RNA 3D Hub //

2HHH Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_2HHH_0011/A/13:23No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_2HHH_0021/A/79:85No text annotation
homologous
HL_4LFB_002
HL_31585.4
HL_2HHH_0031/A/153:158GNRA
homologous
HL_4LFB_003
HL_37824.8
HL_2HHH_0041/A/187:192No text annotation
homologous
HL_4LFB_004
HL_48417.6
HL_2HHH_0051/A/208:212Mini UNCG
homologous
HL_4LFB_005
HL_48778.2
HL_2HHH_0061/A/255:263GNRA related
homologous
HL_4LFB_006
HL_84299.4
HL_2HHH_0071/A/292:297GNRA
homologous
HL_4LFB_007
HL_37824.8
HL_2HHH_0081/A/316:329No text annotation
homologous
HL_4LFB_008
HL_81205.3
HL_2HHH_0091/A/338:343UNCG
homologous
HL_4LFB_009
HL_34617.5
HL_2HHH_0101/A/375:380GNRA
homologous
HL_4LFB_010
HL_37824.8
HL_2HHH_0111/A/415:420UNCG
homologous
HL_4LFB_011
HL_34617.5
HL_2HHH_0121/A/453:459GNRA
homologous
HL_4LFB_012
HL_37824.8
HL_2HHH_0131/A/506:511Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_2HHH_0141/A/601:607No text annotation
homologous
HL_4LFB_014
HL_10453.3
HL_2HHH_0151/A/673:682No text annotation
homologous
HL_4LFB_015
HL_75293.5
HL_2HHH_0161/A/710:715GNRA
homologous
HL_4LFB_016
HL_37824.8
HL_2HHH_0361/A/770:780No text annotation
homologous
HL_5J7L_017
HL_75293.5
HL_2HHH_0181/A/821:827No text annotation
homologous
HL_5J7L_018
HL_37344.1
HL_2HHH_0191/A/840:845GNRA
homologous
HL_4LFB_019
HL_37824.8
HL_2HHH_0201/A/875:880GNRA
homologous
HL_5J7L_020
HL_37824.8
HL_2HHH_0211/A/941:950No text annotation
homologous
HL_4LFB_021
HL_50779.4
HL_2HHH_0221/A/991:996GNRA
homologous
HL_4LFB_022
HL_37824.8
HL_2HHH_0231/A/1008:1015GNRA with extra cWW
geometric
HL_7A0S_056
HL_04259.3
HL_2HHH_0241/A/1059:1064GNRA
homologous
HL_4LFB_024
HL_37824.8
HL_2HHH_0251/A/1072:1079T-loop related
homologous
HL_4LFB_025
HL_77436.5
HL_2HHH_0261/A/1117:1123No text annotation
homologous
HL_6CZR_097
NA
HL_2HHH_0271/A/1148:1153GNRA
homologous
HL_4LFB_027
HL_37824.8
HL_2HHH_0281/A/1247:1252GNRA
homologous
HL_4LFB_028
HL_37824.8
HL_2HHH_0291/A/1296:1305T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_02887.3
HL_2HHH_0301/A/1338:1349No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_2HHH_0311/A/1430:1435UNCG
homologous
HL_4LFB_031
HL_34617.5
HL_2HHH_0321/A/1493:1498GNRA
homologous
HL_4LFB_032
HL_37824.8

Problematic loops

#loop idProblemSequence
HL_2HHH_017No text annotation
HL_2HHH_033No text annotation
HL_2HHH_034No text annotation
HL_2HHH_035tRNA anticodon loop

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_2HHH_0011/A/31:33,
1/A/536:537		Single bulged G
homologous
IL_4LFB_001
IL_00225.14
IL_2HHH_0021/A/45:46,
1/A/392:394		Single bulged A
homologous
IL_4LFB_002
IL_31462.7
IL_2HHH_0031/A/48:53,
1/A/355:357		No text annotation
homologous
IL_4LFB_003
IL_14177.2
IL_2HHH_0041/A/55:57,
1/A/352:353		Minor groove platform
homologous
IL_6CZR_116
NA
IL_2HHH_0051/A/64:67,
1/A/97:98		Multiple bulged bases
homologous
IL_5J7L_005
IL_82107.5
IL_2HHH_0061/A/68:70,
1/A/94:96		Isolated non-canonical cWW pair
homologous
IL_4LFB_006
IL_87907.2
IL_2HHH_0071/A/123:126,
1/A/227:228		Minor groove platform
homologous
IL_4LFB_007
IL_33761.2
IL_2HHH_0081/A/127:131,
1/A/223:226		No text annotation
homologous
IL_4LFB_008
IL_64231.5
IL_2HHH_0091/A/143:148,
1/A/163:169		tWH-tWH-tHW-tHW
homologous
IL_4LFB_009
IL_12745.1
IL_2HHH_0101/A/181:183,
1/A/196:198		Isolated non-canonical cWW pair
homologous
IL_4LFB_010
IL_87907.2
IL_2HHH_0111/A/238:243,
1/A/273:280		Kink-turn with non-sequential stacking
homologous
IL_4LFB_011
IL_46174.3
IL_2HHH_0121/A/245:248,
1/A/270:271		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_2HHH_0131/A/288:289,
1/A/300:304		C-loop
homologous
IL_6CZR_125
NA
IL_2HHH_0141/A/363:365,
1/A/388:389		Single bulged U
homologous
IL_4LFB_014
IL_89505.4
IL_2HHH_0151/A/367:371,
1/A/385:386		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_2HHH_0161/A/371:372,
1/A/383:385		Single bulged G
homologous
IL_4LFB_016
IL_00225.14
IL_2HHH_0171/A/405:412,
1/A/423:429		No text annotation
homologous
IL_4LFB_017
IL_28026.3
IL_2HHH_0181/A/441:445,
1/A/468:473		6x5 Sarcin-Ricin; G-bulge
homologous
IL_4LFB_018
IL_88269.4
IL_2HHH_0191/A/445:450,
1/A/462:468		No text annotation
geometric
IL_4LFB_019
IL_31561.1
IL_2HHH_0201/A/488:495,
1/A/524:525		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_41203.4
IL_2HHH_0211/A/499:505,
1/A/512:520		Kink-turn related
geometric
IL_4V88_415
NA
IL_2HHH_0221/A/553:559,
1/A/858:859		No text annotation
geometric
IL_4LFB_022
IL_38186.6
IL_2HHH_0231/A/564:568,
1/A/741:745		tSH-tHW-tHS
homologous
IL_4LFB_023
IL_17136.7
IL_2HHH_0241/A/578:580,
1/A/628:629		Major groove platform
homologous
IL_4LFB_024
IL_48076.6
IL_2HHH_0251/A/581:582,
1/A/624:627		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_2HHH_0261/A/589:596,
1/A/612:617		No text annotation
homologous
IL_4LFB_026
IL_78349.3
IL_2HHH_0271/A/638:639,
1/A/735:738		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_50694.7
IL_2HHH_0281/A/641:642,
1/A/731:733		Major groove platform
homologous
IL_4LFB_028
IL_48076.6
IL_2HHH_0291/A/646:650,
1/A/724:727		Tandem non-canonical cWW pairs
homologous
IL_4LFB_029
IL_85033.2
IL_2HHH_0661/A/657:661,
1/A/697:701		Triple non-canonical cWW pairs
homologous
IL_5J7L_361
IL_49751.4
IL_2HHH_0311/A/667:672,
1/A/683:691		Kink-turn
homologous
IL_4LFB_031
IL_95727.1
IL_2HHH_0321/A/758:762,
1/A/788:789		Left turn
homologous
IL_4LFB_032
IL_29346.2
IL_2HHH_0331/A/763:767,
1/A/783:787		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_17136.7
IL_2HHH_0341/A/865:872,
1/A/883:888		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_2HHH_0351/A/900:901,
1/A/1376:1378		Single bulged A
homologous
IL_5J7L_039
IL_31462.7
IL_2HHH_0361/A/903:905,
1/A/1373:1374		Single bulged G
homologous
IL_4LFB_036
IL_00225.14
IL_2HHH_0371/A/911:913,
1/A/1363:1367		Minor groove platform
homologous
IL_5J7L_041
IL_47078.3
IL_2HHH_0381/A/931:932,
1/A/1208:1210		Minor groove platform
homologous
IL_4LFB_038
IL_51454.3
IL_2HHH_0391/A/1031:1033,
1/A/1190:1191		Single bulged U
homologous
IL_4LFB_042
IL_89505.4
IL_2HHH_0401/A/1035:1039,
1/A/1186:1188		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_2HHH_0411/A/1040:1041,
1/A/1181:1185		Minor groove platform
homologous
IL_4LFB_045
IL_95583.2
IL_2HHH_0421/A/1043:1044,
1/A/1177:1179		Single bulged U
geometric
IL_4LFB_046
IL_89505.4
IL_2HHH_0431/A/1044:1046,
1/A/1175:1177		Isolated non-canonical cWW pair
homologous
IL_4LFB_047
IL_28037.2
IL_2HHH_0451/A/1107:1111,
1/A/1126:1132		No text annotation
homologous
IL_4LFB_048
IL_85222.1
IL_2HHH_0671/A/1107:1115,
1/A/1125:1132		No text annotation
IL_2HHH_0461/A/1111:1115,
1/A/1125:1126		Minor groove platform
geometric
IL_3MXH_005
IL_15052.4
IL_2HHH_0471/A/1141:1144,
1/A/1157:1163		No text annotation
geometric
IL_4LFB_050
IL_42032.1
IL_2HHH_0481/A/1229:1235,
1/A/1266:1272		No text annotation
homologous
IL_4LFB_051
IL_09129.2
IL_2HHH_0491/A/1237:1240,
1/A/1259:1264		180 degree turn
homologous
IL_6CZR_161
NA
IL_2HHH_0501/A/1241:1242,
1/A/1256:1258		Not an internal loop
homologous
IL_4LFB_053
NA
IL_2HHH_0681/A/1241:1244,
1/A/1255:1258		Double sheared
homologous
IL_4LFB_067
IL_09705.15
IL_2HHH_0511/A/1242:1244,
1/A/1255:1256		Minor groove platform
geometric
IL_4LFB_054
IL_51454.3
IL_2HHH_0521/A/1285:1290,
1/A/1311:1316		No text annotation
homologous
IL_4LFB_055
IL_85536.2
IL_2HHH_0531/A/1382:1384,
1/A/1479:1482		No text annotation
geometric
IL_4V88_463
NA
IL_2HHH_0541/A/1384:1387,
1/A/1475:1479		No text annotation
geometric
IL_4V88_464
NA
IL_2HHH_0551/A/1388:1390,
1/A/1472:1474		Isolated non-canonical cWW pair
geometric
IL_4V9F_047
IL_28037.2
IL_2HHH_0561/A/1390:1393,
1/A/1468:1472		No text annotation
IL_2HHH_0571/A/1395:1397,
1/A/1464:1466		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_2HHH_0691/A/1399:1402,
1/A/1459:1462		Double sheared
homologous
IL_4LFB_060
IL_09705.15
IL_2HHH_0591/A/1414:1418,
1/A/1444:1447		UAA/GAN variation
homologous
IL_4LFB_062
IL_77691.5
IL_2HHH_0601/A/1418:1420,
1/A/1442:1444		Isolated non-canonical cWW pair
geometric
IL_4LFB_063
IL_87907.2
IL_2HHH_0611/A/1423:1428,
1/A/1437:1439		No text annotation
homologous
IL_4LFB_064
IL_49061.1

Problematic loops

#loop idProblemSequence
IL_2HHH_062Isolated non-canonical cWW pair
IL_2HHH_063Single bulged G, near cWW
IL_2HHH_064No text annotation
IL_2HHH_065Major groove platform with extra cWW
IL_2HHH_030No text annotation
IL_2HHH_044No text annotation
IL_2HHH_058Triple sheared

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_2HHH_0101/A/47:48,
1/A/357:363,
1/A/389:391		No text annotation
geometric
J3_4LFB_010
J3_67856.4
J3_2HHH_0141/A/47:53,
1/A/355:363,
1/A/389:391		No text annotation
homologous
J3_4LFB_014
J3_46317.4
J3_2HHH_0151/A/570:572,
1/A/635:639,
1/A/735:739		No text annotation
homologous
J3_4LFB_015
J3_17385.4
J3_2HHH_0121/A/656:657,
1/A/701:709,
1/A/716:718		No text annotation
homologous
J3_4LFB_012
J3_11934.4
J3_2HHH_0011/A/810:813,
1/A/835:839,
1/A/846:852		No text annotation
homologous
J3_4LFB_001
J3_85054.4
J3_2HHH_0021/A/914:917,
1/A/1326:1332,
1/A/1355:1362		No text annotation
homologous
J3_4LFB_002
J3_25303.4
J3_2HHH_0191/A/921:924,
1/A/1217:1219,
1/A/1319:1322		No text annotation
homologous
J3_4LFB_003
J3_52655.4
J3_2HHH_0041/A/933:940,
1/A/951:962,
1/A/1203:1207		No text annotation
homologous
J3_4LFB_004
J3_83516.4
J3_2HHH_0051/A/968:975,
1/A/1027:1030,
1/A/1192:1197		No text annotation
homologous
J3_4LFB_016
J3_76475.2
J3_2HHH_0061/A/980:987,
1/A/1000:1006,
1/A/1017:1022		No text annotation
J3_2HHH_0071/A/1046:1051,
1/A/1090:1096,
1/A/1169:1175		No text annotation
homologous
J3_4LFB_007
J3_08394.3
J3_2HHH_0171/A/1056:1057,
1/A/1066:1069,
1/A/1082:1085		No text annotation
homologous
J3_4LFB_017
J3_79369.1
J3_2HHH_0081/A/1099:1101,
1/A/1138:1141,
1/A/1163:1166		No text annotation
geometric
J3_5J7L_010
J3_82365.4
J3_2HHH_0181/A/1099:1101,
1/A/1138:1144,
1/A/1157:1166		No text annotation
homologous
J3_5J7L_054
J3_17791.2
J3_2HHH_0091/A/1219:1223,
1/A/1278:1285,
1/A/1316:1319		No text annotation
homologous
J3_4LFB_009
J3_37047.6
J4_2HHH_0011/A/109:116,
1/A/235:236,
1/A/282:285,
1/A/307:308		No text annotation
homologous
J4_4LFB_001
J4_35578.3
J4_2HHH_0021/A/137:139,
1/A/173:178,
1/A/201:205,
1/A/215:217		No text annotation
homologous
J4_4LFB_002
J4_88771.1
J4_2HHH_0031/A/553:561,
1/A/748:753,
1/A/794:805,
1/A/857:859		No text annotation
J5_2HHH_0011/A/37:40,
1/A/399:402,
1/A/432:437,
1/A/477:484,
1/A/529:532		No text annotation
homologous
J5_4LFB_001
J5_70703.1
J5_2HHH_0031/A/59:62,
1/A/100:107,
1/A/310:312,
1/A/333:335,
1/A/346:350		No text annotation
homologous
J5_4LFB_002
J5_59910.6

Problematic loops

#loop idProblemSequence
J3_2HHH_003No text annotation
J3_2HHH_016No text annotation
J5_2HHH_002No text annotation

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