RNA 3D Hub //

8XT2 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8XT2_0011/L1/52:59No text annotation
geometric
HL_4WF9_006
HL_48677.1
HL_8XT2_0021/L1/76:82No text annotation
geometric
HL_7A0S_008
HL_76371.2
HL_8XT2_0031/L1/116:121GNRA
homologous
HL_7RQB_015
NA
HL_8XT2_0041/L1/133:137No text annotation
HL_8XT2_0051/L1/161:169No text annotation
homologous
HL_7RQB_017
NA
HL_8XT2_0061/L1/177:186T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_8XT2_0071/L1/214:219No text annotation
geometric
HL_7RQB_011
NA
HL_8XT2_0081/L1/264:270No text annotation
geometric
HL_5J7L_151
NA
HL_8XT2_0091/L1/284:293No text annotation
homologous
HL_7RQB_023
NA
HL_8XT2_0101/L1/318:326No text annotation
geometric
HL_5TBW_021
NA
HL_8XT2_0111/L1/365:370No text annotation
homologous
HL_4WF9_025
HL_27530.1
HL_8XT2_0131/L1/437:444GNRA
homologous
HL_4WF9_027
HL_34789.4
HL_8XT2_0141/L1/459:466No text annotation
homologous
HL_5J7L_160
NA
HL_8XT2_0161/L1/532:539GNRA wlth tandem sheared
homologous
HL_6PRV_002
HL_98423.3
HL_8XT2_0171/L1/609:616No text annotation
geometric
HL_5E6M_002
HL_10874.1
HL_8XT2_0181/L1/649:654UNCG
geometric
HL_5J7L_005
NA
HL_8XT2_0201/L1/730:733Mini UNCG
geometric
HL_7A0S_039
HL_90436.3
HL_8XT2_0211/L1/758:765No text annotation
homologous
HL_7RQB_040
NA
HL_8XT2_0221/L1/827:837No text annotation
homologous
HL_5J7L_178
NA
HL_8XT2_0231/L1/848:862No text annotation
HL_8XT2_0241/L1/885:890No text annotation
geometric
HL_2Y9H_003
HL_75660.8
HL_8XT2_0251/L1/904:913No text annotation
homologous
HL_9DFE_046
HL_82185.1
HL_8XT2_0261/L1/942:950No text annotation
homologous
HL_7A0S_048
HL_61418.2
HL_8XT2_0271/L1/1020:1029No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_8XT2_0291/L1/1142:1150No text annotation
homologous
HL_4WF9_049
HL_11974.2
HL_8XT2_0301/L1/1158:1170No text annotation
HL_8XT2_0311/L1/1192:1200No text annotation
geometric
HL_2ZZM_002
HL_33487.1
HL_8XT2_0321/L1/1232:1237GNRA
geometric
HL_5TBW_019
NA
HL_8XT2_0331/L1/1288:1296No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_8XT2_0341/L1/1345:1352GNRA variation
homologous
HL_5J7L_194
NA
HL_8XT2_0351/L1/1368:1374No text annotation
homologous
HL_7A0S_061
HL_48677.1
HL_8XT2_0361/L1/1411:1416GNRA
homologous
HL_7RQB_063
NA
HL_8XT2_0371/L1/1456:1461GNRA
geometric
HL_2R8S_001
HL_34789.4
HL_8XT2_0381/L1/1484:1489No text annotation
geometric
HL_5FMZ_001
HL_19413.2
HL_8XT2_0391/L1/1506:1523No text annotation
geometric
HL_7A0S_074
NA
HL_8XT2_0401/L1/1546:1554No text annotation
geometric
HL_7RQB_068
NA
HL_8XT2_0421/L2/29:37Anticodon loop related
geometric
HL_5T83_002
HL_81376.3
HL_8XT2_0431/S1/7:17No text annotation
homologous
HL_4LFB_001
HL_73535.1
HL_8XT2_0441/S1/54:61No text annotation
geometric
HL_7VTI_001
HL_89167.2
HL_8XT2_0451/S1/121:126GNRA
geometric
HL_5J7L_191
NA
HL_8XT2_0461/S1/145:149No text annotation
geometric
HL_6U8D_003
HL_32346.6
HL_8XT2_0471/S1/157:162Mini UNCG
geometric
HL_5T16_002
HL_12626.2
HL_8XT2_0481/S1/195:200GNRA
homologous
HL_4LFB_010
HL_34789.4
HL_8XT2_0491/S1/247:252GNRA
geometric
HL_1G1X_003
NA
HL_8XT2_0501/S1/342:351No text annotation
geometric
HL_4LFB_015
HL_38491.2
HL_8XT2_0511/S1/376:381GNRA
geometric
HL_5J7L_016
NA
HL_8XT2_0521/S1/427:437No text annotation
homologous
HL_5J7L_017
NA
HL_8XT2_0541/S1/503:508Mini UNCG
geometric
HL_6TQB_001
HL_12626.2
HL_8XT2_0551/S1/570:579No text annotation
homologous
HL_5J7L_021
NA
HL_8XT2_0561/S1/634:640No text annotation
geometric
HL_5U3G_001
HL_75660.8
HL_8XT2_0571/S1/663:668No text annotation
HL_8XT2_0581/S1/726:732No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_8XT2_0601/S1/793:803No text annotation
homologous
HL_6CZR_101
NA
HL_8XT2_0621/S1/933:938GNRA variation
geometric
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_8XT2_012Externally structured
HL_8XT2_015No text annotation
HL_8XT2_019No text annotation
HL_8XT2_028Purine riboswitch
HL_8XT2_041tRNA D-loop
HL_8XT2_053No text annotation
HL_8XT2_059T-loop with 2 bulged bases not stacked
HL_8XT2_061UNCG variation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8XT2_1001/L1/2:8,
1/L1/127:146		No text annotation
IL_8XT2_0011/L1/12:13,
1/L1/98:100		Single bulged A
homologous
IL_7RQB_002
NA
IL_8XT2_0021/L1/69:75,
1/L1/83:88		7x6 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_251
NA
IL_8XT2_0031/L1/175:177,
1/L1/186:188		Isolated non-canonical cWW pair
geometric
IL_5J7L_257
NA
IL_8XT2_0041/L1/207:209,
1/L1/225:227		Isolated non-canonical cWW pair
geometric
IL_3GM7_002
IL_01003.4
IL_8XT2_0051/L1/210:213,
1/L1/220:224		No text annotation
IL_8XT2_0061/L1/234:236,
1/L1/346:348		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_01003.4
IL_8XT2_0071/L1/236:240,
1/L1/339:346		tHW-tHW cross-strand stack
homologous
IL_7RQB_018
NA
IL_8XT2_0081/L1/243:245,
1/L1/334:336		Isolated non-canonical cWW pair
geometric
IL_5TBW_079
NA
IL_8XT2_0091/L1/255:257,
1/L1/307:309		Isolated non-canonical cWW contact
geometric
IL_5UNE_001
IL_87720.1
IL_8XT2_0101/L1/259:260,
1/L1/303:305		Single bulged A
geometric
IL_5J7L_261
NA
IL_8XT2_0111/L1/278:281,
1/L1/296:298		Major groove platform with extra cWW
homologous
IL_7RQB_022
NA
IL_8XT2_0121/L1/315:317,
1/L1/327:331		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_8XT2_0131/L1/376:378,
1/L1/421:424		No text annotation
geometric
IL_4N0T_004
IL_32983.2
IL_8XT2_0141/L1/387:393,
1/L1/406:412		No text annotation
geometric
IL_5XWG_002
IL_74768.1
IL_8XT2_0151/L1/475:477,
1/L1/584:585		Single bulged C
homologous
IL_5J7L_276
NA
IL_8XT2_0161/L1/479:483,
1/L1/578:582		UAA/GAN
homologous
IL_7RQB_036
NA
IL_8XT2_0171/L1/498:500,
1/L1/520:522		Isolated near basepair
geometric
IL_2ZI0_001
IL_42997.5
IL_8XT2_0191/L1/527:530,
1/L1/541:542		No text annotation
homologous
IL_6PRV_002
NA
IL_8XT2_0201/L1/636:643,
1/L1/1004:1010		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_8XT2_0211/L1/659:663,
1/L1/771:778		No text annotation
IL_8XT2_1011/L1/707:711,
1/L1/741:749		No text annotation
IL_8XT2_1021/L1/714:730,
1/L1/733:738		No text annotation
IL_8XT2_0221/L1/786:791,
1/L1/996:998		No text annotation
IL_8XT2_0231/L1/797:799,
1/L1/988:990		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_8XT2_0241/L1/800:803,
1/L1/986:987		Major groove platform; stack outside cWW
geometric
IL_7RQB_066
NA
IL_8XT2_1031/L1/800:808,
1/L1/983:987		No text annotation
homologous
IL_5J7L_386
NA
IL_8XT2_0251/L1/803:808,
1/L1/983:986		Intercalated tWH
geometric
IL_5J7L_307
NA
IL_8XT2_0261/L1/808:817,
1/L1/978:983		No text annotation
IL_8XT2_0271/L1/820:821,
1/L1/973:975		Single bulged A
homologous
IL_7RQB_069
NA
IL_8XT2_0281/L1/878:881,
1/L1/896:897		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_8XT2_0291/L1/882:883,
1/L1/892:895		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_8XT2_0301/L1/926:927,
1/L1/957:960		Bulged stacked bases
homologous
IL_5J7L_318
NA
IL_8XT2_0311/L1/927:938,
1/L1/954:957		No text annotation
IL_8XT2_0321/L1/1042:1045,
1/L1/1434:1436		Major groove platform with extra pair
geometric
IL_5TBW_091
NA
IL_8XT2_0331/L1/1047:1049,
1/L1/1429:1432		No text annotation
homologous
IL_5J7L_321
NA
IL_8XT2_0341/L1/1060:1062,
1/L1/1259:1260		Single bulged U
homologous
IL_7RQB_080
NA
IL_8XT2_0351/L1/1063:1064,
1/L1/1255:1258		Minor groove platform
homologous
IL_5J7L_324
NA
IL_8XT2_0361/L1/1074:1076,
1/L1/1132:1133		Minor groove platform
geometric
IL_7RQB_003
NA
IL_8XT2_0381/L1/1186:1190,
1/L1/1202:1206		Double sheared with non-canonical cWW
geometric
IL_5J7L_274
NA
IL_8XT2_0391/L1/1270:1271,
1/L1/1315:1317		Single stack bend
homologous
IL_4WF9_089
IL_15011.3
IL_8XT2_0401/L1/1271:1272,
1/L1/1313:1315		Major groove platform
geometric
IL_4V9F_082
IL_48076.8
IL_8XT2_0411/L1/1273:1276,
1/L1/1310:1312		Major groove platform with extra pair
homologous
IL_7RQB_093
NA
IL_8XT2_0421/L1/1276:1278,
1/L1/1306:1310		Major groove minor groove platform with extra cWW
geometric
IL_7RQB_094
NA
IL_8XT2_0431/L1/1283:1285,
1/L1/1298:1301		No text annotation
geometric
IL_4P3T_002
NA
IL_8XT2_0441/L1/1285:1287,
1/L1/1297:1298		Minor groove platform
geometric
IL_4V88_412
NA
IL_8XT2_0451/L1/1324:1325,
1/L1/1397:1399		Major groove platform
homologous
IL_7RQB_096
NA
IL_8XT2_0461/L1/1327:1329,
1/L1/1391:1395		Isolated non-canonical cWW with bulges
geometric
IL_4WF9_095
IL_68118.4
IL_8XT2_0471/L1/1329:1330,
1/L1/1388:1391		No text annotation
homologous
IL_5J7L_341
NA
IL_8XT2_0481/L1/1338:1340,
1/L1/1357:1361		No text annotation
IL_8XT2_0491/L1/1408:1409,
1/L1/1418:1420		Single bulged A
homologous
IL_5J7L_344
NA
IL_8XT2_0501/L1/1445:1447,
1/L1/1469:1471		Isolated non-canonical cWW pair
geometric
IL_5TBW_079
NA
IL_8XT2_0511/L1/1449:1456,
1/L1/1461:1467		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_8XT2_0521/L1/1478:1482,
1/L1/1491:1493		C-loop
geometric
IL_4JRC_003
IL_63596.12
IL_8XT2_0531/L2/26:28,
1/L2/38:40		Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_01003.4
IL_8XT2_0541/S1/2:4,
1/S1/20:21		No text annotation
IL_8XT2_0551/S1/27:29,
1/S1/274:276		Intercalated cWW
geometric
IL_7A0S_044
IL_53541.1
IL_8XT2_0561/S1/38:39,
1/S1/212:214		Single bulged A
homologous
IL_5J7L_002
NA
IL_8XT2_0571/S1/43:45,
1/S1/175:176		Single bulged A
geometric
IL_6WPI_001
IL_14190.2
IL_8XT2_0581/S1/47:49,
1/S1/172:173		Minor groove platform
homologous
IL_4LFB_004
IL_34520.3
IL_8XT2_0591/S1/80:82,
1/S1/97:100		Minor groove platform with extra cWW
geometric
IL_7RQB_031
NA
IL_8XT2_0601/S1/82:85,
1/S1/95:97		Minor groove platform with extra cWW
geometric
IL_7RQB_031
NA
IL_8XT2_0611/S1/109:114,
1/S1/132:139		Kink-turn with non-sequential stacking
geometric
IL_6CZR_123
NA
IL_8XT2_0621/S1/115:118,
1/S1/130:131		Major groove platform; stack outside cWW
geometric
IL_3DIL_004
IL_74641.2
IL_8XT2_1041/S1/115:119,
1/S1/128:131		No text annotation
IL_8XT2_0631/S1/118:119,
1/S1/128:130		No text annotation
IL_8XT2_0641/S1/183:185,
1/S1/208:209		Single bulged U
geometric
IL_5TBW_093
NA
IL_8XT2_0651/S1/187:191,
1/S1/205:206		C-loop
geometric
IL_5J7L_018
NA
IL_8XT2_0661/S1/191:192,
1/S1/203:205		Single bulged G
homologous
IL_5J7L_019
NA
IL_8XT2_0671/S1/229:238,
1/S1/263:266		No text annotation
IL_8XT2_0681/S1/240:246,
1/S1/253:261		Kink-turn related
geometric
IL_4V88_415
NA
IL_8XT2_0691/S1/288:294,
1/S1/486:487		No text annotation
homologous
IL_5J7L_026
NA
IL_8XT2_0701/S1/299:303,
1/S1/397:402		No text annotation
IL_8XT2_0711/S1/327:333,
1/S1/361:367		No text annotation
IL_8XT2_0721/S1/335:337,
1/S1/357:359		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_01003.4
IL_8XT2_0731/S1/339:341,
1/S1/352:355		No text annotation
IL_8XT2_0741/S1/373:375,
1/S1/382:383		Other IL
geometric
IL_3WBM_004
IL_18188.1
IL_8XT2_0751/S1/415:419,
1/S1/445:446		Left turn
homologous
IL_5J7L_036
NA
IL_8XT2_0761/S1/420:424,
1/S1/440:444		tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_8XT2_0771/S1/462:464,
1/S1/483:485		Isolated non-canonical cWW pair
geometric
IL_1Z7F_002
NA
IL_8XT2_0781/S1/492:500,
1/S1/511:517		No text annotation
IL_8XT2_0791/S1/528:529,
1/S1/830:832		Single bulged A
homologous
IL_4LFB_035
IL_14190.2
IL_8XT2_0801/S1/531:533,
1/S1/827:828		Single bulged G
homologous
IL_6CZR_148
NA
IL_8XT2_0811/S1/539:543,
1/S1/817:821		C-loop
geometric
IL_8C3A_449
NA
IL_8XT2_0831/S1/597:606,
1/S1/692:698		No text annotation
IL_8XT2_0841/S1/606:608,
1/S1/691:692		Single bulged U
homologous
IL_5J7L_046
NA
IL_8XT2_0851/S1/610:614,
1/S1/687:689		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_8XT2_0871/S1/618:619,
1/S1/678:680		Single bulged A
homologous
IL_5J7L_049
NA
IL_8XT2_0881/S1/619:621,
1/S1/676:678		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_8XT2_0891/S1/627:630,
1/S1/651:654		Double sheared
geometric
IL_1SAQ_002
NA
IL_8XT2_0901/S1/631:632,
1/S1/642:650		No text annotation
geometric
IL_8S95_001
IL_25652.1
IL_8XT2_0911/S1/836:838,
1/S1/919:922		No text annotation
geometric
IL_5J7L_058
NA
IL_8XT2_0921/S1/838:841,
1/S1/915:919		No text annotation
geometric
IL_4V88_464
NA
IL_8XT2_0931/S1/842:844,
1/S1/912:914		Isolated non-canonical cWW pair
geometric
IL_3GM7_003
IL_01003.4
IL_8XT2_0941/S1/844:848,
1/S1/907:912		No text annotation
IL_8XT2_0951/S1/853:857,
1/S1/899:902		UAA/GAN related
geometric
IL_2R8S_002
IL_77691.7
IL_8XT2_0961/S1/860:863,
1/S1/893:896		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA
IL_8XT2_0971/S1/863:864,
1/S1/891:893		Single bulged C
geometric
IL_3SN2_002
IL_05642.3
IL_8XT2_0981/S1/864:867,
1/S1/888:891		No text annotation
IL_8XT2_0991/S1/869:874,
1/S1/882:886		No text annotation

Problematic loops

#loop idProblemSequence
IL_8XT2_018No text annotation
IL_8XT2_037No text annotation
IL_8XT2_082No text annotation
IL_8XT2_086Minor groove platform

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8XT2_0131/L1/2:8,
1/L1/127:133,
1/L1/137:146		No text annotation
J3_8XT2_0141/L1/8:11,
1/L1/101:115,
1/L1/122:127		No text annotation
J3_8XT2_0011/L1/245:251,
1/L1/313:315,
1/L1/331:334		No text annotation
homologous
J3_7RQB_004
NA
J3_8XT2_0021/L1/260:262,
1/L1/272:276,
1/L1/300:303		No text annotation
homologous
J3_7RQB_005
NA
J3_8XT2_0151/L1/483:498,
1/L1/522:527,
1/L1/542:578		No text annotation
J3_8XT2_0031/L1/666:673,
1/L1/753:757,
1/L1/766:768		No text annotation
J3_8XT2_0041/L1/673:675,
1/L1/698:705,
1/L1/751:753		No text annotation
J3_8XT2_0161/L1/1176:1178,
1/L1/1220:1230,
1/L1/1239:1245		No text annotation
J3_8XT2_0051/L1/1334:1337,
1/L1/1362:1364,
1/L1/1378:1384		No text annotation
homologous
J3_7RQB_012
NA
J3_8XT2_0061/S1/30:33,
1/S1/219:225,
1/S1/270:273		No text annotation
J3_8XT2_0071/S1/40:43,
1/S1/176:183,
1/S1/209:211		No text annotation
J3_8XT2_0171/S1/326:327,
1/S1/367:373,
1/S1/383:384		No text annotation
J3_8XT2_0081/S1/545:547,
1/S1/781:787,
1/S1/809:815		No text annotation
J3_8XT2_0091/S1/551:554,
1/S1/717:719,
1/S1/774:777		No text annotation
homologous
J3_5J7L_005
NA
J3_8XT2_0101/S1/563:569,
1/S1/580:591,
1/S1/704:707		No text annotation
J3_8XT2_0111/S1/621:626,
1/S1/655:661,
1/S1/670:676		No text annotation
J4_8XT2_0011/L1/644:647,
1/L1/656:657,
1/L1/780:783,
1/L1/1001:1003		No text annotation
J4_8XT2_0021/L1/666:675,
1/L1/698:705,
1/L1/751:757,
1/L1/766:768		No text annotation
J4_8XT2_0031/L1/822:826,
1/L1/838:843,
1/L1/867:872,
1/L1/967:972		No text annotation
J4_8XT2_0041/L1/874:876,
1/L1/899:900,
1/L1/917:926,
1/L1/960:965		No text annotation
homologous
J4_5J7L_026
NA
J4_8XT2_0051/S1/51:54,
1/S1/61:68,
1/S1/153:155,
1/S1/164:170		No text annotation
J4_8XT2_0061/S1/70:78,
1/S1/102:106,
1/S1/142:144,
1/S1/150:151		No text annotation
J4_8XT2_0071/S1/294:296,
1/S1/405:410,
1/S1/451:462,
1/S1/485:486		No text annotation
homologous
J4_5J7L_003
NA
J5_8XT2_0011/L1/157:159,
1/L1/171:175,
1/L1/188:190,
1/L1/635:636,
1/L1/1010:1011		No text annotation
homologous
J5_9DFE_003
J5_43153.6
J5_8XT2_0021/L1/195:205,
1/L1/229:233,
1/L1/349:352,
1/L1/601:605,
1/L1/620:630		No text annotation
J5_8XT2_0051/L1/1050:1057,
1/L1/1263:1270,
1/L1/1317:1323,
1/L1/1400:1405,
1/L1/1423:1428		No text annotation
J5_8XT2_0041/L1/1067:1070,
1/L1/1137:1140,
1/L1/1152:1153,
1/L1/1175:1176,
1/L1/1245:1252		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_8XT2_0011/L1/357:362,
1/L1/373:375,
1/L1/425:428,
1/L1/453:457,
1/L1/468:473,
1/L1/587:596		No text annotation
J6_8XT2_0021/L1/1067:1070,
1/L1/1137:1140,
1/L1/1152:1153,
1/L1/1175:1178,
1/L1/1220:1230,
1/L1/1239:1252		No text annotation

Problematic loops

#loop idProblemSequence
J3_8XT2_018No text annotation
J3_8XT2_012No text annotation
J5_8XT2_003No text annotation

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