RNA 3D Hub //

4V79 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V79_0011/A1/13:22tRNA D-loop
homologous
HL_6JXM_001
HL_20811.4
HL_4V79_0021/A1/31:39tRNA anticodon loop
homologous
HL_5IBB_210
HL_06059.7
HL_4V79_0031/A1/53:61T-loop with 2 stacked bulged bases
homologous
HL_5IB8_209
HL_28252.9
HL_4V79_0041/A3/13:23No text annotation
HL_4V79_0051/A3/32:40tRNA anticodon loop
homologous
HL_4YCO_002
HL_06059.7
HL_4V79_0061/A3/54:62T-loop with 2 stacked bulged bases
homologous
HL_5L4O_003
NA
HL_4V79_0071/AA/12:22No text annotation
homologous
HL_5J7L_001
HL_89881.5
HL_4V79_0081/AA/83:86Mini UNCG
geometric
HL_4V88_192
NA
HL_4V79_0091/AA/158:163GNRA
homologous
HL_5J7L_003
HL_37824.8
HL_4V79_0101/AA/186:191GNRA
homologous
HL_5J7L_004
HL_37824.8
HL_4V79_0111/AA/207:212No text annotation
geometric
HL_5TBW_006
NA
HL_4V79_0121/AA/259:267GNRA related
homologous
HL_4LFB_006
HL_84299.4
HL_4V79_0131/AA/296:301GNRA
homologous
HL_4LFB_007
HL_37824.8
HL_4V79_0141/AA/320:333No text annotation
homologous
HL_4LFB_008
HL_81205.3
HL_4V79_0151/AA/342:347UNCG
homologous
HL_6CZR_080
NA
HL_4V79_0161/AA/379:384No text annotation
geometric
HL_7RQB_011
NA
HL_4V79_0171/AA/419:424UNCG
homologous
HL_5J7L_011
HL_34617.5
HL_4V79_0181/AA/460:472No text annotation
HL_4V79_0191/AA/522:527GNRA
geometric
HL_3PDR_001
HL_37824.8
HL_4V79_0201/AA/617:623GNRA-like with tWH
homologous
HL_5J7L_014
HL_10453.3
HL_4V79_0211/AA/689:698No text annotation
geometric
HL_5J7L_015
HL_75293.5
HL_4V79_0221/AA/726:731GNRA
homologous
HL_6CZR_087
NA
HL_4V79_0231/AA/786:796No text annotation
homologous
HL_5J7L_017
HL_75293.5
HL_4V79_0241/AA/840:846Mini UNCG
homologous
HL_4LFB_018
HL_48778.2
HL_4V79_0251/AA/862:867GNRA
homologous
HL_4LFB_019
HL_37824.8
HL_4V79_0261/AA/897:902GNRA
homologous
HL_4LFB_020
HL_37824.8
HL_4V79_0271/AA/962:973No text annotation
HL_4V79_0281/AA/1012:1017GNRA
homologous
HL_4LFB_022
HL_37824.8
HL_4V79_0291/AA/1028:1033No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_4V79_0301/AA/1076:1081GNRA
homologous
HL_5J7L_023
HL_37824.8
HL_4V79_0311/AA/1089:1096T-loop related
homologous
HL_4LFB_025
HL_77436.5
HL_4V79_0321/AA/1134:1140No text annotation
homologous
HL_4LFB_026
HL_87954.2
HL_4V79_0331/AA/1165:1171GNRA
homologous
HL_4LFB_027
HL_37824.8
HL_4V79_0341/AA/1265:1270No text annotation
homologous
HL_6CZR_099
NA
HL_4V79_0351/AA/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
HL_02887.3
HL_4V79_0361/AA/1356:1366No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_4V79_0371/AA/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_4V79_0381/AA/1515:1520GNRA
homologous
HL_4LFB_032
HL_37824.8
HL_4V79_0391/BA/59:68Pseudoknot with intercalation
homologous
HL_7A0S_001
HL_93438.2
HL_4V79_0401/BA/87:95No text annotation
homologous
HL_5J7L_135
HL_80241.1
HL_4V79_0411/BA/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_4V79_0421/BA/137:142No text annotation
HL_4V79_0431/BA/158:168No text annotation
HL_4V79_0441/BA/194:201No text annotation
homologous
HL_7A0S_006
HL_30068.2
HL_4V79_0451/BA/225:230No text annotation
homologous
HL_7A0S_007
HL_53890.2
HL_4V79_0461/BA/246:252No text annotation
homologous
HL_5J7L_141
HL_37369.2
HL_4V79_0471/BA/305:312T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
HL_01609.3
HL_4V79_0481/BA/319:323No text annotation
homologous
HL_5J7L_143
HL_75660.5
HL_4V79_0491/BA/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
HL_27670.2
HL_4V79_0501/BA/382:392No text annotation
homologous
HL_7A0S_013
HL_91503.7
HL_4V79_0511/BA/410:417No text annotation
homologous
HL_7RQB_014
NA
HL_4V79_0521/BA/462:467GNRA
homologous
HL_4WF9_015
HL_37824.8
HL_4V79_0531/BA/487:493GNRA
homologous
HL_5J7L_148
HL_37824.8
HL_4V79_0541/BA/543:550No text annotation
homologous
HL_7RQB_017
NA
HL_4V79_0551/BA/564:577No text annotation
HL_4V79_0561/BA/611:617No text annotation
homologous
HL_5J7L_151
HL_80922.2
HL_4V79_0571/BA/629:634GNRA
homologous
HL_5J7L_152
HL_37824.8
HL_4V79_1101/BA/641:647No text annotation
geometric
HL_8C3A_054
NA
HL_4V79_0591/BA/712:719T-loop with 1 bulged base
geometric
HL_4V88_191
NA
HL_4V79_0601/BA/744:753No text annotation
homologous
HL_4WF9_023
HL_88205.2
HL_4V79_0611/BA/779:785UNCG variation
geometric
HL_2CZJ_007
NA
HL_4V79_0621/BA/826:831No text annotation
homologous
HL_5J7L_157
HL_55195.3
HL_4V79_0631/BA/885:891No text annotation
HL_4V79_0641/BA/955:962GNRA
homologous
HL_7A0S_026
HL_37824.8
HL_4V79_0651/BA/978:985No text annotation
homologous
HL_5J7L_160
HL_42998.2
HL_4V79_0661/BA/1064:1074No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_4V79_0671/BA/1092:1099GNRA related
homologous
HL_7A0S_029
HL_77436.5
HL_4V79_0681/BA/1172:1177No text annotation
geometric
HL_5TBW_018
NA
HL_4V79_0691/BA/1222:1227GNRA
homologous
HL_5J7L_164
HL_37824.8
HL_4V79_0701/BA/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
HL_28252.9
HL_4V79_0711/BA/1324:1330Pseudoknot geometry with 3' bulge
geometric
HL_4V9F_035
HL_57176.2
HL_4V79_0721/BA/1363:1368GNRA
homologous
HL_7RQB_035
NA
HL_4V79_1141/BA/1389:1398No text annotation
homologous
HL_5J7L_168
HL_81545.2
HL_4V79_0741/BA/1450:1461No text annotation
geometric
HL_4V9F_011
HL_75660.5
HL_4V79_0751/BA/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
HL_57176.2
HL_4V79_0761/BA/1533:1538No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_4V79_0771/BA/1565:1568No text annotation
homologous
HL_7RQB_039
NA
HL_4V79_0781/BA/1612:1619No text annotation
homologous
HL_7A0S_040
HL_89567.2
HL_4V79_0791/BA/1630:1636GNRA
homologous
HL_5J7L_174
HL_37824.8
HL_4V79_0801/BA/1691:1696UNCG
geometric
HL_2HW8_001
HL_34617.5
HL_4V79_0811/BA/1728:1731No text annotation
HL_4V79_0821/BA/1752:1756No text annotation
homologous
HL_7RQB_044
NA
HL_4V79_0831/BA/1777:1787No text annotation
homologous
HL_4WF9_043
HL_01962.2
HL_4V79_0841/BA/1806:1811GNRA related
homologous
HL_5J7L_179
HL_04783.2
HL_4V79_0851/BA/1868:1873UNCG variation
geometric
HL_1P6V_001
HL_53890.2
HL_4V79_0861/BA/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_4V79_0871/BA/1949:1957No text annotation
homologous
HL_7A0S_048
HL_20167.2
HL_4V79_0881/BA/2027:2036No text annotation
homologous
HL_4WF9_047
HL_61996.3
HL_4V79_0891/BA/2143:2148UNCG
homologous
HL_3U4M_001
HL_34617.5
HL_4V79_0901/BA/2209:2215No text annotation
homologous
HL_5J7L_185
HL_49922.4
HL_4V79_0911/BA/2248:2256No text annotation
homologous
HL_7A0S_052
HL_85367.2
HL_4V79_0921/BA/2264:2276No text annotation
homologous
HL_4WF9_050
HL_91939.2
HL_4V79_1111/BA/2303:2313No text annotation
HL_4V79_1121/BA/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
HL_93324.4
HL_4V79_0951/BA/2356:2361GNRA
homologous
HL_5J7L_190
HL_37824.8
HL_4V79_0961/BA/2374:2379GNRA
homologous
HL_4WF9_054
HL_37824.8
HL_4V79_0971/BA/2404:2413No text annotation
homologous
HL_7A0S_058
HL_53454.2
HL_4V79_0981/BA/2471:2479No text annotation
homologous
HL_4WF9_056
HL_32735.2
HL_4V79_0991/BA/2528:2535GNRA variation
homologous
HL_4WF9_057
HL_31585.4
HL_4V79_1001/BA/2551:2557No text annotation
homologous
HL_7A0S_061
HL_30068.2
HL_4V79_1011/BA/2594:2599GNRA
homologous
HL_5J7L_196
HL_37824.8
HL_4V79_1021/BA/2658:2663GNRA related
geometric
HL_3OXE_002
HL_04783.2
HL_4V79_1031/BA/2700:2707No text annotation
geometric
HL_4LFB_002
HL_31585.4
HL_4V79_1041/BA/2745:2759No text annotation
homologous
HL_5J7L_199
HL_74055.2
HL_4V79_1051/BA/2796:2800No text annotation
geometric
HL_6U8D_003
HL_32346.4
HL_4V79_1061/BA/2819:2827No text annotation
homologous
HL_5J7L_201
HL_64690.6
HL_4V79_1071/BA/2856:2861GNRA
homologous
HL_5J7L_202
HL_37824.8
HL_4V79_1131/BB/34:48No text annotation
homologous
HL_8C3A_228
NA
HL_4V79_1081/BB/38:44No text annotation
homologous
HL_5J7L_203
HL_47787.2
HL_4V79_1091/BB/86:90Mini UNCG
homologous
HL_5J7L_204
HL_48778.2

Problematic loops

#loop idProblemSequence
HL_4V79_058No text annotation
HL_4V79_073No text annotation
HL_4V79_093No text annotation
HL_4V79_094No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V79_0011/AA/30:32,
1/AA/552:553		Single bulged G
homologous
IL_6CZR_113
NA
IL_4V79_0021/AA/44:46,
1/AA/395:398		Isolated non-canonical cWW with bulges
geometric
IL_4V9F_097
IL_07785.1
IL_4V79_0031/AA/47:52,
1/AA/359:361		No text annotation
geometric
IL_4LFB_003
IL_14177.2
IL_4V79_0041/AA/54:56,
1/AA/356:357		Single stack bend
geometric
IL_5J7L_269
IL_26793.1
IL_4V79_0051/AA/63:66,
1/AA/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_82107.5
IL_4V79_0061/AA/67:69,
1/AA/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
IL_90351.1
IL_4V79_0071/AA/70:73,
1/AA/97:98		Minor groove platform
homologous
IL_5J7L_007
IL_15052.4
IL_4V79_0081/AA/75:76,
1/AA/93:95		Major groove intercalation
geometric
IL_7A0S_099
IL_00225.14
IL_4V79_0091/AA/128:131,
1/AA/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
IL_57744.1
IL_4V79_0101/AA/132:136,
1/AA/227:230		Minor groove platform related
homologous
IL_5J7L_010
IL_64231.5
IL_4V79_0111/AA/144:146,
1/AA/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
IL_10167.6
IL_4V79_0121/AA/147:153,
1/AA/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_4V79_0131/AA/203:206,
1/AA/213:214		Minor groove platform
geometric
IL_3MXH_005
IL_15052.4
IL_4V79_0141/AA/242:247,
1/AA/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_4V79_0151/AA/249:252,
1/AA/274:275		No text annotation
homologous
IL_5J7L_015
IL_47074.2
IL_4V79_0161/AA/292:293,
1/AA/304:308		C-loop
homologous
IL_6CZR_125
NA
IL_4V79_0171/AA/367:369,
1/AA/392:393		Single bulged U
homologous
IL_4LFB_014
IL_89505.4
IL_4V79_0181/AA/371:375,
1/AA/389:390		C-loop
homologous
IL_5J7L_018
IL_03109.3
IL_4V79_0191/AA/375:376,
1/AA/387:389		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_4V79_1721/AA/409:416,
1/AA/427:433		No text annotation
homologous
IL_4LFB_017
IL_28026.3
IL_4V79_0211/AA/440:442,
1/AA/492:497		No text annotation
homologous
IL_5J7L_021
IL_33323.1
IL_4V79_0221/AA/446:450,
1/AA/483:488		tSH-tHW-tWW
homologous
IL_5J7L_022
IL_88269.4
IL_4V79_1731/AA/450:456,
1/AA/476:483		No text annotation
IL_4V79_0231/AA/504:511,
1/AA/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
IL_41203.4
IL_4V79_0241/AA/515:521,
1/AA/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_4V79_0251/AA/569:575,
1/AA/880:881		No text annotation
homologous
IL_4LFB_022
IL_38186.6
IL_4V79_0261/AA/580:584,
1/AA/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
IL_17136.7
IL_4V79_0271/AA/594:596,
1/AA/644:645		Major groove platform
homologous
IL_5J7L_028
IL_48076.6
IL_4V79_0281/AA/597:598,
1/AA/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_4V79_1861/AA/605:612,
1/AA/628:633		No text annotation
homologous
IL_5J7L_030
IL_78349.3
IL_4V79_0301/AA/654:655,
1/AA/751:754		Major groove platform; stack outside cWW
homologous
IL_5J7L_031
IL_50694.7
IL_4V79_0311/AA/659:660,
1/AA/745:747		Single stack bend
homologous
IL_5J7L_032
IL_26793.1
IL_4V79_0321/AA/662:667,
1/AA/739:743		No text annotation
IL_4V79_0331/AA/684:689,
1/AA/698:706		No text annotation
IL_4V79_0341/AA/774:778,
1/AA/804:805		Left turn
homologous
IL_6CZR_144
NA
IL_4V79_0351/AA/779:783,
1/AA/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
IL_17136.7
IL_4V79_0361/AA/887:894,
1/AA/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_4V79_1871/AA/922:923,
1/AA/1393:1395		Single bulged A
homologous
IL_4LFB_035
IL_31462.7
IL_4V79_0381/AA/924:927,
1/AA/1390:1392		No text annotation
IL_4V79_0391/AA/933:936,
1/AA/1379:1384		No text annotation
IL_4V79_0401/AA/953:954,
1/AA/1226:1228		No text annotation
IL_4V79_1741/AA/955:984,
1/AA/1221:1225		No text annotation
IL_4V79_1751/AA/993:997,
1/AA/1044:1045		Minor groove platform
homologous
IL_5J7L_043
IL_47078.3
IL_4V79_0411/AA/997:999,
1/AA/1041:1044		No text annotation
geometric
IL_4V87_185
NA
IL_4V79_0421/AA/1048:1050,
1/AA/1208:1209		Single bulged U
homologous
IL_4LFB_042
IL_89505.4
IL_4V79_1761/AA/1052:1056,
1/AA/1204:1206		No text annotation
homologous
IL_6CZR_154
NA
IL_4V79_0441/AA/1057:1058,
1/AA/1199:1203		Minor groove platform
homologous
IL_5J7L_048
IL_95583.2
IL_4V79_0451/AA/1059:1061,
1/AA/1195:1198		No text annotation
IL_4V79_0461/AA/1061:1063,
1/AA/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
IL_28037.2
IL_4V79_0471/AA/1124:1128,
1/AA/1144:1149		No text annotation
homologous
IL_5J7L_051
IL_06691.1
IL_4V79_0481/AA/1129:1132,
1/AA/1142:1143		Minor groove platform
homologous
IL_5J7L_052
IL_15052.4
IL_4V79_0491/AA/1158:1161,
1/AA/1175:1181		No text annotation
homologous
IL_4LFB_050
IL_42032.1
IL_4V79_0501/AA/1247:1253,
1/AA/1284:1290		No text annotation
homologous
IL_5J7L_054
IL_09129.2
IL_4V79_1771/AA/1253:1255,
1/AA/1282:1284		Isolated cWH basepair
geometric
IL_8C3A_413
NA
IL_4V79_0511/AA/1255:1258,
1/AA/1277:1282		180 degree turn
homologous
IL_4LFB_052
IL_11344.2
IL_4V79_0521/AA/1259:1263,
1/AA/1272:1276		Double sheared with non-canonical cWW
homologous
IL_5J7L_056
IL_17948.2
IL_4V79_0531/AA/1303:1308,
1/AA/1329:1334		No text annotation
homologous
IL_6CZR_164
NA
IL_4V79_0541/AA/1399:1401,
1/AA/1501:1504		No text annotation
homologous
IL_5J7L_058
IL_61438.4
IL_4V79_0551/AA/1401:1404,
1/AA/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_4V79_0561/AA/1405:1407,
1/AA/1494:1496		Isolated non-canonical cWW pair
geometric
IL_4E48_004
IL_87907.2
IL_4V79_0571/AA/1407:1409,
1/AA/1491:1494		Isolated non-canonical cWW pair
homologous
IL_5J7L_363
IL_87907.2
IL_4V79_0581/AA/1412:1414,
1/AA/1486:1488		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_4V79_0591/AA/1416:1419,
1/AA/1481:1484		Double sheared
homologous
IL_4LFB_060
IL_09705.15
IL_4V79_0601/AA/1429:1435,
1/AA/1466:1471		No text annotation
IL_4V79_0611/AA/1439:1442,
1/AA/1460:1462		No text annotation
IL_4V79_0621/AA/1445:1448,
1/AA/1455:1457		No text annotation
geometric
IL_4M6D_013
IL_31737.3
IL_4V79_0631/BA/24:30,
1/BA/510:516		No text annotation
IL_4V79_0641/BA/36:37,
1/BA/442:444		Single bulged A
homologous
IL_5J7L_246
IL_31462.7
IL_4V79_0651/BA/43:44,
1/BA/434:436		Minor groove platform
homologous
IL_7RQB_003
NA
IL_4V79_0661/BA/81:85,
1/BA/97:105		No text annotation
IL_4V79_0671/BA/183:184,
1/BA/212:214		Single stack bend
homologous
IL_5J7L_249
IL_90729.1
IL_4V79_0681/BA/188:194,
1/BA/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_7RQB_006
NA
IL_4V79_0691/BA/239:245,
1/BA/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_007
NA
IL_4V79_0701/BA/269:271,
1/BA/366:370		No text annotation
homologous
IL_5J7L_252
IL_47972.1
IL_4V79_0711/BA/274:281,
1/BA/359:363		No text annotation
IL_4V79_0721/BA/293:295,
1/BA/343:347		No text annotation
homologous
IL_4WF9_014
IL_69440.3
IL_4V79_0731/BA/536:539,
1/BA/554:557		Double sheared
homologous
IL_4WF9_016
IL_09705.15
IL_4V79_0741/BA/606:610,
1/BA/618:622		AAA cross-strand stack
homologous
IL_7RQB_016
NA
IL_4V79_0751/BA/672:674,
1/BA/806:808		Isolated non-canonical cWW pair
homologous
IL_5J7L_259
IL_87907.2
IL_4V79_0761/BA/674:678,
1/BA/799:806		tHW-tHW cross-strand stack
geometric
IL_5J7L_260
IL_54041.2
IL_4V79_0771/BA/697:698,
1/BA/763:765		Single bulged A
geometric
IL_7RQB_019
NA
IL_4V79_0781/BA/700:702,
1/BA/730:732		Isolated cWS basepair
geometric
IL_5TBW_047
NA
IL_4V79_0791/BA/702:703,
1/BA/728:730		Single bulged G
geometric
IL_7RQB_020
NA
IL_4V79_0801/BA/703:707,
1/BA/724:728		Triple sheared
geometric
IL_7RQB_021
NA
IL_4V79_0811/BA/738:740,
1/BA/757:758		Major groove platform
homologous
IL_5J7L_264
IL_48076.6
IL_4V79_0821/BA/775:777,
1/BA/787:791		Multiple bulged bases
homologous
IL_7RQB_023
NA
IL_4V79_0831/BA/837:838,
1/BA/940:942		Single stack bend
homologous
IL_7RQB_024
NA
IL_4V79_0841/BA/844:848,
1/BA/930:934		No text annotation
IL_4V79_1791/BA/850:851,
1/BA/926:928		Single stack bend
homologous
IL_5J7L_269
IL_26793.1
IL_4V79_0861/BA/856:862,
1/BA/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_4WF9_031
IL_29198.2
IL_4V79_0871/BA/862:863,
1/BA/913:915		Single bulged G
homologous
IL_5J7L_271
IL_00225.14
IL_4V79_0881/BA/864:868,
1/BA/909:912		C-loop
homologous
IL_4WF9_033
IL_26222.2
IL_4V79_0891/BA/870:872,
1/BA/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
IL_28037.2
IL_4V79_0901/BA/875:879,
1/BA/898:902		Double sheared with non-canonical cWW
homologous
IL_5J7L_274
IL_17948.2
IL_4V79_0911/BA/880:881,
1/BA/895:897		No text annotation
IL_4V79_0921/BA/993:998,
1/BA/1157:1161		No text annotation
IL_4V79_0931/BA/998:1002,
1/BA/1153:1157		UAA/GAN
geometric
IL_5J7L_277
IL_38507.2
IL_4V79_0941/BA/1004:1011,
1/BA/1150:1151		SSU/LSU pseudoknot
homologous
IL_5J7L_278
IL_41203.4
IL_4V79_0951/BA/1011:1013,
1/BA/1149:1150		Single bulged U
geometric
IL_7RQB_038
NA
IL_4V79_0961/BA/1018:1024,
1/BA/1140:1144		Kink-turn related
homologous
IL_4WF9_039
IL_57188.5
IL_4V79_0971/BA/1024:1030,
1/BA/1124:1140		No text annotation
homologous
IL_4WF9_040
IL_50715.3
IL_4V79_0981/BA/1031:1034,
1/BA/1121:1123		Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_4V79_0991/BA/1038:1041,
1/BA/1114:1117		Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
IL_85033.2
IL_4V79_1001/BA/1043:1051,
1/BA/1108:1112		Kink-turn
homologous
IL_5J7L_284
IL_99692.2
IL_4V79_1011/BA/1059:1062,
1/BA/1076:1079		No text annotation
IL_4V79_1021/BA/1087:1090,
1/BA/1101:1102		Multiple bulged bases
geometric
IL_6IV9_001
IL_82107.5
IL_4V79_1031/BA/1196:1198,
1/BA/1247:1250		Isolated cWS basepair
homologous
IL_7A0S_041
IL_42997.3
IL_4V79_1041/BA/1202:1206,
1/BA/1240:1243		No text annotation
IL_4V79_1051/BA/1208:1215,
1/BA/1234:1238		Kink-turn
homologous
IL_7A0S_043
IL_70923.9
IL_4V79_1881/BA/1319:1323,
1/BA/1331:1333		Major groove minor groove platform with tHH
homologous
IL_4WF9_050
IL_83150.2
IL_4V79_1071/BA/1351:1355,
1/BA/1376:1380		UAA/GAN
homologous
IL_5J7L_292
IL_89021.2
IL_4V79_1081/BA/1357:1361,
1/BA/1370:1374		tSH-tHW-tHS
homologous
IL_4WF9_052
IL_17136.7
IL_4V79_1091/BA/1415:1416,
1/BA/1582:1587		No text annotation
homologous
IL_5J7L_294
IL_87211.1
IL_4V79_1101/BA/1417:1421,
1/BA/1577:1581		UAA/GAN
homologous
IL_5J7L_295
IL_38507.2
IL_4V79_1111/BA/1432:1435,
1/BA/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
IL_58112.2
IL_4V79_1121/BA/1437:1440,
1/BA/1551:1555		tSH-tHW
homologous
IL_7A0S_053
IL_99646.2
IL_4V79_1131/BA/1468:1471,
1/BA/1520:1524		No text annotation
homologous
IL_5J7L_299
IL_68574.4
IL_4V79_1141/BA/1474:1478,
1/BA/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
IL_38862.4
IL_4V79_1151/BA/1481:1482,
1/BA/1507:1510		180 degree turn
homologous
IL_5J7L_301
IL_00881.1
IL_4V79_1161/BA/1489:1491,
1/BA/1499:1500		Single bulged A
homologous
IL_5J7L_302
IL_31462.7
IL_4V79_1171/BA/1526:1530,
1/BA/1541:1546		No text annotation
IL_4V79_1181/BA/1651:1656,
1/BA/2004:2006		No text annotation
homologous
IL_7RQB_064
NA
IL_4V79_1191/BA/1663:1665,
1/BA/1995:1997		Isolated tWW turn
homologous
IL_4WF9_063
IL_67095.2
IL_4V79_1201/BA/1666:1669,
1/BA/1993:1994		Major groove platform; stack outside cWW
homologous
IL_4WF9_064
IL_50694.7
IL_4V79_1801/BA/1666:1674,
1/BA/1990:1994		No text annotation
homologous
IL_4WF9_117
IL_22854.4
IL_4V79_1211/BA/1669:1674,
1/BA/1990:1993		Intercalated tWH
geometric
IL_4V9F_062
IL_76758.2
IL_4V79_1221/BA/1686:1691,
1/BA/1696:1702		tSH-tSH-tHH-tHS
homologous
IL_7RQB_068
NA
IL_4V79_1231/BA/1712:1718,
1/BA/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
IL_88269.4
IL_4V79_1241/BA/1720:1724,
1/BA/1736:1740		Triple sheared
homologous
IL_5J7L_310
IL_50730.2
IL_4V79_1251/BA/1727:1728,
1/BA/1731:1733		Single bulged C
homologous
IL_5J7L_311
IL_61258.15
IL_4V79_1261/BA/1770:1771,
1/BA/1980:1982		Single bulged A
homologous
IL_4WF9_068
IL_31462.7
IL_4V79_1271/BA/1798:1804,
1/BA/1813:1821		Kink-turn related
homologous
IL_7RQB_070
NA
IL_4V79_1281/BA/1837:1840,
1/BA/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_7RQB_071
NA
IL_4V79_1291/BA/1841:1842,
1/BA/1898:1901		Major groove intercalation
homologous
IL_4WF9_071
IL_82107.5
IL_4V79_1891/BA/1846:1849,
1/BA/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_4WF9_072
IL_68140.4
IL_4V79_1811/BA/1851:1860,
1/BA/1882:1891		No text annotation
homologous
IL_5J7L_387
IL_61249.1
IL_4V79_1311/BA/1864:1867,
1/BA/1874:1878		UAA/GAN related
homologous
IL_5J7L_317
IL_77691.5
IL_4V79_1321/BA/1933:1934,
1/BA/1964:1967		Multiple bulged bases
geometric
IL_7V9E_001
NA
IL_4V79_1331/BA/1934:1945,
1/BA/1961:1964		No text annotation
homologous
IL_4WF9_077
IL_42218.2
IL_4V79_1341/BA/2050:2052,
1/BA/2617:2618		Major groove platform
homologous
IL_5J7L_320
IL_48076.6
IL_4V79_1351/BA/2054:2056,
1/BA/2612:2615		No text annotation
homologous
IL_4WF9_079
IL_83389.2
IL_4V79_1361/BA/2067:2069,
1/BA/2442:2443		Single bulged U
homologous
IL_7RQB_080
NA
IL_4V79_1371/BA/2070:2071,
1/BA/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_4V79_1381/BA/2081:2084,
1/BA/2235:2239		No text annotation
IL_4V79_1391/BA/2084:2087,
1/BA/2232:2235		Tandem non-canonical cWW pairs
geometric
IL_5TBW_129
NA
IL_4V79_1401/BA/2103:2105,
1/BA/2184:2186		Stack and bulge
geometric
IL_2ET8_001
IL_31737.3
IL_4V79_1411/BA/2108:2110,
1/BA/2179:2181		Isolated non-canonical cWW pair
homologous
IL_3U4M_001
IL_28037.2
IL_4V79_1421/BA/2110:2120,
1/BA/2178:2179		Multiple bulged bases
geometric
IL_5TBW_119
NA
IL_4V79_1431/BA/2124:2127,
1/BA/2161:2174		No text annotation
IL_4V79_1441/BA/2128:2137,
1/BA/2154:2160		No text annotation
IL_4V79_1451/BA/2202:2204,
1/BA/2220:2221		Single bulged U
homologous
IL_5J7L_331
IL_89505.4
IL_4V79_1461/BA/2297:2299,
1/BA/2317:2321		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_4V79_1471/BA/2350:2353,
1/BA/2364:2367		Double sheared
homologous
IL_7RQB_089
NA
IL_4V79_1481/BA/2401:2403,
1/BA/2414:2415		No text annotation
IL_4V79_1491/BA/2454:2455,
1/BA/2496:2498		Major groove platform
homologous
IL_7A0S_084
IL_48076.6
IL_4V79_1501/BA/2457:2461,
1/BA/2489:2494		No text annotation
IL_4V79_1511/BA/2466:2470,
1/BA/2480:2484		Double sheared with non-canonical cWW
homologous
IL_5J7L_338
IL_17948.2
IL_4V79_1831/BA/2507:2508,
1/BA/2580:2582		Major groove platform
homologous
IL_7A0S_088
IL_07039.3
IL_4V79_1531/BA/2510:2512,
1/BA/2574:2578		Isolated non-canonical cWW with bulges
homologous
IL_5J7L_340
IL_07785.1
IL_4V79_1541/BA/2512:2513,
1/BA/2571:2574		No text annotation
geometric
IL_5J7L_341
IL_42626.2
IL_4V79_1841/BA/2522:2523,
1/BA/2540:2543		Major groove platform with intercalation
homologous
IL_5J7L_342
IL_02555.1
IL_4V79_1561/BA/2591:2592,
1/BA/2601:2603		Single bulged A
geometric
IL_4L8H_001
IL_31462.7
IL_4V79_1571/BA/2636:2640,
1/BA/2774:2782		tSH-tHS-tHW
homologous
IL_4WF9_099
IL_04638.3
IL_4V79_1581/BA/2652:2658,
1/BA/2663:2668		No text annotation
IL_4V79_1591/BA/2680:2684,
1/BA/2725:2727		C-loop
homologous
IL_7A0S_095
IL_63596.11
IL_4V79_1601/BA/2687:2691,
1/BA/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
IL_23774.1
IL_4V79_1611/BA/2695:2696,
1/BA/2711:2714		Multiple bulged bases
homologous
IL_4WF9_103
IL_42626.2
IL_4V79_1621/BA/2737:2742,
1/BA/2762:2767		UAA/GAN with extra cWW
homologous
IL_4WF9_104
IL_49767.8
IL_4V79_1631/BA/2806:2811,
1/BA/2889:2892		No text annotation
geometric
IL_5J7L_351
IL_29471.1
IL_4V79_1851/BA/2838:2839,
1/BA/2878:2880		Major groove intercalation
homologous
IL_5J7L_352
IL_66635.5
IL_4V79_1651/BA/2843:2846,
1/BA/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
IL_64231.5
IL_4V79_1661/BA/2847:2852,
1/BA/2865:2869		No text annotation
homologous
IL_7A0S_101
IL_70411.2
IL_4V79_1671/BB/17:18,
1/BB/65:67		Major groove intercalation
homologous
IL_7RQB_111
NA
IL_4V79_1681/BB/23:28,
1/BB/56:60		No text annotation
homologous
IL_5J7L_356
IL_18472.4
IL_4V79_1691/BB/30:31,
1/BB/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_4V9F_103
IL_68140.4
IL_4V79_1701/BB/34:38,
1/BB/44:48		Symmetric double minor groove platform
homologous
IL_4V9F_104
IL_58103.11
IL_4V79_1711/BB/71:79,
1/BB/97:105		Bacterial 5S Loop E
homologous
IL_7RQB_115
NA

Problematic loops

#loop idProblemSequence
IL_4V79_020No text annotation
IL_4V79_029No text annotation
IL_4V79_037Tandem non-canonical cWW pairs
IL_4V79_043Tandem non-canonical cWW pairs
IL_4V79_178Isolated non-canonical cWW pair
IL_4V79_085No text annotation
IL_4V79_106No text annotation
IL_4V79_130No text annotation
IL_4V79_182No text annotation
IL_4V79_152No text annotation
IL_4V79_155No text annotation
IL_4V79_164Isolated non-canonical cWW with bulges

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V79_0011/AA/46:47,
1/AA/361:367,
1/AA/393:395		No text annotation
homologous
J3_5J7L_001
J3_67856.4
J3_4V79_0241/AA/46:52,
1/AA/359:367,
1/AA/393:395		No text annotation
homologous
J3_5J7L_050
J3_46317.4
J3_4V79_0251/AA/585:588,
1/AA/651:654,
1/AA/754:756		No text annotation
J3_4V79_0261/AA/585:588,
1/AA/651:655,
1/AA/751:756		No text annotation
J3_4V79_0021/AA/586:588,
1/AA/651:654,
1/AA/754:755		No text annotation
J3_4V79_0271/AA/672:678,
1/AA/712:725,
1/AA/732:734		No text annotation
J3_4V79_0031/AA/826:829,
1/AA/857:861,
1/AA/868:874		No text annotation
homologous
J3_5J7L_004
J3_85054.4
J3_4V79_0391/AA/936:939,
1/AA/1344:1350,
1/AA/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_25303.4
J3_4V79_0041/AA/943:946,
1/AA/1235:1237,
1/AA/1337:1340		No text annotation
homologous
J3_5J7L_005
J3_52655.4
J3_4V79_0051/AA/955:962,
1/AA/973:984,
1/AA/1221:1225		No text annotation
homologous
J3_4LFB_004
J3_83516.4
J3_4V79_0291/AA/990:993,
1/AA/1045:1047,
1/AA/1210:1215		No text annotation
homologous
J3_5J7L_007
J3_82572.1
J3_4V79_0061/AA/990:997,
1/AA/1044:1047,
1/AA/1210:1215		No text annotation
geometric
J3_5J7L_053
J3_76475.2
J3_4V79_0301/AA/1003:1006,
1/AA/1023:1027,
1/AA/1034:1037		No text annotation
J3_4V79_0081/AA/1063:1068,
1/AA/1107:1113,
1/AA/1187:1193		No text annotation
homologous
J3_5J7L_008
J3_08394.3
J3_4V79_0091/AA/1073:1074,
1/AA/1083:1087,
1/AA/1098:1102		No text annotation
homologous
J3_5J7L_009
J3_76043.3
J3_4V79_0401/AA/1116:1118,
1/AA/1155:1158,
1/AA/1181:1184		No text annotation
J3_4V79_0411/AA/1116:1118,
1/AA/1155:1161,
1/AA/1175:1184		No text annotation
homologous
J3_5J7L_054
J3_17791.2
J3_4V79_0111/AA/1237:1241,
1/AA/1296:1303,
1/AA/1334:1337		No text annotation
homologous
J3_5J7L_011
J3_37047.6
J3_4V79_0321/BA/30:31,
1/BA/474:484,
1/BA/496:510		No text annotation
homologous
J3_9DFE_002
J3_92134.2
J3_4V79_0331/BA/32:35,
1/BA/445:461,
1/BA/468:473		No text annotation
homologous
J3_5J7L_067
J3_30040.2
J3_4V79_0121/BA/56:57,
1/BA/70:76,
1/BA/110:114		No text annotation
homologous
J3_5J7L_037
J3_35667.2
J3_4V79_0341/BA/297:301,
1/BA/316:325,
1/BA/337:341		No text annotation
homologous
J3_5J7L_068
J3_46299.2
J3_4V79_0131/BA/683:689,
1/BA/773:775,
1/BA/791:794		No text annotation
homologous
J3_5J7L_038
J3_64189.2
J3_4V79_0141/BA/698:700,
1/BA/732:736,
1/BA/760:763		No text annotation
homologous
J3_5J7L_039
J3_44724.7
J3_4V79_0151/BA/1055:1057,
1/BA/1081:1087,
1/BA/1102:1104		No text annotation
homologous
J3_7RQB_006
NA
J3_4V79_0161/BA/1298:1303,
1/BA/1625:1627,
1/BA/1639:1642		No text annotation
homologous
J3_5J7L_041
J3_32852.6
J3_4V79_0171/BA/1306:1309,
1/BA/1605:1611,
1/BA/1620:1622		No text annotation
homologous
J3_7RQB_008
NA
J3_4V79_0351/BA/1344:1350,
1/BA/1381:1385,
1/BA/1402:1403		No text annotation
homologous
J3_9DFE_012
J3_31965.2
J3_4V79_0421/BA/1424:1429,
1/BA/1564:1565,
1/BA/1568:1574		No text annotation
homologous
J3_7A0S_019
J3_34864.2
J3_4V79_0181/BA/2091:2093,
1/BA/2196:2200,
1/BA/2223:2228		No text annotation
homologous
J3_9DFE_014
J3_89368.5
J3_4V79_0371/BA/2282:2284,
1/BA/2384:2395,
1/BA/2421:2427		No text annotation
homologous
J3_5J7L_070
J3_20992.1
J3_4V79_0191/BA/2295:2297,
1/BA/2321:2323,
1/BA/2332:2337		No text annotation
homologous
J3_5J7L_045
J3_61124.2
J3_4V79_0381/BA/2295:2299,
1/BA/2317:2323,
1/BA/2332:2337		No text annotation
homologous
J3_5J7L_071
J3_44961.1
J3_4V79_0201/BA/2517:2520,
1/BA/2545:2547,
1/BA/2561:2567		No text annotation
homologous
J3_5J7L_046
J3_32601.5
J3_4V79_0211/BA/2789:2791,
1/BA/2805:2806,
1/BA/2892:2894		No text annotation
homologous
J3_5J7L_047
J3_30104.1
J3_4V79_0221/BA/2812:2815,
1/BA/2831:2836,
1/BA/2882:2888		No text annotation
homologous
J3_5J7L_048
J3_64069.1
J3_4V79_0231/BB/10:16,
1/BB/68:70,
1/BB/106:110		No text annotation
homologous
J3_5J7L_049
J3_89095.1
J4_4V79_0011/A1/7:10,
1/A1/25:27,
1/A1/43:49,
1/A1/65:66		tRNA junction
homologous
J4_4WJ4_001
J4_70449.29
J4_4V79_0021/A3/7:10,
1/A3/26:28,
1/A3/44:50,
1/A3/66:67		tRNA junction
homologous
J4_5HR6_001
J4_70449.29
J4_4V79_0031/AA/115:122,
1/AA/239:240,
1/AA/286:289,
1/AA/311:312		No text annotation
homologous
J4_6CZR_027
NA
J4_4V79_0041/AA/142:144,
1/AA/178:185,
1/AA/192:198,
1/AA/219:221		No text annotation
J4_4V79_0051/AA/575:577,
1/AA/764:769,
1/AA/810:821,
1/AA/879:880		No text annotation
homologous
J4_4LFB_003
J4_61885.6
J4_4V79_0061/BA/268:269,
1/BA/370:375,
1/BA/399:406,
1/BA/421:424		No text annotation
homologous
J4_7A0S_001
J4_45801.6
J4_4V79_0071/BA/297:301,
1/BA/316:319,
1/BA/323:325,
1/BA/337:341		No text annotation
homologous
J4_7A0S_002
J4_71729.5
J4_4V79_0081/BA/601:604,
1/BA/624:628,
1/BA/635:638,
1/BA/650:656		No text annotation
homologous
J4_5J7L_020
J4_60168.1
J4_4V79_0091/BA/1270:1276,
1/BA/1294:1296,
1/BA/1644:1648,
1/BA/2009:2010		No text annotation
J4_4V79_0101/BA/1310:1314,
1/BA/1338:1343,
1/BA/1404:1405,
1/BA/1597:1604		No text annotation
homologous
J4_9DFE_004
J4_69051.6
J4_4V79_0111/BA/1444:1445,
1/BA/1466:1467,
1/BA/1525:1526,
1/BA/1546:1547		No text annotation
homologous
J4_5J7L_024
J4_24280.2
J4_4V79_0161/BA/1772:1776,
1/BA/1788:1792,
1/BA/1827:1830,
1/BA/1975:1979		No text annotation
homologous
J4_5J7L_025
J4_61477.5
J4_4V79_0131/BA/1833:1835,
1/BA/1905:1906,
1/BA/1924:1933,
1/BA/1967:1972		No text annotation
homologous
J4_5J7L_026
J4_93343.1
J4_4V79_0141/BA/2285:2289,
1/BA/2343:2347,
1/BA/2370:2372,
1/BA/2381:2383		No text annotation
homologous
J4_5J7L_027
J4_04930.6
J4_4V79_0151/BA/2643:2646,
1/BA/2674:2676,
1/BA/2731:2735,
1/BA/2769:2771		No text annotation
homologous
J4_9DFE_010
J4_77044.4
J5_4V79_0011/AA/36:39,
1/AA/403:406,
1/AA/436:440,
1/AA/497:500,
1/AA/545:548		No text annotation
homologous
J5_5J7L_001
J5_92941.1
J5_4V79_0021/AA/36:39,
1/AA/403:406,
1/AA/436:442,
1/AA/492:500,
1/AA/545:548		No text annotation
homologous
J5_5J7L_002
J5_67416.1
J5_4V79_0031/AA/58:61,
1/AA/106:113,
1/AA/314:316,
1/AA/337:339,
1/AA/350:354		No text annotation
homologous
J5_5J7L_003
J5_59910.6
J5_4V79_0041/BA/47:54,
1/BA/116:121,
1/BA/130:131,
1/BA/148:150,
1/BA/176:178		No text annotation
homologous
J5_5J7L_013
J5_01737.2
J5_4V79_0051/BA/531:533,
1/BA/560:564,
1/BA/577:579,
1/BA/1261:1269,
1/BA/2011:2018		No text annotation
J5_4V79_0061/BA/584:589,
1/BA/668:671,
1/BA/809:812,
1/BA/1195:1196,
1/BA/1250:1256		No text annotation
homologous
J5_4WF9_004
J5_74302.5
J5_4V79_0071/BA/1674:1682,
1/BA/1706:1707,
1/BA/1751:1752,
1/BA/1756:1764,
1/BA/1988:1990		No text annotation
homologous
J5_5J7L_016
J5_62523.6
J5_4V79_0081/BA/2057:2064,
1/BA/2446:2454,
1/BA/2498:2507,
1/BA/2582:2588,
1/BA/2606:2611		No text annotation
J5_4V79_0091/BA/2074:2077,
1/BA/2243:2246,
1/BA/2258:2259,
1/BA/2281:2282,
1/BA/2427:2435		No text annotation
homologous
J5_7A0S_007
J5_39529.1
J6_4V79_0011/BA/45:46,
1/BA/179:183,
1/BA/214:224,
1/BA/231:235,
1/BA/262:266,
1/BA/426:433		No text annotation
J6_4V79_0021/BA/2074:2077,
1/BA/2243:2246,
1/BA/2258:2259,
1/BA/2281:2284,
1/BA/2384:2395,
1/BA/2421:2435		No text annotation
J7_4V79_0011/BA/8:15,
1/BA/525:531,
1/BA/2018:2023,
1/BA/2040:2043,
1/BA/2625:2631,
1/BA/2787:2789,
1/BA/2894:2895		No text annotation
J7_4V79_0021/BA/817:822,
1/BA/835:837,
1/BA/942:946,
1/BA/971:976,
1/BA/987:991,
1/BA/1163:1164,
1/BA/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_4V79_028No text annotation
J3_4V79_007No text annotation
J3_4V79_010No text annotation
J3_4V79_031No text annotation
J3_4V79_036No text annotation
J4_4V79_012No text annotation

Coloring options:
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