RNA 3D Hub //

3T1H Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3T1H_0011/A/12:22No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_3T1H_0021/A/78:84No text annotation
homologous
HL_4LFB_002
HL_31585.4
HL_3T1H_0031/A/152:157GNRA
homologous
HL_4LFB_003
HL_37824.7
HL_3T1H_0041/A/186:191No text annotation
homologous
HL_4LFB_004
HL_48417.5
HL_3T1H_0051/A/207:211Mini UNCG
homologous
HL_4LFB_005
HL_48778.2
HL_3T1H_0061/A/254:262GNRA related
homologous
HL_4LFB_006
HL_84299.4
HL_3T1H_0071/A/291:296GNRA
homologous
HL_4LFB_007
HL_37824.7
HL_3T1H_0081/A/315:328No text annotation
homologous
HL_4LFB_008
HL_81205.3
HL_3T1H_0091/A/337:342UNCG
homologous
HL_4LFB_009
HL_34617.5
HL_3T1H_0101/A/374:379GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_3T1H_0111/A/414:419UNCG
homologous
HL_4LFB_011
HL_34617.5
HL_3T1H_0121/A/452:458GNRA
homologous
HL_4LFB_012
HL_37824.7
HL_3T1H_0131/A/505:510No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_3T1H_0141/A/600:606No text annotation
homologous
HL_4LFB_014
HL_10453.3
HL_3T1H_0151/A/672:681No text annotation
homologous
HL_4LFB_015
HL_75293.5
HL_3T1H_0161/A/709:714GNRA
homologous
HL_4LFB_016
HL_37824.7
HL_3T1H_0171/A/769:779No text annotation
homologous
HL_4LFB_017
HL_75293.5
HL_3T1H_0351/A/821:825Mini UNCG
homologous
HL_4LFB_018
HL_48778.2
HL_3T1H_0191/A/839:844GNRA
homologous
HL_4LFB_019
HL_37824.7
HL_3T1H_0201/A/874:879GNRA
homologous
HL_5J7L_020
HL_37824.7
HL_3T1H_0211/A/940:949No text annotation
homologous
HL_4LFB_021
HL_50779.4
HL_3T1H_0221/A/990:995GNRA
homologous
HL_4LFB_022
HL_37824.7
HL_3T1H_0361/A/1007:1015No text annotation
HL_3T1H_0231/A/1008:1013No text annotation
homologous
HL_4LFB_023
NA
HL_3T1H_0241/A/1058:1063GNRA
homologous
HL_4LFB_024
HL_37824.7
HL_3T1H_0371/A/1106:1131No text annotation
HL_3T1H_0261/A/1114:1124No text annotation
HL_3T1H_0381/A/1147:1152GNRA
homologous
HL_6CZR_098
NA
HL_3T1H_0281/A/1246:1251GNRA
homologous
HL_4LFB_028
HL_37824.7
HL_3T1H_0291/A/1295:1304T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_02887.3
HL_3T1H_0301/A/1337:1348No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_3T1H_0311/A/1429:1434UNCG
homologous
HL_4LFB_031
HL_34617.5
HL_3T1H_0321/A/1492:1497GNRA
homologous
HL_4LFB_032
HL_37824.7

Problematic loops

#loop idProblemSequence
HL_3T1H_034No text annotation
HL_3T1H_018No text annotation
HL_3T1H_025T-loop related
HL_3T1H_027GNRA with near cWW

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3T1H_0011/A/30:32,
1/A/535:536		Single bulged G
homologous
IL_4LFB_001
IL_00225.13
IL_3T1H_0021/A/44:45,
1/A/391:393		Single bulged A
homologous
IL_4LFB_002
IL_31462.6
IL_3T1H_0031/A/47:52,
1/A/354:356		No text annotation
homologous
IL_4LFB_003
IL_14177.2
IL_3T1H_0041/A/54:56,
1/A/351:352		Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_3T1H_0051/A/63:66,
1/A/96:97		Multiple bulged bases
homologous
IL_5J7L_005
IL_82107.4
IL_3T1H_0061/A/67:69,
1/A/93:95		Isolated non-canonical cWW pair
homologous
IL_4LFB_006
IL_87907.2
IL_3T1H_0071/A/122:125,
1/A/226:227		Multiple bulged bases
homologous
IL_4LFB_007
IL_33761.2
IL_3T1H_0081/A/126:130,
1/A/222:225		No text annotation
homologous
IL_4LFB_008
IL_64231.5
IL_3T1H_0091/A/142:147,
1/A/162:168		tWH-tWH-tHW-tHW
homologous
IL_4LFB_009
IL_12745.1
IL_3T1H_0111/A/180:182,
1/A/195:197		Isolated non-canonical cWW pair
homologous
IL_4LFB_010
IL_87907.2
IL_3T1H_0121/A/237:242,
1/A/272:279		Kink-turn with non-sequential stacking
homologous
IL_4LFB_011
IL_46174.3
IL_3T1H_0131/A/244:247,
1/A/269:270		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_3T1H_0141/A/287:288,
1/A/299:303		C-loop
homologous
IL_4LFB_013
IL_03109.3
IL_3T1H_0681/A/362:364,
1/A/387:388		Single bulged U
homologous
IL_4LFB_014
IL_89505.4
IL_3T1H_0161/A/366:370,
1/A/384:385		C-loop
homologous
IL_5J7L_018
IL_03109.3
IL_3T1H_0171/A/370:371,
1/A/382:384		Single bulged G
geometric
IL_4LFB_016
IL_00225.13
IL_3T1H_0181/A/404:411,
1/A/422:428		No text annotation
homologous
IL_4LFB_017
IL_28026.3
IL_3T1H_0191/A/440:444,
1/A/467:472		6x5 Sarcin-Ricin; G-bulge
homologous
IL_4LFB_018
IL_88269.4
IL_3T1H_0201/A/444:449,
1/A/461:467		No text annotation
geometric
IL_4LFB_019
IL_31561.1
IL_3T1H_0211/A/487:494,
1/A/523:524		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_41203.4
IL_3T1H_0221/A/498:504,
1/A/511:519		Kink-turn related
geometric
IL_4V88_415
NA
IL_3T1H_0231/A/552:558,
1/A/857:858		No text annotation
homologous
IL_4LFB_022
IL_38186.6
IL_3T1H_0241/A/563:567,
1/A/740:744		tSH-tHW-tHS
homologous
IL_4LFB_023
IL_17136.7
IL_3T1H_0251/A/577:579,
1/A/627:628		Major groove platform
homologous
IL_4LFB_024
IL_48076.6
IL_3T1H_0261/A/580:581,
1/A/623:626		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_3T1H_0271/A/588:595,
1/A/611:616		No text annotation
homologous
IL_4LFB_026
IL_78349.3
IL_3T1H_0281/A/637:638,
1/A/734:737		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_50694.7
IL_3T1H_0291/A/640:641,
1/A/730:732		Major groove platform
homologous
IL_4LFB_028
IL_48076.6
IL_3T1H_0301/A/645:649,
1/A/723:726		Tandem non-canonical cWW pairs
homologous
IL_4LFB_029
IL_85033.2
IL_3T1H_0661/A/656:660,
1/A/696:700		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_49751.4
IL_3T1H_0321/A/666:671,
1/A/682:690		Kink-turn
homologous
IL_4LFB_031
IL_95727.1
IL_3T1H_0331/A/757:761,
1/A/787:788		Left turn
homologous
IL_4LFB_032
IL_29346.2
IL_3T1H_0341/A/762:766,
1/A/782:786		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_17136.7
IL_3T1H_0351/A/864:871,
1/A/882:887		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_3T1H_0361/A/899:900,
1/A/1375:1377		Single bulged A
homologous
IL_4LFB_035
IL_31462.6
IL_3T1H_0371/A/902:904,
1/A/1372:1373		Single bulged G
homologous
IL_4LFB_036
IL_00225.13
IL_3T1H_0381/A/910:912,
1/A/1362:1366		Minor groove platform
homologous
IL_5J7L_041
IL_47078.3
IL_3T1H_0391/A/930:931,
1/A/1207:1209		Minor groove platform
homologous
IL_4LFB_038
IL_51454.3
IL_3T1H_0401/A/970:974,
1/A/1026:1027		Minor groove platform
geometric
IL_4LFB_039
IL_47078.3
IL_3T1H_0451/A/1007:1008,
1/A/1013:1015		Not an internal loop
geometric
IL_5VCI_005
NA
IL_3T1H_0461/A/1030:1032,
1/A/1189:1190		Single bulged U
homologous
IL_4LFB_042
IL_89505.4
IL_3T1H_0471/A/1034:1038,
1/A/1185:1187		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_3T1H_0491/A/1042:1043,
1/A/1176:1178		Single bulged U
homologous
IL_4LFB_046
IL_89505.4
IL_3T1H_0501/A/1043:1045,
1/A/1174:1176		Isolated non-canonical cWW pair
geometric
IL_4LFB_047
IL_28037.2
IL_3T1H_0511/A/1106:1114,
1/A/1124:1131		No text annotation
IL_3T1H_0521/A/1227:1234,
1/A/1265:1272		No text annotation
IL_3T1H_0691/A/1236:1239,
1/A/1258:1263		No text annotation
IL_3T1H_0541/A/1240:1243,
1/A/1254:1257		Double sheared
homologous
IL_4LFB_067
IL_09705.15
IL_3T1H_0551/A/1284:1289,
1/A/1310:1315		No text annotation
geometric
IL_4LFB_055
IL_85536.2
IL_3T1H_0561/A/1381:1383,
1/A/1478:1481		No text annotation
homologous
IL_4LFB_056
IL_61438.4
IL_3T1H_0571/A/1383:1386,
1/A/1474:1478		No text annotation
geometric
IL_4V88_464
NA
IL_3T1H_0581/A/1387:1389,
1/A/1471:1473		Isolated non-canonical cWW pair
geometric
IL_3GM7_005
IL_87907.2
IL_3T1H_0591/A/1389:1391,
1/A/1468:1471		Decoding loop related
geometric
IL_3C3Z_002
IL_31737.3
IL_3T1H_0601/A/1394:1396,
1/A/1463:1465		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_3T1H_0701/A/1398:1401,
1/A/1458:1461		Double sheared
homologous
IL_4LFB_060
IL_09705.15
IL_3T1H_0631/A/1413:1417,
1/A/1443:1446		UAA/GAN variation
geometric
IL_4LFB_062
IL_77691.5
IL_3T1H_0641/A/1417:1419,
1/A/1441:1443		Isolated non-canonical cWW pair
homologous
IL_4LFB_063
IL_87907.2
IL_3T1H_0651/A/1422:1427,
1/A/1436:1438		No text annotation
homologous
IL_4LFB_064
IL_49061.1

Problematic loops

#loop idProblemSequence
IL_3T1H_010No text annotation
IL_3T1H_015Isolated non-canonical cWW pair
IL_3T1H_031No text annotation
IL_3T1H_041No text annotation
IL_3T1H_042Isolated non-canonical cWW pair
IL_3T1H_043Isolated non-canonical cWW pair
IL_3T1H_044Tandem non-canonical cWW pairs
IL_3T1H_048Minor groove platform
IL_3T1H_053No text annotation
IL_3T1H_067No text annotation
IL_3T1H_061Triple sheared
IL_3T1H_062Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3T1H_0101/A/46:47,
1/A/356:362,
1/A/388:390		No text annotation
geometric
J3_4LFB_010
J3_67856.4
J3_3T1H_0141/A/46:52,
1/A/354:362,
1/A/388:390		No text annotation
homologous
J3_4LFB_014
J3_46317.4
J3_3T1H_0111/A/569:571,
1/A/634:637,
1/A/737:738		No text annotation
geometric
J3_4LFB_011
J3_56052.5
J3_3T1H_0151/A/569:571,
1/A/634:638,
1/A/734:738		No text annotation
homologous
J3_4LFB_015
J3_17385.4
J3_3T1H_0121/A/655:656,
1/A/700:708,
1/A/715:717		No text annotation
homologous
J3_4LFB_012
J3_11934.4
J3_3T1H_0011/A/809:812,
1/A/834:838,
1/A/845:851		No text annotation
homologous
J3_4LFB_001
J3_85054.4
J3_3T1H_0021/A/913:916,
1/A/1325:1331,
1/A/1354:1361		No text annotation
homologous
J3_4LFB_002
J3_25303.4
J3_3T1H_0031/A/920:923,
1/A/1216:1218,
1/A/1318:1321		No text annotation
homologous
J3_4LFB_003
J3_52655.4
J3_3T1H_0041/A/932:939,
1/A/950:961,
1/A/1202:1206		No text annotation
homologous
J3_4LFB_004
J3_83516.4
J3_3T1H_0051/A/967:970,
1/A/1027:1029,
1/A/1191:1196		No text annotation
homologous
J3_4LFB_005
J3_82572.1
J3_3T1H_0161/A/967:974,
1/A/1026:1029,
1/A/1191:1196		No text annotation
homologous
J3_4LFB_016
J3_76475.2
J3_3T1H_0191/A/978:987,
1/A/998:1007,
1/A/1015:1022		No text annotation
J3_3T1H_0061/A/980:985,
1/A/1000:1007,
1/A/1015:1020		No text annotation
J3_3T1H_0071/A/1045:1050,
1/A/1089:1095,
1/A/1168:1174		No text annotation
homologous
J3_4LFB_007
J3_08394.3
J3_3T1H_0181/A/1055:1056,
1/A/1065:1068,
1/A/1081:1084		No text annotation
homologous
J3_4LFB_017
J3_79369.1
J3_3T1H_0081/A/1098:1100,
1/A/1137:1143,
1/A/1156:1165		No text annotation
homologous
J3_4LFB_018
J3_17791.2
J3_3T1H_0091/A/1218:1222,
1/A/1277:1284,
1/A/1315:1318		No text annotation
homologous
J3_4LFB_009
J3_37047.6
J4_3T1H_0011/A/108:115,
1/A/234:235,
1/A/281:284,
1/A/306:307		No text annotation
homologous
J4_4LFB_001
J4_35578.3
J4_3T1H_0021/A/136:138,
1/A/172:177,
1/A/200:204,
1/A/214:216		No text annotation
homologous
J4_4LFB_002
J4_88771.1
J4_3T1H_0031/A/558:560,
1/A/747:752,
1/A/793:804,
1/A/856:857		No text annotation
homologous
J4_4LFB_003
J4_61885.6
J5_3T1H_0011/A/36:39,
1/A/398:401,
1/A/431:436,
1/A/476:483,
1/A/528:531		No text annotation
homologous
J5_4LFB_001
J5_70703.1
J5_3T1H_0021/A/58:61,
1/A/99:106,
1/A/309:311,
1/A/332:334,
1/A/345:349		No text annotation
homologous
J5_4LFB_002
J5_59910.6

Problematic loops

#loop idProblemSequence
J3_3T1H_017No text annotation

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