RNA 3D Hub //

1I94 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_1I94_0011/A/12:22No text annotation
homologous
HL_4LFB_001
HL_31940.1
HL_1I94_0021/A/78:84No text annotation
geometric
HL_5WTI_001
NA
HL_1I94_0031/A/152:157GNRA
homologous
HL_4LFB_003
HL_34789.1
HL_1I94_0041/A/186:191No text annotation
homologous
HL_6CZR_075
NA
HL_1I94_0051/A/207:211Mini UNCG
homologous
HL_4LFB_005
HL_90436.1
HL_1I94_0061/A/254:262GNRA related
homologous
HL_4LFB_006
HL_36455.1
HL_1I94_0071/A/291:296GNRA
homologous
HL_4LFB_007
HL_34789.1
HL_1I94_0081/A/315:328No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_1I94_0091/A/337:342UNCG
homologous
HL_6CZR_080
NA
HL_1I94_0101/A/374:379GNRA
homologous
HL_4LFB_010
HL_34789.1
HL_1I94_0111/A/414:419No text annotation
homologous
HL_6CZR_082
NA
HL_1I94_0121/A/452:458GNRA
homologous
HL_4LFB_012
HL_34789.1
HL_1I94_0131/A/505:510Mini UNCG
geometric
HL_4YAZ_004
HL_90436.1
HL_1I94_0141/A/600:606GNRA-like with tWH
homologous
HL_4LFB_014
HL_92337.1
HL_1I94_0151/A/672:681No text annotation
homologous
HL_5J7L_015
NA
HL_1I94_0161/A/709:714GNRA
homologous
HL_5J7L_016
NA
HL_1I94_0171/A/769:779No text annotation
homologous
HL_4LFB_017
HL_38491.1
HL_1I94_0181/A/821:825Mini UNCG
homologous
HL_4LFB_018
HL_90436.1
HL_1I94_0191/A/839:844GNRA
homologous
HL_4LFB_019
HL_34789.1
HL_1I94_0201/A/874:879GNRA
homologous
HL_4LFB_020
HL_34789.1
HL_1I94_0211/A/940:949No text annotation
homologous
HL_4LFB_021
HL_97521.1
HL_1I94_0221/A/990:995GNRA
homologous
HL_4LFB_022
HL_34789.1
HL_1I94_0231/A/1008:1013No text annotation
homologous
HL_4LFB_023
NA
HL_1I94_0241/A/1058:1063GNRA
homologous
HL_4LFB_024
HL_34789.1
HL_1I94_0251/A/1071:1078T-loop related
homologous
HL_5J7L_024
NA
HL_1I94_0351/A/1116:1122No text annotation
homologous
HL_4LFB_026
HL_92935.1
HL_1I94_0271/A/1147:1152GNRA
homologous
HL_4LFB_027
HL_34789.1
HL_1I94_0281/A/1246:1251GNRA
homologous
HL_4LFB_028
HL_34789.1
HL_1I94_0291/A/1295:1304T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_93658.1
HL_1I94_0301/A/1337:1348No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_1I94_0311/A/1429:1434UNCG
homologous
HL_5J7L_030
NA
HL_1I94_0321/A/1492:1497GNRA
geometric
HL_3NVI_002
NA

Problematic loops

#loop idProblemSequence
HL_1I94_033No text annotation
HL_1I94_034No text annotation
HL_1I94_026No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_1I94_0011/A/30:32,
1/A/535:536		Single bulged G
homologous
IL_4LFB_001
IL_28408.1
IL_1I94_0021/A/44:45,
1/A/391:393		Single bulged A
homologous
IL_4LFB_002
IL_14190.1
IL_1I94_0031/A/47:52,
1/A/354:356		No text annotation
homologous
IL_4LFB_003
IL_68149.1
IL_1I94_0041/A/54:56,
1/A/351:352		Minor groove platform
homologous
IL_4LFB_004
IL_34520.1
IL_1I94_0051/A/63:66,
1/A/96:97		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_1I94_0061/A/67:69,
1/A/93:95		Isolated non-canonical cWW pair
homologous
IL_4LFB_006
IL_01003.1
IL_1I94_0071/A/122:125,
1/A/226:227		Multiple bulged bases
homologous
IL_4LFB_007
IL_75289.1
IL_1I94_0081/A/126:130,
1/A/222:225		No text annotation
homologous
IL_4LFB_008
IL_60988.1
IL_1I94_0091/A/142:147,
1/A/162:168		tWH-tWH-tHW-tHW
homologous
IL_4LFB_009
IL_00680.1
IL_1I94_0101/A/180:182,
1/A/195:197		Isolated non-canonical cWW pair
homologous
IL_4LFB_010
IL_01003.1
IL_1I94_0111/A/237:242,
1/A/272:279		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_1I94_0121/A/244:247,
1/A/269:270		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_1I94_0131/A/287:288,
1/A/299:303		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_1I94_0151/A/362:364,
1/A/387:388		Single bulged U
homologous
IL_5J7L_017
NA
IL_1I94_0161/A/366:370,
1/A/384:385		C-loop
geometric
IL_4LFB_015
IL_26900.1
IL_1I94_0171/A/370:371,
1/A/382:384		Single bulged G
homologous
IL_4LFB_016
IL_28408.1
IL_1I94_0181/A/404:411,
1/A/422:428		No text annotation
homologous
IL_4LFB_017
IL_62329.1
IL_1I94_0191/A/440:444,
1/A/467:472		6x5 Sarcin-Ricin; G-bulge
geometric
IL_4LFB_018
IL_82100.1
IL_1I94_0201/A/444:449,
1/A/461:467		No text annotation
homologous
IL_4LFB_019
IL_31561.1
IL_1I94_0211/A/487:494,
1/A/523:524		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_1I94_0221/A/498:504,
1/A/511:519		Kink-turn related
homologous
IL_5J7L_025
NA
IL_1I94_0231/A/552:558,
1/A/857:858		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_1I94_0241/A/563:567,
1/A/740:744		tSH-tHW-tHS
homologous
IL_4LFB_023
IL_05821.1
IL_1I94_0251/A/577:579,
1/A/627:628		Major groove platform
homologous
IL_4LFB_024
IL_48076.7
IL_1I94_0261/A/580:581,
1/A/623:626		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_73108.1
IL_1I94_0271/A/588:595,
1/A/611:616		No text annotation
homologous
IL_4LFB_026
IL_04211.1
IL_1I94_0281/A/637:638,
1/A/734:737		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.1
IL_1I94_0291/A/640:641,
1/A/730:732		Major groove platform
homologous
IL_4LFB_028
IL_48076.7
IL_1I94_0301/A/645:649,
1/A/723:726		Tandem non-canonical cWW pairs
homologous
IL_4LFB_029
IL_15225.1
IL_1I94_0681/A/656:660,
1/A/696:700		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_71154.1
IL_1I94_0321/A/666:671,
1/A/682:690		Kink-turn
homologous
IL_4LFB_031
IL_95727.1
IL_1I94_0331/A/757:761,
1/A/787:788		Left turn
homologous
IL_5J7L_036
NA
IL_1I94_0341/A/762:766,
1/A/782:786		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_05821.1
IL_1I94_0351/A/864:871,
1/A/882:887		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_84044.1
IL_1I94_0361/A/899:900,
1/A/1375:1377		Single bulged A
homologous
IL_5J7L_039
NA
IL_1I94_0371/A/902:904,
1/A/1372:1373		Single bulged G
homologous
IL_4LFB_036
IL_28408.1
IL_1I94_0381/A/910:912,
1/A/1362:1366		Minor groove platform
homologous
IL_5J7L_041
NA
IL_1I94_0391/A/930:931,
1/A/1207:1209		Minor groove platform
homologous
IL_4LFB_038
IL_34520.1
IL_1I94_0401/A/970:974,
1/A/1026:1027		Minor groove platform
geometric
IL_4LFB_039
IL_61370.1
IL_1I94_0691/A/1029:1032,
1/A/1189:1191		No text annotation
homologous
IL_4LFB_043
NA
IL_1I94_0431/A/1030:1032,
1/A/1189:1190		Single bulged U
homologous
IL_4LFB_042
IL_97561.1
IL_1I94_0441/A/1034:1038,
1/A/1185:1187		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_1I94_0451/A/1039:1040,
1/A/1180:1184		Minor groove platform
homologous
IL_5J7L_048
NA
IL_1I94_0461/A/1042:1043,
1/A/1176:1178		Single bulged U
homologous
IL_4LFB_046
IL_97561.1
IL_1I94_0471/A/1043:1045,
1/A/1174:1176		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_1I94_0481/A/1106:1110,
1/A/1125:1131		No text annotation
geometric
IL_4LFB_048
IL_89862.1
IL_1I94_0701/A/1106:1114,
1/A/1124:1131		No text annotation
IL_1I94_0491/A/1110:1114,
1/A/1124:1125		Minor groove platform
geometric
IL_4LFB_049
IL_87975.1
IL_1I94_0501/A/1140:1143,
1/A/1156:1162		No text annotation
geometric
IL_5J7L_053
NA
IL_1I94_0511/A/1228:1234,
1/A/1265:1271		No text annotation
homologous
IL_4LFB_051
IL_12056.1
IL_1I94_0521/A/1236:1239,
1/A/1258:1263		180 degree turn
homologous
IL_4LFB_052
IL_08849.1
IL_1I94_0531/A/1240:1241,
1/A/1255:1257		Not an internal loop
geometric
IL_4LFB_053
NA
IL_1I94_0711/A/1240:1243,
1/A/1254:1257		Double sheared
homologous
IL_4LFB_067
IL_58355.1
IL_1I94_0541/A/1241:1243,
1/A/1254:1255		Minor groove platform
homologous
IL_4LFB_054
IL_34520.1
IL_1I94_0551/A/1284:1289,
1/A/1310:1315		No text annotation
geometric
IL_4LFB_055
IL_57885.1
IL_1I94_0561/A/1383:1386,
1/A/1474:1478		No text annotation
geometric
IL_8CRE_467
IL_25873.1
IL_1I94_0571/A/1387:1389,
1/A/1471:1473		Isolated non-canonical cWW pair
geometric
IL_1ZH5_001
IL_01003.1
IL_1I94_0581/A/1389:1391,
1/A/1468:1471		No text annotation
geometric
IL_4P3T_002
NA
IL_1I94_0591/A/1394:1396,
1/A/1463:1465		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_01003.1
IL_1I94_0731/A/1398:1401,
1/A/1458:1461		Double sheared
homologous
IL_4LFB_060
IL_58355.1
IL_1I94_0621/A/1413:1417,
1/A/1443:1446		UAA/GAN variation
homologous
IL_4LFB_062
IL_77691.6
IL_1I94_0631/A/1417:1419,
1/A/1441:1443		Isolated non-canonical cWW pair
geometric
IL_4LFB_063
IL_01003.1
IL_1I94_0641/A/1422:1427,
1/A/1436:1438		No text annotation
homologous
IL_4LFB_064
IL_93811.1

Problematic loops

#loop idProblemSequence
IL_1I94_065tWH-tWH-tHW-tHW
IL_1I94_014Isolated non-canonical cWW pair
IL_1I94_066No text annotation
IL_1I94_067No text annotation
IL_1I94_031No text annotation
IL_1I94_041Isolated near basepair
IL_1I94_042Isolated cWS basepair
IL_1I94_072No text annotation
IL_1I94_060Double sheared with non-canonical cWW
IL_1I94_061Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_1I94_0101/A/46:47,
1/A/356:362,
1/A/388:390		No text annotation
geometric
J3_4LFB_010
J3_58657.1
J3_1I94_0111/A/46:52,
1/A/354:362,
1/A/388:390		No text annotation
homologous
J3_4LFB_014
J3_63856.1
J3_1I94_0121/A/569:571,
1/A/634:637,
1/A/737:738		No text annotation
geometric
J3_4LFB_011
J3_01633.1
J3_1I94_0131/A/569:571,
1/A/634:638,
1/A/734:738		No text annotation
homologous
J3_4LFB_015
J3_17385.5
J3_1I94_0141/A/655:656,
1/A/700:708,
1/A/715:717		No text annotation
homologous
J3_4LFB_012
J3_74074.1
J3_1I94_0011/A/809:812,
1/A/834:838,
1/A/845:851		No text annotation
homologous
J3_4LFB_001
J3_02285.1
J3_1I94_0021/A/913:916,
1/A/1325:1331,
1/A/1354:1361		No text annotation
homologous
J3_4LFB_002
J3_85722.1
J3_1I94_0031/A/920:923,
1/A/1216:1218,
1/A/1318:1321		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_1I94_0041/A/932:939,
1/A/950:961,
1/A/1202:1206		No text annotation
homologous
J3_4LFB_004
J3_88451.1
J3_1I94_0051/A/967:970,
1/A/1027:1029,
1/A/1191:1196		No text annotation
homologous
J3_4LFB_005
J3_84394.1
J3_1I94_0151/A/967:974,
1/A/1026:1029,
1/A/1191:1196		No text annotation
homologous
J3_4LFB_016
J3_28881.1
J3_1I94_0191/A/981:984,
1/A/1001:1005,
1/A/1016:1019		No text annotation
J3_1I94_0071/A/1045:1050,
1/A/1089:1095,
1/A/1168:1174		No text annotation
homologous
J3_4LFB_007
J3_01343.1
J3_1I94_0201/A/1055:1056,
1/A/1065:1068,
1/A/1081:1084		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_1I94_0081/A/1098:1100,
1/A/1137:1140,
1/A/1162:1165		No text annotation
geometric
J3_4LFB_008
J3_82365.5
J3_1I94_0181/A/1098:1100,
1/A/1137:1143,
1/A/1156:1165		No text annotation
homologous
J3_5J7L_054
NA
J3_1I94_0091/A/1218:1222,
1/A/1277:1284,
1/A/1315:1318		No text annotation
homologous
J3_4LFB_009
J3_03192.1
J4_1I94_0011/A/108:115,
1/A/234:235,
1/A/281:284,
1/A/306:307		No text annotation
homologous
J4_4LFB_001
J4_90044.1
J4_1I94_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_1I94_0031/A/558:560,
1/A/747:752,
1/A/793:804,
1/A/856:857		No text annotation
homologous
J4_4LFB_003
J4_14595.1
J5_1I94_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_1I94_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_58574.1

Problematic loops

#loop idProblemSequence
J3_1I94_016No text annotation
J3_1I94_006No text annotation
J3_1I94_017No text annotation

Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.0614 s