23,
1/A/596:598		Isolated non-canonical cWW pair
geometric
IL_5TBW_115
NA
IL_4BPP_0021/A/23:25,
1/A/594:596		Isolated non-canonical cWW pair
geometric
IL_4V88_417
NA
IL_4BPP_0031/A/37:40,
1/A/458:462		Double sheared
geometric
IL_5J7L_256
IL_09705.15
IL_4BPP_0041/A/41:47,
1/A/423:425		No text annotation
geometric
IL_4V88_387
NA
IL_4BPP_0051/A/49:51,
1/A/420:421		Minor groove platform
geometric
IL_4LFB_004
IL_51454.2
IL_4BPP_0061/A/57:62,
1/A/83:85		No text annotation
geometric
IL_4V88_389
NA
IL_4BPP_0071/A/63:67,
1/A/78:82		No text annotation
geometric
IL_4V88_390
NA
IL_4BPP_0081/A/105:108,
1/A/293:296		Tandem non-canonical cWW pairs
geometric
IL_4V88_391
NA
IL_4BPP_0091/A/109:112,
1/A/291:292		Multiple bulged bases
geometric
IL_6CZR_119
NA
IL_4BPP_0101/A/113:118,
1/A/286:290		No text annotation
geometric
IL_4V88_393
NA
IL_4BPP_0111/A/137:143,
1/A/159:166		tWH-tWH-tHW-tHW
geometric
IL_4V88_394
NA
IL_4BPP_0121/A/144:146,
1/A/156:158		Isolated cWH basepair
geometric
IL_3CZW_001
IL_10167.5
IL_4BPP_0131/A/181:183,
1/A/192:193		Single bulged U
geometric
IL_5TBW_093
NA
IL_4BPP_0141/A/199:201,
1/A/256:260		Major groove platform with extra cWW
geometric
IL_7RQB_022
NA
IL_4BPP_0151/A/201:203,
1/A/254:256		Isolated non-canonical cWW pair
geometric
IL_4V88_398
NA
IL_4BPP_0161/A/262:264,
1/A/279:280		Single bulged A
geometric
IL_4V88_399
NA
IL_4BPP_0171/A/302:307,
1/A/339:346		Kink-turn with non-sequential stacking
geometric
IL_4V88_402
NA
IL_4BPP_0181/A/309:314,
1/A/336:337		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_4BPP_0191/A/354:356,
1/A/367:372		No text annotation
geometric
IL_4V88_404
NA
IL_4BPP_0201/A/380:382,
1/A/397:399		Isolated cWH basepair
geometric
IL_4V88_405
NA
IL_4BPP_0211/A/402:403,
1/A/412:414		Single bulged C
geometric
IL_4V88_384
NA
IL_4BPP_0221/A/431:433,
1/A/455:456		Single bulged U
geometric
IL_4V88_407
NA
IL_4BPP_0231/A/435:439,
1/A/452:453		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_4BPP_0241/A/439:440,
1/A/450:452		Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_4BPP_0251/A/473:474,
1/A/498:500		Single bulged A
geometric
IL_4V88_409
NA
IL_4BPP_0261/A/477:479,
1/A/492:495		No text annotation
IL_4BPP_0271/A/507:509,
1/A/529:536		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_4BPP_0291/A/543:550,
1/A/581:582		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_4BPP_0301/A/550:552,
1/A/580:581		Single bulged U
geometric
IL_2UWM_003
IL_89505.4
IL_4BPP_0311/A/552:554,
1/A/579:580		Single bulged A
geometric
IL_5TBW_013
NA
IL_4BPP_0321/A/556:562,
1/A/569:577		No text annotation
geometric
IL_8CRE_423
IL_54177.4
IL_4BPP_0331/A/610:616,
1/A/1076:1077		No text annotation
geometric
IL_4LFB_022
IL_38186.6
IL_4BPP_0341/A/618:620,
1/A/951:953		Isolated non-canonical cWW pair
geometric
IL_4V88_417
NA
IL_4BPP_0351/A/621:625,
1/A/946:950		tSH-tHW-tHS
geometric
IL_4V88_418
NA
IL_4BPP_0371/A/641:643,
1/A/665:667		Isolated non-canonical cWW pair
geometric
IL_4M4O_002
IL_87907.2
IL_4BPP_0381/A/647:650,
1/A/659:661		Isolated non-canonical cWW pair
geometric
IL_1U6B_005
IL_28037.2
IL_4BPP_0401/A/730:731,
1/A/785:788		Minor groove platform
geometric
IL_7RQB_073
NA
IL_4BPP_0411/A/735:743,
1/A/774:781		No text annotation
geometric
IL_4V88_425
NA
IL_4BPP_0421/A/843:844,
1/A/940:943		Major groove platform; stack outside cWW
geometric
IL_4V88_428
NA
IL_4BPP_0451/A/852:856,
1/A/928:931		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_4BPP_0481/A/963:968,
1/A/992:994		Other IL
geometric
IL_4V88_435
NA
IL_4BPP_0491/A/968:972,
1/A/988:992		tSH-tHW-tHS
geometric
IL_4LFB_033
IL_17136.7
IL_4BPP_0501/A/1012:1014,
1/A/1067:1073		No text annotation
geometric
IL_4V88_437
NA
IL_4BPP_0511/A/1019:1022,
1/A/1046:1049		Tandem non-canonical cWW pairs
geometric
IL_4V88_438
NA
IL_4BPP_0521/A/1083:1090,
1/A/1102:1107		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_4V88_440
NA
IL_4BPP_0531/A/1091:1093,
1/A/1100:1101		Single bulged U
geometric
IL_7KVT_002
IL_89505.4
IL_4BPP_0541/A/1119:1120,
1/A/1602:1604		Single bulged A
geometric
IL_4LFB_035
IL_31462.5
IL_4BPP_0551/A/1122:1124,
1/A/1599:1600		Single bulged G
geometric
IL_4V88_442
NA
IL_4BPP_0561/A/1126:1128,
1/A/1595:1597		Isolated cWH basepair
geometric
IL_4J50_003
IL_10167.5
IL_4BPP_0571/A/1130:1132,
1/A/1589:1593		C-loop
geometric
IL_4V88_443
NA
IL_4BPP_0581/A/1145:1147,
1/A/1435:1437		Isolated non-canonical cWW pair
geometric
IL_4V88_444
NA
IL_4BPP_0591/A/1150:1151,
1/A/1430:1432		Minor groove platform
geometric
IL_4LFB_038
IL_51454.2
IL_4BPP_0611/A/1197:1202,
1/A/1229:1230		No text annotation
IL_4BPP_0621/A/1202:1205,
1/A/1224:1229		No text annotation
IL_4BPP_0631/A/1206:1208,
1/A/1221:1223		No text annotation
geometric
IL_4V88_448
NA
IL_4BPP_0641/A/1240:1242,
1/A/1411:1412		Single bulged U
geometric
IL_4LFB_042
IL_89505.4
IL_4BPP_0651/A/1244:1248,
1/A/1407:1409		Isolated cWS basepair
geometric
IL_4V88_450
NA
IL_4BPP_0661/A/1248:1250,
1/A/1401:1407		Minor groove platform with extra cWW
geometric
IL_4V88_451
NA
IL_4BPP_0671/A/1252:1253,
1/A/1397:1399		Single bulged A
geometric
IL_4V88_452
NA
IL_4BPP_0681/A/1262:1264,
1/A/1295:1297		Isolated non-canonical cWW pair
geometric
IL_5UNE_003
IL_87907.2
IL_4BPP_0691/A/1278:1280,
1/A/1289:1290		Minor groove platform
geometric
IL_4V88_454
NA
IL_4BPP_0701/A/1311:1314,
1/A/1353:1355		Isolated non-canonical cWW pair
geometric
IL_4V88_455
NA
IL_4BPP_0721/A/1322:1323,
1/A/1343:1345		Single bulged U
geometric
IL_2PJP_001
IL_89505.4
IL_4BPP_0731/A/1323:1325,
1/A/1341:1343		Isolated non-canonical cWW pair
geometric
IL_5VCI_001
IL_28037.2
IL_4BPP_0741/A/1359:1361,
1/A/1378:1383		Major groove platform; stack outside cWW
geometric
IL_4V88_458
NA
IL_4BPP_0751/A/1364:1366,
1/A/1374:1375		Single bulged U
geometric
IL_3MEI_001
IL_89505.4
IL_4BPP_0761/A/1459:1465,
1/A/1485:1490		180 degree turn
geometric
IL_5J7L_055
IL_11344.2
IL_4BPP_0771/A/1469:1470,
1/A/1479:1481		Major groove platform
geometric
IL_3NKB_002
IL_48076.6
IL_4BPP_0781/A/1512:1517,
1/A/1538:1543		No text annotation
geometric
IL_4V88_462
NA
IL_4BPP_0791/A/1518:1520,
1/A/1535:1537		Isolated non-canonical cWW pair
geometric
IL_3GM7_005
IL_87907.2
IL_4BPP_0801/A/1608:1610,
1/A/1717:1720		No text annotation
geometric
IL_4V88_463
NA
IL_4BPP_0811/A/1610:1613,
1/A/1713:1717		No text annotation
geometric
IL_4V88_464
NA
IL_4BPP_0821/A/1614:1616,
1/A/1710:1712		Isolated non-canonical cWW pair
geometric
IL_4E48_006
IL_87907.2
IL_4BPP_0831/A/1616:1618,
1/A/1707:1710		Isolated non-canonical cWW pair
geometric
IL_4WF9_041
IL_57744.1
IL_4BPP_0841/A/1621:1624,
1/A/1701:1704		No text annotation
IL_4BPP_0851/A/1625:1628,
1/A/1697:1700		Double sheared
geometric
IL_4LFB_060
IL_09705.15
IL_4BPP_0861/A/1635:1638,
1/A/1687:1690		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA
IL_4BPP_0871/A/1640:1643,
1/A/1682:1685		Double sheared
geometric
IL_4V88_471
NA
IL_4BPP_0881/A/1644:1646,
1/A/1679:1681		Isolated non-canonical cWW pair
geometric
IL_5TBW_021
NA
IL_4BPP_0891/A/1646:1649,
1/A/1676:1679		Tandem non-canonical cWW pairs
geometric
IL_3R2D_002
IL_77658.1
IL_4BPP_0901/A/1649:1653,
1/A/1672:1676		Triple sheared
geometric
IL_7RQB_075
NA

Problematic loops

#loop idProblemSequence
IL_4BPP_028Triple sheared
IL_4BPP_043Tandem non-canonical cWW pairs
IL_4BPP_044Tandem non-canonical cWW pairs
IL_4BPP_046No text annotation
IL_4BPP_047Kink-turn
IL_4BPP_071No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4BPP_0011/A/744:747,
1/A/757:759,
1/A/768:773		No text annotation
geometric
J3_8P9A_073
J3_97642.1
J3_4BPP_0021/A/859:862,
1/A/906:914,
1/A/921:925		No text annotation
geometric
J3_8P9A_074
J3_76375.1
J3_4BPP_0031/A/1015:1017,
1/A/1051:1055,
1/A/1062:1066		No text annotation
J3_4BPP_0041/A/1133:1136,
1/A/1553:1559,
1/A/1581:1588		No text annotation
geometric
J3_8CRE_078
J3_25303.4
J3_4BPP_0051/A/1140:1143,
1/A/1439:1441,
1/A/1546:1549		No text annotation
geometric
J3_8CRE_079
J3_52655.4
J3_4BPP_0061/A/1152:1159,
1/A/1170:1181,
1/A/1425:1429		No text annotation
geometric
J3_8CRE_080
J3_83516.4
J3_4BPP_0071/A/1187:1192,
1/A/1235:1239,
1/A/1413:1419		No text annotation
geometric
J3_8CRE_081
J3_87797.1
J3_4BPP_0081/A/1255:1260,
1/A/1299:1304,
1/A/1390:1395		No text annotation
J3_4BPP_0091/A/1308:1310,
1/A/1356:1359,
1/A/1383:1386		No text annotation
geometric
J3_8P9A_082
J3_82365.4
J3_4BPP_0101/A/1441:1445,
1/A/1505:1512,
1/A/1543:1546		No text annotation
geometric
J3_4LFB_009
J3_37047.6

Problematic loops

No problematic loops


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