RNA 3D Hub //

4V8Q Internal, Hairpin and 3-way Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V8Q_0011/AA/59:68No text annotation
Not in a motif group		homologous
HL_7RQB_001
HL_99167.1
HL_4V8Q_0021/AA/87:95No text annotation
Not in a motif group		homologous
HL_7RQB_002
HL_96598.1
HL_4V8Q_0031/AA/123:128No text annotation
Not in a motif group		homologous
HL_7RQB_003
HL_75407.1
HL_4V8Q_0041/AA/139:142ANo text annotation
Not in a motif group		homologous
HL_7RQB_004
HL_79921.2
HL_4V8Q_0051/AA/154A:171No text annotation
Not in a motif group		homologous
HL_7A0S_005
HL_30784.2
HL_4V8Q_0061/AA/194:201No text annotation
Not in a motif group		homologous
HL_7RQB_006
HL_06192.2
HL_4V8Q_0071/AA/225:230No text annotation
Not in a motif group		homologous
HL_7RQB_007
HL_02862.2
HL_4V8Q_0081/AA/246:252No text annotation
Not in a motif group		homologous
HL_4WF9_008
HL_67216.7
HL_4V8Q_0091/AA/271H:271PNo text annotation
Not in a motif group
HL_4V8Q_0101/AA/305:312No text annotation
Not in a motif group		homologous
HL_7RQB_010
HL_89380.2
HL_4V8Q_0111/AA/319:323No text annotation
Not in a motif group		homologous
HL_5J7L_143
HL_75407.1
HL_4V8Q_0121/AA/327:335No text annotation
Not in a motif group		homologous
HL_5J7L_144
HL_08002.8
HL_4V8Q_0131/AA/382:392No text annotation
Not in a motif group		homologous
HL_7RQB_013
HL_91503.4
HL_4V8Q_0141/AA/410:417No text annotation
Not in a motif group		homologous
HL_7RQB_014
HL_96598.1
HL_4V8Q_0151/AA/462:467GNRA
Not in a motif group		homologous
HL_5J7L_147
HL_42097.1
HL_4V8Q_0161/AA/487:493GNRA
Not in a motif group		homologous
HL_4WF9_016
HL_42097.1
HL_4V8Q_0171/AA/543:549GNRA
Not in a motif group		geometric
HL_4LFB_019
HL_42097.1
HL_4V8Q_0181/AA/566:575No text annotation
Not in a motif group		geometric
HL_7RQB_018
HL_89380.2
HL_4V8Q_0191/AA/612:615No text annotation
Not in a motif group		homologous
HL_7RQB_019
HL_32369.1
HL_4V8Q_0201/AA/629:634No text annotation
Not in a motif group		homologous
HL_7RQB_020
HL_42097.1
HL_4V8Q_0211/AA/641:647GNRA with one bulged base
Not in a motif group		homologous
HL_4WF9_021
HL_42097.1
HL_4V8Q_0221/AA/712:719No text annotation
Not in a motif group		homologous
HL_7RQB_022
HL_84085.2
HL_4V8Q_0231/AA/744:753No text annotation
Not in a motif group		homologous
HL_7RQB_023
HL_39334.6
HL_4V8Q_0241/AA/779:785No text annotation
Not in a motif group		homologous
HL_7A0S_023
HL_27930.1
HL_4V8Q_0251/AA/826:831No text annotation
Not in a motif group		homologous
HL_7RQB_025
HL_64365.1
HL_4V8Q_0261/AA/883:893No text annotation
Not in a motif group
HL_4V8Q_0271/AA/955:962No text annotation
Not in a motif group		homologous
HL_7RQB_027
HL_42097.1
HL_4V8Q_0281/AA/978:985No text annotation
Not in a motif group		homologous
HL_7RQB_028
HL_64430.2
HL_4V8Q_0291/AA/1055:1104No text annotation
Not in a motif group
HL_4V8Q_0301/AA/1170:1179No text annotation
Not in a motif group
HL_4V8Q_0311/AA/1222:1227No text annotation
Not in a motif group		homologous
HL_7RQB_032
HL_42097.1
HL_4V8Q_0321/AA/1281:1289No text annotation
Not in a motif group		homologous
HL_7RQB_033
HL_89380.2
HL_4V8Q_0331/AA/1324:1330No text annotation
Not in a motif group		homologous
HL_7RQB_034
HL_46680.1
HL_4V8Q_0341/AA/1363:1368No text annotation
Not in a motif group		homologous
HL_7RQB_035
HL_87030.2
HL_4V8Q_0351/AA/1389:1398No text annotation
Not in a motif group		homologous
HL_7RQB_036
HL_69023.2
HL_4V8Q_0361/AA/1450A:1461No text annotation
Not in a motif group
HL_4V8Q_0371/AA/1492:1498No text annotation
Not in a motif group
HL_4V8Q_0381/AA/1532:1537No text annotation
Not in a motif group		geometric
HL_1WZ2_007
HL_10278.1
HL_4V8Q_0391/AA/1565:1568No text annotation
Not in a motif group		homologous
HL_7RQB_039
HL_38927.2
HL_4V8Q_0401/AA/1612:1619No text annotation
Not in a motif group		homologous
HL_7RQB_040
HL_64430.2
HL_4V8Q_0411/AA/1631:1635No text annotation
Not in a motif group		homologous
HL_7RQB_041
HL_01057.1
HL_4V8Q_0421/AA/1691:1696UNCG
Not in a motif group		homologous
HL_5J7L_175
HL_03562.2
HL_4V8Q_0431/AA/1718:1744No text annotation
Not in a motif group
HL_4V8Q_0441/AA/1752:1756No text annotation
Not in a motif group		homologous
HL_7RQB_044
HL_76539.2
HL_4V8Q_0451/AA/1777:1787No text annotation
Not in a motif group		homologous
HL_7RQB_045
HL_43613.5
HL_4V8Q_0461/AA/1806:1811No text annotation
Not in a motif group		homologous
HL_7RQB_046
HL_42097.1
HL_4V8Q_0471/AA/1864:1878No text annotation
Not in a motif group		homologous
HL_7RQB_047
HL_42097.1
HL_4V8Q_0481/AA/1910:1920No text annotation
Not in a motif group		geometric
HL_5TBW_049
HL_71924.2
HL_4V8Q_0491/AA/1949:1957No text annotation
Not in a motif group		homologous
HL_7RQB_049
HL_51824.1
HL_4V8Q_0501/AA/2027:2036No text annotation
Not in a motif group		homologous
HL_7RQB_050
HL_90642.6
HL_4V8Q_0521/AA/2205:2219No text annotation
Not in a motif group		geometric
HL_5TBW_004
HL_98426.1
HL_4V8Q_0531/AA/2248:2256No text annotation
Not in a motif group		homologous
HL_7RQB_053
NA
HL_4V8Q_0541/AA/2264:2276No text annotation
Not in a motif group		homologous
HL_7RQB_054
HL_19870.6
HL_4V8Q_0551/AA/2303:2313No text annotation
Not in a motif group		homologous
HL_4WF9_051
NA
HL_4V8Q_0561/AA/2324:2331No text annotation
Not in a motif group		homologous
HL_7RQB_056
HL_12078.2
HL_4V8Q_0571/AA/2355:2362No text annotation
Not in a motif group		homologous
HL_7RQB_057
HL_09136.1
HL_4V8Q_0581/AA/2374:2379No text annotation
Not in a motif group		homologous
HL_7RQB_058
HL_42097.1
HL_4V8Q_0591/AA/2404:2413No text annotation
Not in a motif group		homologous
HL_7RQB_059
HL_30784.2
HL_4V8Q_0601/AA/2471:2479No text annotation
Not in a motif group		homologous
HL_7RQB_060
HL_06192.2
HL_4V8Q_0611/AA/2528:2535No text annotation
Not in a motif group		homologous
HL_7RQB_061
HL_88526.2
HL_4V8Q_0621/AA/2551:2557No text annotation
Not in a motif group		homologous
HL_4WF9_058
HL_43656.2
HL_4V8Q_0631/AA/2594:2599No text annotation
Not in a motif group		homologous
HL_7RQB_063
HL_42097.1
HL_4V8Q_0641/AA/2658:2663GNRA
Not in a motif group		homologous
HL_5J7L_197
HL_42097.1
HL_4V8Q_0651/AA/2701:2706No text annotation
Not in a motif group		homologous
HL_7RQB_065
HL_53171.2
HL_4V8Q_0661/AA/2745:2759No text annotation
Not in a motif group		homologous
HL_7RQB_066
HL_56677.7
HL_4V8Q_0681/AA/2819:2827No text annotation
Not in a motif group		homologous
HL_7RQB_068
HL_27930.1
HL_4V8Q_0691/AA/2856:2861No text annotation
Not in a motif group		homologous
HL_7RQB_069
HL_42097.1
HL_4V8Q_0701/AB/38:44No text annotation
Not in a motif group		homologous
HL_5J7L_203
HL_87939.1
HL_4V8Q_0711/AB/86:91No text annotation
Not in a motif group		homologous
HL_7RQB_071
HL_42097.1
HL_4V8Q_0721/BA/12:22No text annotation
Not in a motif group		homologous
HL_4LFB_001
HL_89881.2
HL_4V8Q_0731/BA/72:97No text annotation
Not in a motif group
HL_4V8Q_0741/BA/158:163GNRA
Not in a motif group		homologous
HL_4LFB_003
HL_42097.1
HL_4V8Q_0751/BA/189B:189INo text annotation
Not in a motif group		geometric
HL_2Y9H_005
HL_47100.1
HL_4V8Q_0761/BA/200:217No text annotation
Not in a motif group		homologous
HL_6CZR_076
HL_34168.2
HL_4V8Q_0771/BA/259:267No text annotation
Not in a motif group		homologous
HL_4LFB_006
HL_69023.2
HL_4V8Q_0781/BA/296:301GNRA
Not in a motif group		homologous
HL_4LFB_007
HL_42097.1
HL_4V8Q_0791/BA/320:333No text annotation
Not in a motif group		homologous
HL_5J7L_008
HL_81205.2
HL_4V8Q_0801/BA/342:347UNCG
Not in a motif group		homologous
HL_4LFB_009
HL_03562.2
HL_4V8Q_0811/BA/379:384GNRA
Not in a motif group		homologous
HL_5J7L_010
HL_42097.1
HL_4V8Q_0821/BA/418:425No text annotation
Not in a motif group		geometric
HL_5H9F_001
HL_24068.2
HL_4V8Q_0831/BA/458:473No text annotation
Not in a motif group		homologous
HL_4LFB_012
HL_43656.2
HL_4V8Q_0841/BA/522:527No text annotation
Not in a motif group		geometric
HL_5J7L_143
HL_75407.1
HL_4V8Q_0851/BA/617:623No text annotation
Not in a motif group		homologous
HL_4LFB_014
HL_26881.1
HL_4V8Q_0861/BA/689:698No text annotation
Not in a motif group		homologous
HL_4LFB_015
HL_12326.1
HL_4V8Q_0871/BA/726:731Other HL
Not in a motif group		homologous
HL_4LFB_016
HL_87030.2
HL_4V8Q_0881/BA/786:796No text annotation
Not in a motif group		homologous
HL_4LFB_017
HL_12326.1
HL_4V8Q_0891/BA/837:849No text annotation
Not in a motif group		geometric
HL_4V88_197
HL_09136.1
HL_4V8Q_0901/BA/862:867GNRA
Not in a motif group		homologous
HL_4LFB_019
HL_42097.1
HL_4V8Q_0911/BA/897:902GNRA
Not in a motif group		homologous
HL_6CZR_091
HL_42097.1
HL_4V8Q_0921/BA/963:972No text annotation
Not in a motif group		homologous
HL_4LFB_021
NA
HL_4V8Q_0931/BA/1012:1017GNRA
Not in a motif group		homologous
HL_4LFB_022
HL_42097.1
HL_4V8Q_0941/BA/1076:1081GNRA
Not in a motif group		homologous
HL_5J7L_023
HL_42097.1
HL_4V8Q_0951/BA/1089:1096No text annotation
Not in a motif group		homologous
HL_4LFB_025
HL_71554.2
HL_4V8Q_0961/BA/1128:1143No text annotation
Not in a motif group
HL_4V8Q_0971/BA/1165:1171GNRA
Not in a motif group		homologous
HL_4LFB_027
HL_42097.1
HL_4V8Q_0981/BA/1265:1270Other HL
Not in a motif group		homologous
HL_4LFB_028
HL_42097.1
HL_4V8Q_0991/BA/1314:1323No text annotation
Not in a motif group		homologous
HL_4LFB_029
HL_89380.2
HL_4V8Q_1001/BA/1356:1366No text annotation
Not in a motif group		homologous
HL_4LFB_030
HL_96366.1
HL_4V8Q_1011/BA/1445:1457No text annotation
Not in a motif group
HL_4V8Q_1021/BA/1515:1520No text annotation
Not in a motif group		homologous
HL_6CZR_103
NA
HL_4V8Q_1031/BV/13:23No text annotation
Not in a motif group		homologous
HL_4TUE_033
HL_25462.2
HL_4V8Q_1041/BV/32:40tRNA anticodon loop
Not in a motif group		homologous
HL_4TUE_034
HL_53597.2
HL_4V8Q_1051/BV/54:62T-loop with 2 stacked bulged bases
Not in a motif group		homologous
HL_5HR7_006
HL_22280.1
HL_4V8Q_1101/BY/66:74T-loop with 2 stacked bulged bases
HL_71309.1

Problematic loops

#loop idProblemSequence
HL_4V8Q_051No text annotation
HL_4V8Q_067No text annotation
HL_4V8Q_106No text annotation
HL_4V8Q_107No text annotation
HL_4V8Q_108T-loop with 2 stacked bulged bases
HL_4V8Q_109No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V8Q_0011/AA/24:30,
1/AA/510:516		Triple sheared with non-canonical cWW
Not in a motif group		homologous
IL_7RQB_001
IL_66414.6
IL_4V8Q_0021/AA/36:37,
1/AA/442:444		Single bulged A
Not in a motif group		homologous
IL_7RQB_002
IL_37497.2
IL_4V8Q_0031/AA/42:44,
1/AA/433:436		Major groove platform with extra cWW
Not in a motif group		geometric
IL_4V9F_003
IL_18471.2
IL_4V8Q_0041/AA/81:85,
1/AA/97:105		Kink-turn
Not in a motif group		homologous
IL_7RQB_004
IL_45067.2
IL_4V8Q_0051/AA/183:184,
1/AA/212:214		Single stack bend
Not in a motif group		homologous
IL_7RQB_005
IL_76488.2
IL_4V8Q_0061/AA/188:194,
1/AA/201:208		8x7 Sarcin-Ricin; G-bulge
Not in a motif group		geometric
IL_7RQB_006
IL_04346.7
IL_4V8Q_0071/AA/239:245,
1/AA/253:258		7x6 Sarcin-Ricin; G-bulge
Not in a motif group		homologous
IL_7RQB_007
IL_76042.2
IL_4V8Q_0081/AA/272D:272E,
1/AA/363E:364		Major groove platform
Not in a motif group		homologous
IL_7RQB_009
IL_27635.1
IL_4V8Q_0091/AA/272J:280,
1/AA/360:363		No text annotation
Not in a motif group
IL_4V8Q_0101/AA/280:285,
1/AA/356:360		Triple sheared
Not in a motif group		geometric
IL_4WFL_001
IL_56467.8
IL_4V8Q_0111/AA/288:290,
1/AA/350:353		Isolated tHS basepair with bulges
Not in a motif group		homologous
IL_7RQB_012
IL_38958.7
IL_4V8Q_0121/AA/293:295,
1/AA/343:347		No text annotation
Not in a motif group		homologous
IL_7RQB_013
IL_69440.1
IL_4V8Q_0131/AA/481:484,
1/AA/496:509		No text annotation
Not in a motif group		homologous
IL_7RQB_014
IL_60992.6
IL_4V8Q_0141/AA/564:566,
1/AA/575:577		No text annotation
Not in a motif group		homologous
IL_5J7L_257
IL_95997.1
IL_4V8Q_0151/AA/606:610,
1/AA/618:622		AAA cross-strand stack
Not in a motif group		homologous
IL_4WF9_019
IL_17136.1
IL_4V8Q_0161/AA/672:674,
1/AA/806:808		No text annotation
Not in a motif group		geometric
IL_7RQB_017
IL_95997.1
IL_4V8Q_0171/AA/674:678,
1/AA/799:806		tHW-tHW cross-strand stack
Not in a motif group		homologous
IL_4WF9_021
IL_17470.6
IL_4V8Q_0181/AA/697:698,
1/AA/763:765		Single bulged A
Not in a motif group		homologous
IL_7RQB_019
IL_37497.2
IL_4V8Q_0191/AA/702:703,
1/AA/728:730		Single bulged G
Not in a motif group		homologous
IL_7RQB_020
IL_00225.2
IL_4V8Q_0201/AA/703:707,
1/AA/724:728		Triple sheared
Not in a motif group		geometric
IL_7RQB_021
IL_56467.8
IL_4V8Q_0211/AA/707:709,
1/AA/722:724		No text annotation
Not in a motif group		homologous
IL_4WF9_025
NA
IL_4V8Q_0221/AA/738:741,
1/AA/756:758		Major groove platform with extra cWW
Not in a motif group		homologous
IL_7RQB_022
IL_05564.2
IL_4V8Q_0231/AA/775:777,
1/AA/787:791		Multiple bulged bases
Not in a motif group		homologous
IL_7RQB_023
IL_90991.6
IL_4V8Q_0241/AA/837:838,
1/AA/940:942		Single stack bend
Not in a motif group		homologous
IL_4WF9_028
IL_92001.1
IL_4V8Q_0251/AA/844:846,
1/AA/931:934		Intercalated cWW
Not in a motif group		geometric
IL_7RQB_025
IL_52767.2
IL_4V8Q_0261/AA/846:850,
1/AA/927:931		No text annotation
Not in a motif group		homologous
IL_7RQB_026
IL_94165.1
IL_4V8Q_0271/AA/857:862,
1/AA/915:920		5x5 Sarcin-Ricin with intercalated A; G-bulge
Not in a motif group		geometric
IL_7A0S_027
IL_81631.1
IL_4V8Q_0281/AA/862:863,
1/AA/913:915		Minor groove platform
Not in a motif group		homologous
IL_7A0S_028
IL_42622.2
IL_4V8Q_0291/AA/864:868,
1/AA/909:912		C-loop
Not in a motif group		homologous
IL_7RQB_029
IL_02509.1
IL_4V8Q_0301/AA/870:872,
1/AA/905:907		Isolated cWS basepair
Not in a motif group		homologous
IL_7RQB_030
IL_52767.2
IL_4V8Q_0311/AA/875:877,
1/AA/899:902		Minor groove platform with extra cWW
Not in a motif group		homologous
IL_7RQB_031
IL_46796.1
IL_4V8Q_0321/AA/877:881,
1/AA/895:899		No text annotation
Not in a motif group
IL_4V8Q_0331/AA/881:883,
1/AA/893:895		No text annotation
Not in a motif group		geometric
IL_6IA2_001
IL_95997.1
IL_4V8Q_0341/AA/952:954,
1/AA/963:965		No text annotation
Not in a motif group		homologous
IL_7RQB_034
IL_95997.1
IL_4V8Q_0351/AA/994:996,
1/AA/1159:1160		Single bulged C
Not in a motif group		homologous
IL_5J7L_276
IL_61258.12
IL_4V8Q_0361/AA/998:1002,
1/AA/1153:1157		UAA/GAN
Not in a motif group		homologous
IL_7RQB_036
IL_89002.2
IL_4V8Q_0371/AA/1004:1011,
1/AA/1150:1151		SSU/LSU pseudoknot
Not in a motif group		geometric
IL_7RQB_037
IL_15861.7
IL_4V8Q_0381/AA/1011:1013,
1/AA/1149:1150		Single bulged U
Not in a motif group		homologous
IL_7RQB_038
IL_83039.13
IL_4V8Q_0391/AA/1018:1024,
1/AA/1140:1144		No text annotation
Not in a motif group		homologous
IL_4WF9_039
IL_57188.3
IL_4V8Q_0401/AA/1024:1030,
1/AA/1124:1140		No text annotation
Not in a motif group		geometric
IL_7RQB_040
IL_50715.1
IL_4V8Q_0411/AA/1031:1034,
1/AA/1121:1123		Isolated non-canonical cWW with bulges
Not in a motif group		homologous
IL_7RQB_041
IL_82068.2
IL_4V8Q_0421/AA/1196:1198,
1/AA/1247:1250		Isolated cWS basepair
Not in a motif group		homologous
IL_7RQB_045
IL_52767.2
IL_4V8Q_0431/AA/1202:1206,
1/AA/1240:1243		No text annotation
Not in a motif group		homologous
IL_7RQB_046
IL_68574.2
IL_4V8Q_0441/AA/1208:1215,
1/AA/1234:1238		Kink-turn
Not in a motif group		homologous
IL_7RQB_047
IL_70923.2
IL_4V8Q_0451/AA/1219:1221,
1/AA/1229:1230		Single bulged A
Not in a motif group		homologous
IL_7RQB_048
IL_37497.2
IL_4V8Q_0461/AA/1262:1269,
1/AA/2011:2017		8x7 Sarcin-Ricin; G-bulge
Not in a motif group		homologous
IL_7RQB_049
IL_04346.7
IL_4V8Q_0471/AA/1310:1313,
1/AA/1603:1604		Major groove platform; stack outside cWW
Not in a motif group		homologous
IL_7RQB_050
IL_50694.2
IL_4V8Q_0481/AA/1319:1323,
1/AA/1331:1333		C-loop
Not in a motif group		homologous
IL_7RQB_051
IL_63596.6
IL_4V8Q_0491/AA/1351:1355,
1/AA/1376:1380		UAA/GAN
Not in a motif group		homologous
IL_7RQB_052
IL_89002.2
IL_4V8Q_0501/AA/1357:1361,
1/AA/1370:1374		tSH-tHW-tHS
Not in a motif group		homologous
IL_7RQB_053
IL_17136.1
IL_4V8Q_0521/AA/1415:1416,
1/AA/1582:1587		No text annotation
Not in a motif group
IL_4V8Q_0531/AA/1417:1421,
1/AA/1577:1581		UAA/GAN
Not in a motif group		homologous
IL_5J7L_295
IL_89002.2
IL_4V8Q_0541/AA/1433:1435,
1/AA/1557:1560		Isolated tWW turn
Not in a motif group		homologous
IL_7RQB_056
IL_54997.7
IL_4V8Q_0551/AA/1437:1440,
1/AA/1551:1555		tSH-tHW
Not in a motif group		homologous
IL_7RQB_057
IL_04059.1
IL_4V8Q_0561/AA/1448:1450,
1/AA/1462:1463		Single stack bend
Not in a motif group		homologous
IL_7RQB_058
IL_76488.2
IL_4V8Q_0571/AA/1469:1473,
1/AA/1518:1523		UAA/GAN
Not in a motif group		homologous
IL_7RQB_060
IL_07235.1
IL_4V8Q_0581/AA/1479:1482,
1/AA/1506:1512		No text annotation
Not in a motif group
IL_4V8Q_0601/AA/1489:1491,
1/AA/1499:1500		Single bulged A
Not in a motif group		homologous
IL_5J7L_302
IL_37497.2
IL_4V8Q_0611/AA/1526:1530,
1/AA/1539:1546		No text annotation
Not in a motif group
IL_4V8Q_0621/AA/1651:1656,
1/AA/2004:2006		No text annotation
Not in a motif group		homologous
IL_5J7L_304
IL_12566.2
IL_4V8Q_0631/AA/1663:1665,
1/AA/1995:1997		Isolated tWW turn
Not in a motif group		homologous
IL_7RQB_065
IL_54997.7
IL_4V8Q_0641/AA/1666:1669,
1/AA/1993:1994		Major groove platform; stack outside cWW
Not in a motif group		homologous
IL_7RQB_066
IL_50694.2
IL_4V8Q_0651/AA/1669:1674,
1/AA/1990:1993		Intercalated tWH
Not in a motif group		geometric
IL_7RQB_067
IL_82842.2
IL_4V8Q_0661/AA/1686:1691,
1/AA/1696:1702		tSH-tSH-tHH-tHS
Not in a motif group		geometric
IL_7RQB_068
IL_65969.2
IL_4V8Q_0671/AA/1770:1771,
1/AA/1980:1982		Single bulged A
Not in a motif group		homologous
IL_7RQB_069
IL_37497.2
IL_4V8Q_0681/AA/1798:1804,
1/AA/1813:1821		Kink-turn related
Not in a motif group		homologous
IL_7RQB_070
IL_17069.3
IL_4V8Q_0691/AA/1837:1840,
1/AA/1902:1903		Major groove outside cWW, minor groove, intercalation pocket
Not in a motif group		homologous
IL_5J7L_314
IL_88739.1
IL_4V8Q_0701/AA/1841:1842,
1/AA/1898:1901		Major groove outside cWW, minor groove, intercalation pocket
Not in a motif group		homologous
IL_5J7L_315
IL_16396.2
IL_4V8Q_0711/AA/1846:1849,
1/AA/1893:1894		Minor groove platform
Not in a motif group		homologous
IL_7RQB_073
IL_88739.1
IL_4V8Q_0721/AA/1851:1855,
1/AA/1887:1891		UAA/GAN with extra pair
Not in a motif group		homologous
IL_7RQB_074
IL_90318.1
IL_4V8Q_0731/AA/1856:1860,
1/AA/1882:1886		Triple sheared
Not in a motif group		homologous
IL_7RQB_075
IL_56467.8
IL_4V8Q_0741/AA/1933:1934,
1/AA/1964:1967		Multiple bulged bases
Not in a motif group		geometric
IL_5J7L_318
IL_59677.2
IL_4V8Q_0751/AA/1934:1945,
1/AA/1961:1964		No text annotation
Not in a motif group		homologous
IL_4WF9_077
IL_81589.2
IL_4V8Q_0761/AA/2050:2052,
1/AA/2617:2618		Major groove platform
Not in a motif group		homologous
IL_7RQB_078
IL_27635.1
IL_4V8Q_0771/AA/2054:2057,
1/AA/2611:2615		No text annotation
Not in a motif group
IL_4V8Q_0781/AA/2067:2069,
1/AA/2442:2443		Single bulged U
Not in a motif group		homologous
IL_7RQB_080
IL_83039.13
IL_4V8Q_0791/AA/2070:2071,
1/AA/2438:2441		Minor groove platform
Not in a motif group		homologous
IL_7RQB_081
IL_42622.2
IL_4V8Q_0801/AA/2081:2083,
1/AA/2236:2239		Isolated tHS basepair with bulges
Not in a motif group		homologous
IL_7RQB_082
IL_38958.7
IL_4V8Q_0811/AA/2085:2087,
1/AA/2232:2234		No text annotation
Not in a motif group		homologous
IL_7RQB_083
IL_95997.1
IL_4V8Q_0821/AA/2096:2098,
1/AA/2191:2193		No text annotation
Not in a motif group		geometric
IL_4AOB_005
IL_95997.1
IL_4V8Q_0831/AA/2098:2101,
1/AA/2188:2191		Self complementary
Not in a motif group		geometric
IL_3NDB_001
IL_30621.2
IL_4V8Q_0841/AA/2101:2105,
1/AA/2184:2188		No text annotation
Not in a motif group
IL_4V8Q_0921/AA/2297:2299,
1/AA/2317:2321		Isolated tHS basepair with bulges
Not in a motif group		homologous
IL_7RQB_088
IL_38958.7
IL_4V8Q_0931/AA/2350:2353,
1/AA/2364:2367		Double sheared
Not in a motif group		homologous
IL_7RQB_089
IL_09705.9
IL_4V8Q_0941/AA/2401:2403,
1/AA/2414:2415		Single bulged U
Not in a motif group		homologous
IL_5J7L_334
IL_83039.13
IL_4V8Q_0951/AA/2453:2454,
1/AA/2498:2500		Single stack bend
Not in a motif group		geometric
IL_7RQB_091
IL_76488.2
IL_4V8Q_0961/AA/2454:2455,
1/AA/2496:2498		Major groove platform
Not in a motif group		homologous
IL_7RQB_092
IL_27635.1
IL_4V8Q_0971/AA/2456:2459,
1/AA/2493:2495		Major groove platform with extra pair
Not in a motif group		geometric
IL_7RQB_093
IL_63450.2
IL_4V8Q_0981/AA/2459:2461,
1/AA/2489:2493		Major groove minor groove platform with extra cWW
Not in a motif group		homologous
IL_7RQB_094
IL_92788.2
IL_4V8Q_0991/AA/2466:2470,
1/AA/2480:2484		Triple sheared
Not in a motif group		homologous
IL_7RQB_095
IL_56467.8
IL_4V8Q_1001/AA/2507:2508,
1/AA/2580:2582		Major groove platform
Not in a motif group		homologous
IL_7A0S_088
IL_76223.2
IL_4V8Q_1011/AA/2510:2512,
1/AA/2574:2578		Isolated non-canonical cWW with bulges
Not in a motif group		homologous
IL_7RQB_097
IL_90933.2
IL_4V8Q_1021/AA/2512:2513,
1/AA/2571:2574		Multiple bulged bases
Not in a motif group		geometric
IL_7RQB_098
IL_71530.2
IL_4V8Q_1031/AA/2522:2523,
1/AA/2540:2543		Minor groove platform with intercalation
Not in a motif group		homologous
IL_5J7L_342
IL_95601.3
IL_4V8Q_1051/AA/2591:2592,
1/AA/2601:2603		Single bulged A
Not in a motif group		homologous
IL_7RQB_101
IL_37497.2
IL_4V8Q_1061/AA/2636:2640,
1/AA/2774:2782		tSH-tHS-tHW
Not in a motif group		homologous
IL_7RQB_102
IL_04638.1
IL_4V8Q_1071/AA/2652:2658,
1/AA/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
Not in a motif group		geometric
IL_7RQB_103
IL_16458.1
IL_4V8Q_1081/AA/2680:2684,
1/AA/2725:2727		C-loop
Not in a motif group		homologous
IL_7RQB_104
IL_63596.6
IL_4V8Q_1091/AA/2687:2691,
1/AA/2718:2722		No text annotation
Not in a motif group
IL_4V8Q_1101/AA/2695:2696,
1/AA/2711:2714		Multiple bulged bases
Not in a motif group		homologous
IL_7RQB_106
IL_71530.2
IL_4V8Q_1111/AA/2737:2742,
1/AA/2762:2767		UAA/GAN with extra cWW
Not in a motif group		homologous
IL_5J7L_350
IL_49767.5
IL_4V8Q_1121/AA/2838:2839,
1/AA/2878:2880		Single bulged C
Not in a motif group		homologous
IL_7RQB_108
IL_61258.12
IL_4V8Q_1131/AA/2843:2846,
1/AA/2870:2874		No text annotation
Not in a motif group		homologous
IL_7RQB_109
IL_58764.3
IL_4V8Q_1141/AA/2847:2852,
1/AA/2865:2869		No text annotation
Not in a motif group		homologous
IL_7RQB_110
IL_83162.5
IL_4V8Q_1151/AB/20:22,
1/AB/61:63		No text annotation
Not in a motif group		geometric
IL_3GM7_001
IL_95997.1
IL_4V8Q_1161/AB/23:28,
1/AB/56:60		No text annotation
Not in a motif group		homologous
IL_5J7L_356
IL_18472.2
IL_4V8Q_1171/AB/30:31,
1/AB/51:54		Major groove minor groove platform; mini C-loop
Not in a motif group		homologous
IL_4V9F_103
IL_09061.6
IL_4V8Q_1181/AB/34:38,
1/AB/44:48		Symmetric double minor groove platform
Not in a motif group		geometric
IL_7RQB_114
IL_58103.6
IL_4V8Q_1191/AB/71:79,
1/AB/98:106		Bacterial 5S Loop E
Not in a motif group		homologous
IL_7RQB_115
IL_56455.3
IL_4V8Q_1201/AB/80:82,
1/AB/95:97		No text annotation
Not in a motif group		geometric
IL_7A0S_107
IL_51629.2
IL_4V8Q_1211/BA/30:32,
1/BA/552:553		Single bulged G
Not in a motif group		homologous
IL_4LFB_001
IL_00225.2
IL_4V8Q_1221/BA/44:45,
1/BA/396:398		Single bulged A
Not in a motif group		homologous
IL_4LFB_002
IL_37497.2
IL_4V8Q_1231/BA/47:52,
1/BA/359:361		No text annotation
Not in a motif group		homologous
IL_4LFB_003
IL_11178.1
IL_4V8Q_1241/BA/54:57,
1/BA/355:357		No text annotation
Not in a motif group
IL_4V8Q_1251/BA/63:66,
1/BA/103:104		Multiple bulged bases
Not in a motif group		homologous
IL_4LFB_005
IL_76389.1
IL_4V8Q_1261/BA/67:69,
1/BA/100:102		No text annotation
Not in a motif group		homologous
IL_4LFB_006
IL_95997.1
IL_4V8Q_1271/BA/70:72,
1/BA/97:99		No text annotation
Not in a motif group		geometric
IL_5UNE_004
IL_95997.1
IL_4V8Q_1281/BA/129:131,
1/BA/231:232		Multiple bulged bases
Not in a motif group		homologous
IL_4LFB_007
IL_16396.2
IL_4V8Q_1291/BA/132:136,
1/BA/227:230		No text annotation
Not in a motif group		homologous
IL_4LFB_008
IL_58764.3
IL_4V8Q_1301/BA/148:153,
1/BA/168:174		tWH-tWH-tHW-tHW
Not in a motif group		homologous
IL_4LFB_009
IL_39753.1
IL_4V8Q_1311/BA/186:188,
1/BA/189L:191		No text annotation
Not in a motif group		homologous
IL_4LFB_010
IL_95997.1
IL_4V8Q_1321/BA/242:247,
1/BA/277:284		Kink-turn with non-sequential stacking
Not in a motif group		homologous
IL_4LFB_011
IL_45067.2
IL_4V8Q_1331/BA/249:252,
1/BA/274:275		No text annotation
Not in a motif group		homologous
IL_4LFB_012
IL_48100.2
IL_4V8Q_1341/BA/292:293,
1/BA/304:308		C-loop
Not in a motif group		homologous
IL_4LFB_013
IL_37712.2
IL_4V8Q_1351/BA/367:369,
1/BA/392:393		Single bulged U
Not in a motif group		homologous
IL_5J7L_017
IL_83039.13
IL_4V8Q_1361/BA/371:375,
1/BA/389:390		C-loop
Not in a motif group		homologous
IL_5J7L_018
IL_75255.1
IL_4V8Q_1371/BA/375:376,
1/BA/387:389		Single bulged G
Not in a motif group		geometric
IL_4LFB_016
IL_00225.2
IL_4V8Q_1381/BA/409:416,
1/BA/427:433		No text annotation
Not in a motif group		homologous
IL_4LFB_017
IL_28026.1
IL_4V8Q_1391/BA/446:450,
1/BA/483:488		6x5 Sarcin-Ricin; G-bulge
Not in a motif group		homologous
IL_4LFB_018
IL_88269.3
IL_4V8Q_1401/BA/504:511,
1/BA/540:541		SSU/LSU pseudoknot
Not in a motif group		homologous
IL_5J7L_024
IL_15861.7
IL_4V8Q_1411/BA/515:521,
1/BA/528:536		No text annotation
Not in a motif group		geometric
IL_4V88_415
IL_55871.1
IL_4V8Q_1421/BA/569:575,
1/BA/880:881		No text annotation
Not in a motif group		homologous
IL_4LFB_022
IL_69996.1
IL_4V8Q_1431/BA/580:584,
1/BA/757:761		tSH-tHW-tHS
Not in a motif group		homologous
IL_4LFB_023
IL_17136.1
IL_4V8Q_1441/BA/594:596,
1/BA/644:645		Major groove platform
Not in a motif group		homologous
IL_4LFB_024
IL_27635.1
IL_4V8Q_1451/BA/597:598,
1/BA/640:643		Major groove minor groove platform; mini C-loop
Not in a motif group		homologous
IL_4LFB_025
IL_09061.6
IL_4V8Q_1461/BA/605:612,
1/BA/628:633		No text annotation
Not in a motif group		homologous
IL_4LFB_026
IL_78349.1
IL_4V8Q_1471/BA/654:655,
1/BA/751:754		Major groove platform; stack outside cWW
Not in a motif group		homologous
IL_4LFB_027
IL_50694.2
IL_4V8Q_1481/BA/657:658,
1/BA/747:749		Major groove platform
Not in a motif group		homologous
IL_4LFB_028
IL_27635.1
IL_4V8Q_1491/BA/662:666,
1/BA/740:743		Tandem non-canonical cWW pairs
Not in a motif group		homologous
IL_4LFB_029
IL_71110.1
IL_4V8Q_1501/BA/673:678,
1/BA/712:717		No text annotation
Not in a motif group		homologous
IL_4LFB_030
IL_04668.1
IL_4V8Q_1511/BA/683:688,
1/BA/699:707		Kink-turn
Not in a motif group		homologous
IL_4LFB_031
IL_37722.1
IL_4V8Q_1521/BA/774:778,
1/BA/804:805		Left turn
Not in a motif group		homologous
IL_4LFB_032
IL_29346.1
IL_4V8Q_1531/BA/779:783,
1/BA/799:803		tSH-tHW-tHS
Not in a motif group		homologous
IL_5J7L_037
IL_17136.1
IL_4V8Q_1541/BA/887:894,
1/BA/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
Not in a motif group		homologous
IL_4LFB_034
IL_24606.2
IL_4V8Q_1551/BA/922:923,
1/BA/1393:1395		Single bulged A
Not in a motif group		homologous
IL_5J7L_039
IL_37497.2
IL_4V8Q_1561/BA/925:927,
1/BA/1390:1391		Single bulged G
Not in a motif group		homologous
IL_5J7L_040
IL_00225.2
IL_4V8Q_1571/BA/933:935,
1/BA/1380:1384		Minor groove platform
Not in a motif group		homologous
IL_4LFB_037
IL_47078.1
IL_4V8Q_1581/BA/952:954,
1/BA/1226:1229		Minor groove platform with extra cWW
Not in a motif group		geometric
IL_4WF9_003
IL_65006.1
IL_4V8Q_1591/BA/993:997,
1/BA/1044:1045		Minor groove platform
Not in a motif group		homologous
IL_4LFB_039
IL_47078.1
IL_4V8Q_1611/BA/1000:1008,
1/BA/1021:1041		No text annotation
Not in a motif group
IL_4V8Q_1621/BA/1008:1011,
1/BA/1018:1021		Tandem non-canonical cWW pairs
Not in a motif group		geometric
IL_4EYA_010
IL_30621.2
IL_4V8Q_1631/BA/1048:1050,
1/BA/1208:1209		Single bulged U
Not in a motif group		homologous
IL_4LFB_042
IL_83039.13
IL_4V8Q_1641/BA/1052:1056,
1/BA/1204:1206		Isolated cWS basepair
Not in a motif group		homologous
IL_4LFB_044
IL_76319.2
IL_4V8Q_1651/BA/1057:1058,
1/BA/1199:1203		Minor groove platform
Not in a motif group		homologous
IL_5J7L_048
IL_93353.1
IL_4V8Q_1661/BA/1060:1061,
1/BA/1195:1197		Single bulged U
Not in a motif group		geometric
IL_2PN3_003
IL_83039.13
IL_4V8Q_1671/BA/1061:1063,
1/BA/1193:1195		No text annotation
Not in a motif group		homologous
IL_4LFB_047
IL_95997.1
IL_4V8Q_1691/BA/1124:1128,
1/BA/1143:1149		No text annotation
Not in a motif group		geometric
IL_4LFB_048
IL_85222.1
IL_4V8Q_1701/BA/1158:1161,
1/BA/1175:1181		No text annotation
Not in a motif group
IL_4V8Q_1721/BA/1247:1253,
1/BA/1284:1290		No text annotation
Not in a motif group		homologous
IL_4LFB_051
IL_09129.1
IL_4V8Q_1731/BA/1255:1258,
1/BA/1277:1282		No text annotation
Not in a motif group		homologous
IL_4LFB_052
IL_84205.1
IL_4V8Q_1741/BA/1259:1262,
1/BA/1273:1276		Double sheared
Not in a motif group		geometric
IL_5J7L_256
IL_09705.9
IL_4V8Q_1751/BA/1303:1309,
1/BA/1328:1334		No text annotation
Not in a motif group
IL_4V8Q_1761/BA/1399:1401,
1/BA/1501:1504		No text annotation
Not in a motif group		homologous
IL_4LFB_056
NA
IL_4V8Q_1771/BA/1401:1404,
1/BA/1497:1501		No text annotation
Not in a motif group		geometric
IL_4V88_464
IL_99670.1
IL_4V8Q_1781/BA/1405:1407,
1/BA/1494:1496		No text annotation
Not in a motif group		geometric
IL_5MWI_007
IL_95997.1
IL_4V8Q_1791/BA/1407:1409,
1/BA/1491:1494		Not an internal loop
Not in a motif group		geometric
IL_5VCI_005
IL_82842.2
IL_4V8Q_1801/BA/1409:1412,
1/BA/1488:1491		Tandem non-canonical cWW pairs
Not in a motif group		geometric
IL_1D4R_001
IL_30621.2
IL_4V8Q_1811/BA/1412:1414,
1/BA/1486:1488		No text annotation
Not in a motif group		homologous
IL_5J7L_061
IL_95997.1
IL_4V8Q_1821/BA/1416:1419,
1/BA/1481:1484		Double sheared
Not in a motif group		homologous
IL_5J7L_062
IL_09705.9
IL_4V8Q_1831/BA/1431:1435,
1/BA/1466:1469		UAA/GAN variation
Not in a motif group		homologous
IL_4LFB_062
IL_07235.1
IL_4V8Q_1841/BA/1435:1437,
1/BA/1464:1466		No text annotation
Not in a motif group		geometric
IL_4LFB_063
IL_95997.1
IL_4V8Q_1851/BA/1440:1443,
1/BA/1459:1461		No text annotation
Not in a motif group		homologous
IL_4LFB_064
IL_92788.2
IL_4V8Q_1881/BY/20:22,
1/BY/56:58		No text annotation
IL_95997.1

Problematic loops

#loop idProblemSequence
IL_4V8Q_051No text annotation
IL_4V8Q_059No text annotation
IL_4V8Q_085No text annotation
IL_4V8Q_086Single stack bend
IL_4V8Q_087No text annotation
IL_4V8Q_088No text annotation
IL_4V8Q_089Isolated cWH basepair
IL_4V8Q_090Single stack bend
IL_4V8Q_091Single stack bend
IL_4V8Q_104No text annotation
IL_4V8Q_160Isolated cWS basepair
IL_4V8Q_168No text annotation
IL_4V8Q_171CA cWW
IL_4V8Q_186No text annotation
IL_4V8Q_187No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V8Q_0011/AA/683:689,
1/AA/773:775,
1/AA/791:794		No text annotation
Not in a motif group
J3_4V8Q_0021/AA/698:700,
1/AA/732:736,
1/AA/760:763		No text annotation
Not in a motif group
J3_4V8Q_0031/AA/1298:1303,
1/AA/1625:1627,
1/AA/1639:1642		No text annotation
Not in a motif group		homologous
J3_7RQB_007
NA
J3_4V8Q_0041/AA/1306:1309,
1/AA/1605:1611,
1/AA/1620:1622		No text annotation
Not in a motif group		homologous
J3_7RQB_008
NA
J3_4V8Q_0051/AA/2091:2093,
1/AA/2196:2200,
1/AA/2223:2228		No text annotation
Not in a motif group		homologous
J3_7RQB_010
NA
J3_4V8Q_0061/AA/2295:2297,
1/AA/2321:2323,
1/AA/2332:2337		No text annotation
Not in a motif group
J3_4V8Q_0071/AA/2517:2520,
1/AA/2545:2547,
1/AA/2561:2567		No text annotation
Not in a motif group
J3_4V8Q_0081/AB/11:18,
1/AB/65:70,
1/AB/107:110		No text annotation
Not in a motif group
J3_4V8Q_0091/BA/826:829,
1/BA/857:861,
1/BA/868:874		No text annotation
Not in a motif group		homologous
J3_4LFB_001
NA
J3_4V8Q_0101/BA/936:939,
1/BA/1344:1350,
1/BA/1372:1379		No text annotation
Not in a motif group		homologous
J3_4LFB_002
NA
J3_4V8Q_0111/BA/943:946,
1/BA/1235:1237,
1/BA/1337:1340		No text annotation
Not in a motif group		homologous
J3_4LFB_003
NA
J3_4V8Q_0121/BA/955:962,
1/BA/973:984,
1/BA/1221:1225		No text annotation
Not in a motif group
J3_4V8Q_0131/BA/990:993,
1/BA/1045:1047,
1/BA/1210:1215		No text annotation
Not in a motif group
J3_4V8Q_0141/BA/1063:1068,
1/BA/1107:1113,
1/BA/1187:1193		No text annotation
Not in a motif group
J3_4V8Q_0151/BA/1116:1118,
1/BA/1155:1158,
1/BA/1181:1184		No text annotation
Not in a motif group
J3_4V8Q_0161/BA/1237:1241,
1/BA/1296:1303,
1/BA/1334:1337		No text annotation
Not in a motif group

Problematic loops

No problematic loops


Coloring options:
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