RNA 3D Hub //

5ND8 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5ND8_0011/A/59:68Pseudoknot with intercalation
homologous
HL_7A0S_001
HL_93438.2
HL_5ND8_0021/A/87:95Pseudoknot geometry
homologous
HL_4WF9_002
HL_77600.2
HL_5ND8_0031/A/122:127No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_5ND8_0041/A/136:143GNRA wlth tandem sheared
homologous
HL_4WF9_004
HL_81538.2
HL_5ND8_0051/A/159:169No text annotation
HL_5ND8_0061/A/197:204No text annotation
geometric
HL_4WF9_006
HL_30068.2
HL_5ND8_0071/A/228:233No text annotation
homologous
HL_7A0S_007
HL_53890.2
HL_5ND8_0081/A/249:255No text annotation
homologous
HL_7A0S_008
HL_37369.2
HL_5ND8_0091/A/283:288No text annotation
homologous
HL_4WF9_009
HL_81100.2
HL_5ND8_0101/A/348:355T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
HL_01609.3
HL_5ND8_0111/A/362:366No text annotation
homologous
HL_7RQB_011
NA
HL_5ND8_0121/A/370:378T-loop with unstacked turn
homologous
HL_5J7L_144
HL_27670.2
HL_5ND8_0131/A/427:439No text annotation
homologous
HL_4WF9_013
HL_69139.1
HL_5ND8_0141/A/456:463No text annotation
homologous
HL_7RQB_014
NA
HL_5ND8_0151/A/508:513GNRA
homologous
HL_7RQB_015
NA
HL_5ND8_0161/A/533:538GNRA
homologous
HL_5J7L_148
HL_37824.7
HL_5ND8_0171/A/587:594No text annotation
homologous
HL_4WF9_017
HL_50318.1
HL_5ND8_0181/A/609:618T-loop with 2 stacked bulged bases
homologous
HL_4WF9_018
HL_28252.8
HL_5ND8_0191/A/655:661GNRA related
geometric
HL_5J7L_179
HL_04783.2
HL_5ND8_0201/A/674:679GNRA
homologous
HL_7A0S_020
HL_37824.7
HL_5ND8_0211/A/686:692No text annotation
homologous
HL_7RQB_021
NA
HL_5ND8_0221/A/757:764GNRA wlth tandem sheared
homologous
HL_5J7L_154
HL_81538.2
HL_5ND8_0231/A/789:798No text annotation
homologous
HL_4WF9_023
HL_88205.2
HL_5ND8_0241/A/824:830No text annotation
homologous
HL_5J7L_156
HL_87954.2
HL_5ND8_0251/A/871:876No text annotation
homologous
HL_7RQB_025
NA
HL_5ND8_0271/A/999:1006GNRA
homologous
HL_4WF9_027
HL_37824.7
HL_5ND8_0281/A/1022:1029No text annotation
homologous
HL_5J7L_160
HL_42998.2
HL_5ND8_0291/A/1108:1118No text annotation
geometric
HL_7A0S_007
HL_53890.2
HL_5ND8_0301/A/1214:1218Mini UNCG
geometric
HL_4LFB_005
HL_48778.2
HL_5ND8_0311/A/1260:1265GNRA
homologous
HL_7A0S_031
HL_37824.7
HL_5ND8_0321/A/1318:1326T-loop with 2 stacked bulged bases
homologous
HL_7A0S_032
HL_28252.8
HL_5ND8_0331/A/1361:1367Pseudoknot geometry with 3' bulge
homologous
HL_7A0S_033
HL_57176.2
HL_5ND8_0341/A/1400:1405GNRA
homologous
HL_5J7L_167
HL_37824.7
HL_5ND8_0351/A/1426:1435No text annotation
homologous
HL_4WF9_035
HL_81545.2
HL_5ND8_0361/A/1535:1541Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
HL_57176.2
HL_5ND8_0371/A/1612:1615Mini UNCG
homologous
HL_4WF9_037
HL_48778.2
HL_5ND8_0381/A/1656:1663No text annotation
homologous
HL_4WF9_038
HL_89567.2
HL_5ND8_0391/A/1673:1681GNRA with extra cWW
homologous
HL_4WF9_039
HL_20167.2
HL_5ND8_0401/A/1735:1740UNCG
homologous
HL_4WF9_040
HL_34617.5
HL_5ND8_0411/A/1762:1767No text annotation
homologous
HL_7RQB_043
NA
HL_5ND8_0421/A/1779:1783No text annotation
homologous
HL_7RQB_044
NA
HL_5ND8_0431/A/1804:1814No text annotation
homologous
HL_4WF9_043
HL_01962.2
HL_5ND8_0441/A/1833:1838GNRA
homologous
HL_7RQB_046
NA
HL_5ND8_0451/A/1895:1900No text annotation
HL_5ND8_0471/A/1976:1984No text annotation
homologous
HL_5J7L_182
HL_20167.2
HL_5ND8_0481/A/2054:2063No text annotation
homologous
HL_4WF9_047
HL_61996.2
HL_5ND8_0491/A/2170:2175No text annotation
homologous
HL_5J7L_184
NA
HL_5ND8_0501/A/2236:2242No text annotation
homologous
HL_5J7L_185
HL_49922.4
HL_5ND8_0511/A/2275:2283No text annotation
homologous
HL_7A0S_052
HL_85367.2
HL_5ND8_0521/A/2291:2303No text annotation
homologous
HL_4WF9_050
HL_91939.2
HL_5ND8_1021/A/2331:2339No text annotation
HL_5ND8_0541/A/2351:2358Pseudoknot geometry
homologous
HL_4WF9_052
HL_93324.4
HL_5ND8_0551/A/2382:2389GNRA with extra cWW
homologous
HL_4WF9_053
HL_04259.3
HL_5ND8_0561/A/2401:2406GNRA
homologous
HL_4WF9_054
HL_37824.7
HL_5ND8_0571/A/2431:2440No text annotation
homologous
HL_7RQB_059
NA
HL_5ND8_0581/A/2498:2506No text annotation
homologous
HL_4WF9_056
HL_32735.2
HL_5ND8_0591/A/2555:2562No text annotation
homologous
HL_5J7L_194
HL_31585.4
HL_5ND8_0601/A/2578:2584No text annotation
homologous
HL_4WF9_058
HL_30068.2
HL_5ND8_0611/A/2621:2626GNRA
homologous
HL_7A0S_062
HL_37824.7
HL_5ND8_0621/A/2685:2690GNRA
geometric
HL_2OIU_001
HL_37824.7
HL_5ND8_0631/A/2728:2733Ribsomal LSU H95
homologous
HL_4WF9_061
HL_65794.5
HL_5ND8_0641/A/2772:2786No text annotation
homologous
HL_5J7L_199
HL_74055.2
HL_5ND8_0651/A/2819:2824No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_5ND8_0661/A/2839:2847No text annotation
homologous
HL_4WF9_064
HL_64690.6
HL_5ND8_0671/A/2876:2881GNRA
homologous
HL_4WF9_065
HL_37824.7
HL_5ND8_1031/B/32:46No text annotation
homologous
HL_9DFE_067
HL_97756.2
HL_5ND8_0681/B/36:42No text annotation
geometric
HL_1MJI_002
HL_47787.2
HL_5ND8_0691/B/79:92No text annotation
HL_5ND8_0701/a/13:23No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_5ND8_0711/a/80:89No text annotation
HL_5ND8_0721/a/158:163GNRA
homologous
HL_5J7L_003
HL_37824.7
HL_5ND8_0731/a/193:198GNRA variation
geometric
HL_1L9A_001
HL_37824.7
HL_5ND8_0741/a/217:223No text annotation
geometric
HL_8C3A_221
NA
HL_5ND8_0751/a/267:275GNRA related
homologous
HL_4LFB_006
HL_84299.4
HL_5ND8_0761/a/304:309GNRA
homologous
HL_5J7L_007
HL_37824.7
HL_5ND8_0771/a/328:341No text annotation
homologous
HL_4LFB_008
HL_81205.3
HL_5ND8_0781/a/350:355UNCG
homologous
HL_4LFB_009
HL_34617.5
HL_5ND8_0791/a/387:392GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_5ND8_0801/a/427:432UNCG
homologous
HL_5J7L_011
HL_34617.5
HL_5ND8_0811/a/471:479GNRA wlth tandem sheared
geometric
HL_5AOX_001
HL_81538.2
HL_5ND8_0821/a/530:535Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_5ND8_0831/a/625:631No text annotation
homologous
HL_5J7L_014
HL_10453.3
HL_5ND8_0841/a/697:706No text annotation
homologous
HL_5J7L_015
HL_75293.5
HL_5ND8_0851/a/734:739GNRA
homologous
HL_4LFB_016
HL_37824.7
HL_5ND8_0861/a/794:804No text annotation
homologous
HL_5J7L_017
HL_75293.5
HL_5ND8_0871/a/848:856No text annotation
HL_5ND8_0881/a/872:877GNRA
homologous
HL_4LFB_019
HL_37824.7
HL_5ND8_0891/a/907:912GNRA
homologous
HL_6CZR_091
NA
HL_5ND8_0901/a/973:982No text annotation
homologous
HL_5J7L_021
HL_50779.4
HL_5ND8_0911/a/1022:1027GNRA
homologous
HL_4LFB_022
HL_37824.7
HL_5ND8_1041/a/1039:1044No text annotation
geometric
HL_5HR7_005
HL_50006.2
HL_5ND8_0931/a/1088:1093GNRA
homologous
HL_5J7L_023
HL_37824.7
HL_5ND8_0941/a/1101:1108T-loop related
homologous
HL_4LFB_025
HL_77436.5
HL_5ND8_0951/a/1145:1152No text annotation
geometric
HL_5TBW_018
NA
HL_5ND8_0961/a/1176:1182GNRA
homologous
HL_5J7L_026
HL_93535.1
HL_5ND8_0971/a/1276:1281GNRA
homologous
HL_4LFB_028
HL_37824.7
HL_5ND8_0981/a/1325:1334T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_02887.3
HL_5ND8_0991/a/1367:1377No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_5ND8_1001/a/1461:1465Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_5ND8_1011/a/1527:1532GNRA
homologous
HL_6CZR_103
NA

Problematic loops

#loop idProblemSequence
HL_5ND8_026No text annotation
HL_5ND8_046No text annotation
HL_5ND8_053No text annotation
HL_5ND8_092No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5ND8_0011/A/24:30,
1/A/555:561		Triple sheared with non-canonical cWW
homologous
IL_4WF9_001
IL_04021.2
IL_5ND8_0021/A/36:37,
1/A/488:490		Single bulged A
homologous
IL_7RQB_002
NA
IL_5ND8_0031/A/43:44,
1/A/480:482		Minor groove platform
homologous
IL_5J7L_247
IL_51454.3
IL_5ND8_0041/A/81:85,
1/A/97:104		Kink-turn
homologous
IL_4WF9_004
IL_01488.3
IL_5ND8_0051/A/152:153,
1/A/175:177		Single bulged A
homologous
IL_4WF9_006
IL_31462.6
IL_5ND8_0061/A/186:187,
1/A/215:217		Single stack bend
homologous
IL_5J7L_249
IL_90729.1
IL_5ND8_0071/A/190:197,
1/A/204:212		9x8 Sarcin-Ricin; G-bulge
homologous
IL_4WF9_008
IL_84694.2
IL_5ND8_0081/A/241:248,
1/A/256:262		8x7 Sarcin-Ricin; G-bulge
homologous
IL_4WF9_009
IL_04346.10
IL_5ND8_1901/A/305:306,
1/A/409:412		Major groove minor groove platform; mini C-loop
geometric
IL_4LFB_025
IL_68140.4
IL_5ND8_1791/A/310:330,
1/A/396:405		No text annotation
IL_5ND8_0101/A/336:338,
1/A/386:390		No text annotation
homologous
IL_7RQB_013
NA
IL_5ND8_0111/A/527:530,
1/A/541:554		No text annotation
homologous
IL_5J7L_255
IL_81516.2
IL_5ND8_0121/A/581:584,
1/A/597:600		Double sheared
homologous
IL_5J7L_256
IL_09705.15
IL_5ND8_0131/A/607:609,
1/A/618:620		Isolated non-canonical cWW pair
geometric
IL_4WF9_017
IL_07785.1
IL_5ND8_0141/A/638:640,
1/A/705:707		Isolated non-canonical cWW pair
homologous
IL_4WF9_018
IL_07785.1
IL_5ND8_0151/A/649:653,
1/A/663:667		AAA cross-strand stack
homologous
IL_7RQB_016
NA
IL_5ND8_0161/A/717:719,
1/A/851:853		Isolated non-canonical cWW pair
geometric
IL_3RW6_004
IL_87907.2
IL_5ND8_0171/A/719:723,
1/A/844:851		tHW-tHW cross-strand stack
homologous
IL_5J7L_260
IL_54041.2
IL_5ND8_0181/A/742:743,
1/A/808:810		Single bulged A
geometric
IL_7RQB_019
NA
IL_5ND8_0191/A/747:752,
1/A/769:775		No text annotation
geometric
IL_4LFB_055
IL_85536.2
IL_5ND8_0201/A/783:785,
1/A/802:803		Major groove platform
homologous
IL_4WF9_026
IL_48076.6
IL_5ND8_0211/A/820:822,
1/A/832:836		Multiple bulged bases
homologous
IL_5J7L_265
IL_06549.2
IL_5ND8_0221/A/882:883,
1/A/984:986		Single stack bend
homologous
IL_7A0S_022
IL_90729.1
IL_5ND8_0231/A/889:893,
1/A/975:978		No text annotation
homologous
IL_4WF9_029
IL_06300.1
IL_5ND8_0241/A/897:898,
1/A/969:971		Single bulged U
geometric
IL_5TBW_086
NA
IL_5ND8_0251/A/901:907,
1/A/960:966		7x7 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_4WF9_031
IL_29198.2
IL_5ND8_0261/A/907:908,
1/A/958:960		Minor groove platform
geometric
IL_4V9F_034
IL_51454.3
IL_5ND8_0271/A/909:913,
1/A/954:957		C-loop
homologous
IL_7RQB_029
NA
IL_5ND8_0291/A/920:924,
1/A/943:947		No text annotation
IL_5ND8_0311/A/1038:1040,
1/A/1203:1204		Single bulged C
homologous
IL_7RQB_035
NA
IL_5ND8_0321/A/1042:1046,
1/A/1197:1201		UAA/GAN
homologous
IL_7A0S_033
IL_38507.2
IL_5ND8_0331/A/1048:1055,
1/A/1194:1195		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_41203.4
IL_5ND8_0341/A/1055:1057,
1/A/1193:1194		Single bulged U
geometric
IL_7RQB_038
NA
IL_5ND8_0351/A/1062:1068,
1/A/1184:1188		Kink-turn related
geometric
IL_5J7L_280
IL_57188.5
IL_5ND8_0361/A/1068:1074,
1/A/1168:1184		No text annotation
geometric
IL_4WF9_040
IL_50715.3
IL_5ND8_0371/A/1075:1078,
1/A/1165:1167		Isolated non-canonical cWW pair
homologous
IL_4WF9_041
IL_57744.1
IL_5ND8_0381/A/1081:1083,
1/A/1160:1162		Isolated non-canonical cWW pair
homologous
IL_4WF9_042
IL_87907.2
IL_5ND8_0391/A/1087:1095,
1/A/1152:1156		Kink-turn
homologous
IL_5J7L_284
IL_99692.2
IL_5ND8_0401/A/1098:1101,
1/A/1125:1149		No text annotation
IL_5ND8_0411/A/1103:1107,
1/A/1119:1123		No text annotation
IL_5ND8_0421/A/1243:1245,
1/A/1277:1279		Isolated cWH basepair
homologous
IL_4WF9_045
IL_10167.6
IL_5ND8_0431/A/1246:1253,
1/A/1272:1276		Kink-turn
homologous
IL_7A0S_043
IL_70923.9
IL_5ND8_0441/A/1257:1259,
1/A/1266:1268		Intercalated cWW
homologous
IL_4WF9_047
IL_31737.3
IL_5ND8_0451/A/1300:1307,
1/A/2038:2044		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_049
NA
IL_5ND8_0461/A/1347:1350,
1/A/1647:1648		Major groove platform; stack outside cWW
homologous
IL_4WF9_049
IL_50694.7
IL_5ND8_0471/A/1356:1360,
1/A/1368:1370		Major groove minor groove platform with tHH
homologous
IL_4WF9_050
IL_83150.2
IL_5ND8_0481/A/1388:1392,
1/A/1413:1417		UAA/GAN
homologous
IL_4WF9_051
IL_89021.2
IL_5ND8_0491/A/1394:1398,
1/A/1407:1411		tSH-tHW-tHS
homologous
IL_4WF9_052
IL_17136.7
IL_5ND8_0501/A/1447:1460,
1/A/1628:1636		No text annotation
IL_5ND8_0511/A/1461:1465,
1/A/1624:1627		Other IL
homologous
IL_4WF9_054
IL_99646.2
IL_5ND8_0521/A/1476:1480,
1/A/1604:1608		No text annotation
homologous
IL_4WF9_122
IL_67780.1
IL_5ND8_1801/A/1481:1515,
1/A/1565:1603		No text annotation
IL_5ND8_0531/A/1511:1515,
1/A/1565:1570		No text annotation
homologous
IL_4WF9_116
IL_25186.4
IL_5ND8_0541/A/1518:1522,
1/A/1558:1562		tSH-tHW-tHS
homologous
IL_5J7L_300
IL_38862.4
IL_5ND8_0551/A/1524:1526,
1/A/1549:1556		No text annotation
IL_5ND8_0561/A/1532:1534,
1/A/1542:1543		Single stack bend
geometric
IL_7KGA_006
IL_26793.1
IL_5ND8_0571/A/1695:1700,
1/A/2031:2033		No text annotation
homologous
IL_4WF9_062
IL_12566.4
IL_5ND8_0581/A/1707:1709,
1/A/2022:2024		Isolated tWW turn
homologous
IL_4WF9_063
IL_67095.2
IL_5ND8_0591/A/1710:1713,
1/A/2020:2021		Major groove platform; stack outside cWW
homologous
IL_5J7L_306
IL_50694.7
IL_5ND8_1821/A/1710:1718,
1/A/2017:2021		No text annotation
homologous
IL_4WF9_117
IL_22854.4
IL_5ND8_0601/A/1713:1718,
1/A/2017:2020		Intercalated tWH
geometric
IL_4WF9_065
IL_76758.2
IL_5ND8_0611/A/1730:1735,
1/A/1740:1746		tSH-tSH-tHH-tHS
geometric
IL_5TBW_078
NA
IL_5ND8_0621/A/1757:1759,
1/A/1770:1772		Isolated cWH basepair
geometric
IL_6F4H_001
NA
IL_5ND8_0631/A/1797:1798,
1/A/2007:2009		Single bulged A
homologous
IL_4WF9_068
IL_31462.6
IL_5ND8_0641/A/1825:1831,
1/A/1840:1848		Kink-turn related
homologous
IL_7RQB_070
NA
IL_5ND8_0651/A/1864:1867,
1/A/1929:1930		Minor groove platform, major groove intercalation
homologous
IL_7RQB_071
NA
IL_5ND8_0661/A/1868:1869,
1/A/1925:1928		Major groove intercalation
homologous
IL_4WF9_071
IL_82107.4
IL_5ND8_0671/A/1873:1876,
1/A/1920:1921		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
IL_68140.4
IL_5ND8_0681/A/1878:1882,
1/A/1914:1918		UAA/GAN with extra pair
homologous
IL_4WF9_073
IL_89021.2
IL_5ND8_0691/A/1883:1887,
1/A/1909:1913		Triple sheared
homologous
IL_7RQB_075
NA
IL_5ND8_1841/A/1891:1894,
1/A/1901:1905		UAA/GAN variation
homologous
IL_5J7L_317
IL_77691.5
IL_5ND8_0711/A/1960:1961,
1/A/1991:1994		Bulged stacked bases
geometric
IL_7RQB_076
NA
IL_5ND8_0721/A/1961:1972,
1/A/1988:1991		No text annotation
homologous
IL_5J7L_319
IL_42218.2
IL_5ND8_0731/A/2077:2079,
1/A/2644:2645		Major groove platform
homologous
IL_5J7L_320
IL_48076.6
IL_5ND8_0741/A/2081:2083,
1/A/2639:2642		No text annotation
homologous
IL_4WF9_079
IL_83389.2
IL_5ND8_0751/A/2094:2096,
1/A/2469:2470		Single bulged U
geometric
IL_7RQB_080
NA
IL_5ND8_1851/A/2097:2098,
1/A/2465:2468		Minor groove platform
homologous
IL_7A0S_076
IL_51454.3
IL_5ND8_0771/A/2108:2110,
1/A/2263:2266		Isolated tHS basepair with bulges
homologous
IL_4WF9_082
IL_85599.2
IL_5ND8_0781/A/2123:2125,
1/A/2218:2220		Isolated non-canonical cWW pair
geometric
IL_4Y1M_005
IL_07785.1
IL_5ND8_0791/A/2135:2137,
1/A/2206:2208		No text annotation
geometric
IL_7RQB_015
NA
IL_5ND8_0801/A/2137:2147,
1/A/2205:2206		No text annotation
IL_5ND8_0811/A/2151:2154,
1/A/2188:2201		No text annotation
IL_5ND8_0821/A/2156:2163,
1/A/2182:2186		Kink-turn
homologous
IL_5J7L_330
IL_70923.9
IL_5ND8_0831/A/2229:2231,
1/A/2247:2248		Single bulged U
homologous
IL_5J7L_331
IL_89505.4
IL_5ND8_0841/A/2324:2326,
1/A/2344:2348		Isolated tHS basepair with bulges
homologous
IL_4WF9_086
IL_61476.2
IL_5ND8_0851/A/2377:2380,
1/A/2391:2394		Double sheared
homologous
IL_5J7L_333
IL_09705.15
IL_5ND8_0861/A/2428:2430,
1/A/2441:2442		Single bulged U
homologous
IL_5J7L_334
IL_89505.4
IL_5ND8_0871/A/2480:2481,
1/A/2525:2527		Single stack bend
geometric
IL_7RQB_091
NA
IL_5ND8_0881/A/2481:2482,
1/A/2523:2525		Major groove platform
homologous
IL_4WF9_090
IL_48076.6
IL_5ND8_0891/A/2484:2486,
1/A/2520:2521		Major groove platform
homologous
IL_4WF9_091
IL_48076.6
IL_5ND8_0901/A/2486:2488,
1/A/2516:2520		Major groove minor groove platform with extra cWW
geometric
IL_4WF9_092
IL_51387.2
IL_5ND8_0911/A/2493:2497,
1/A/2507:2511		Triple sheared
homologous
IL_4WF9_093
IL_17948.2
IL_5ND8_0921/A/2534:2535,
1/A/2607:2609		Major groove platform
homologous
IL_7RQB_096
NA
IL_5ND8_0931/A/2537:2539,
1/A/2601:2605		Isolated non-canonical cWW with bulges
homologous
IL_7RQB_097
NA
IL_5ND8_0941/A/2539:2540,
1/A/2598:2601		No text annotation
geometric
IL_4WF9_096
IL_42626.2
IL_5ND8_0951/A/2549:2550,
1/A/2567:2570		Major groove platform with intercalation
homologous
IL_5J7L_342
IL_02555.1
IL_5ND8_0961/A/2618:2619,
1/A/2628:2630		No text annotation
IL_5ND8_0971/A/2663:2667,
1/A/2801:2809		tSH-tHS-tHW
homologous
IL_4WF9_099
IL_04638.3
IL_5ND8_0981/A/2679:2685,
1/A/2690:2695		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_5J7L_346
IL_16458.4
IL_5ND8_0991/A/2707:2711,
1/A/2752:2754		C-loop
homologous
IL_4WF9_101
IL_63596.11
IL_5ND8_1001/A/2714:2718,
1/A/2745:2749		No text annotation
homologous
IL_4WF9_102
IL_23774.1
IL_5ND8_1011/A/2722:2723,
1/A/2738:2741		Multiple bulged bases
homologous
IL_4WF9_103
IL_42626.2
IL_5ND8_1021/A/2764:2769,
1/A/2789:2794		UAA/GAN with extra cWW
homologous
IL_7A0S_098
IL_49767.8
IL_5ND8_1911/A/2858:2859,
1/A/2898:2900		Major groove intercalation
homologous
IL_5J7L_352
IL_66635.5
IL_5ND8_1041/A/2863:2865,
1/A/2891:2894		No text annotation
homologous
IL_4WF9_107
IL_31531.3
IL_5ND8_1051/A/2867:2872,
1/A/2885:2889		tHS double platform
homologous
IL_4WF9_108
IL_70411.2
IL_5ND8_1921/B/3:5,
1/B/110:112		Isolated cWH basepair
homologous
IL_4WF9_121
IL_10167.6
IL_5ND8_1071/B/5:8,
1/B/107:110		Tandem non-canonical cWW pairs
homologous
IL_4WF9_110
IL_51479.1
IL_5ND8_1081/B/15:16,
1/B/63:65		Major groove intercalation
homologous
IL_4WF9_112
IL_31462.6
IL_5ND8_1091/B/20:27,
1/B/53:59		No text annotation
homologous
IL_4WF9_113
IL_19048.1
IL_5ND8_1101/B/28:29,
1/B/49:52		Major groove minor groove platform; mini C-loop
homologous
IL_7RQB_113
NA
IL_5ND8_1111/B/32:36,
1/B/42:46		Symmetric double minor groove platform
homologous
IL_7RQB_114
NA
IL_5ND8_1121/B/77:79,
1/B/92:94		Isolated non-canonical cWW pair
homologous
IL_7A0S_107
IL_07785.1
IL_5ND8_1131/a/31:33,
1/a/560:561		Single bulged G
homologous
IL_6CZR_113
NA
IL_5ND8_1141/a/45:46,
1/a/404:406		Single bulged A
homologous
IL_5J7L_002
IL_31462.6
IL_5ND8_1151/a/48:53,
1/a/367:369		No text annotation
homologous
IL_5J7L_003
IL_14177.2
IL_5ND8_1161/a/55:57,
1/a/364:365		Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_5ND8_1171/a/64:67,
1/a/102:103		Multiple bulged bases
homologous
IL_4LFB_005
IL_82107.4
IL_5ND8_1181/a/68:71,
1/a/98:101		Tandem non-canonical cWW pairs
geometric
IL_6JDV_002
IL_85033.2
IL_5ND8_1191/a/72:79,
1/a/90:97		No text annotation
IL_5ND8_1201/a/128:131,
1/a/239:240		Multiple bulged bases
homologous
IL_4LFB_007
IL_33761.2
IL_5ND8_1211/a/132:136,
1/a/235:238		No text annotation
homologous
IL_4LFB_008
IL_64231.5
IL_5ND8_1221/a/147:153,
1/a/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_5ND8_1231/a/154:156,
1/a/165:167		Isolated non-canonical cWW pair
geometric
IL_5TBW_034
NA
IL_5ND8_1241/a/250:255,
1/a/285:292		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_5ND8_1251/a/257:260,
1/a/282:283		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_5ND8_1261/a/300:301,
1/a/312:316		C-loop
homologous
IL_4LFB_013
IL_03109.3
IL_5ND8_1271/a/375:377,
1/a/400:401		Single bulged U
geometric
IL_5J7L_017
IL_89505.4
IL_5ND8_1281/a/379:383,
1/a/397:398		C-loop
geometric
IL_6CZR_127
NA
IL_5ND8_1291/a/383:384,
1/a/395:397		Single bulged G
homologous
IL_5J7L_019
IL_00225.13
IL_5ND8_1301/a/417:424,
1/a/435:441		No text annotation
homologous
IL_4LFB_017
IL_28026.3
IL_5ND8_1871/a/454:468,
1/a/481:496		No text annotation
IL_5ND8_1311/a/468:471,
1/a/479:481		No text annotation
geometric
IL_8C3A_508
NA
IL_5ND8_1321/a/512:519,
1/a/548:549		SSU/LSU pseudoknot
homologous
IL_5J7L_024
IL_41203.4
IL_5ND8_1331/a/523:529,
1/a/536:544		Kink-turn related
geometric
IL_4V88_415
NA
IL_5ND8_1341/a/577:583,
1/a/890:891		No text annotation
homologous
IL_6CZR_134
NA
IL_5ND8_1351/a/588:592,
1/a/765:769		tSH-tHW-tHS
homologous
IL_4LFB_023
IL_17136.7
IL_5ND8_1361/a/602:604,
1/a/652:653		Major groove platform
homologous
IL_5J7L_028
IL_48076.6
IL_5ND8_1371/a/605:606,
1/a/648:651		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
IL_68140.4
IL_5ND8_1381/a/612:613,
1/a/640:642		Single bulged U
geometric
IL_2A64_003
IL_89505.4
IL_5ND8_1391/a/613:620,
1/a/636:640		No text annotation
homologous
IL_5J7L_030
IL_78349.3
IL_5ND8_1401/a/662:663,
1/a/759:762		Major groove platform; stack outside cWW
geometric
IL_5J7L_031
IL_50694.7
IL_5ND8_1411/a/664:667,
1/a/754:758		Tandem non-canonical cWW pairs
geometric
IL_3WBM_002
IL_85033.2
IL_5ND8_1421/a/670:674,
1/a/748:751		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
IL_85033.2
IL_5ND8_1431/a/681:686,
1/a/720:725		No text annotation
geometric
IL_4LFB_030
NA
IL_5ND8_1441/a/692:696,
1/a/707:714		Kink-turn
homologous
IL_5J7L_035
IL_01488.3
IL_5ND8_1451/a/782:787,
1/a/811:813		Other IL
geometric
IL_4V88_435
NA
IL_5ND8_1461/a/787:791,
1/a/807:811		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_17136.7
IL_5ND8_1471/a/897:904,
1/a/915:920		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
IL_41756.4
IL_5ND8_1481/a/932:933,
1/a/1404:1406		Single bulged A
homologous
IL_5J7L_039
IL_31462.6
IL_5ND8_1491/a/935:937,
1/a/1401:1402		Single bulged G
homologous
IL_6CZR_148
NA
IL_5ND8_1501/a/943:945,
1/a/1391:1395		Minor groove platform
homologous
IL_4LFB_037
IL_47078.3
IL_5ND8_1511/a/963:964,
1/a/1237:1239		Minor groove platform
homologous
IL_4LFB_038
IL_51454.3
IL_5ND8_1521/a/1003:1007,
1/a/1056:1057		Minor groove platform
geometric
IL_5J7L_043
IL_47078.3
IL_5ND8_1531/a/1008:1009,
1/a/1053:1055		Single stack bend
homologous
IL_5J7L_044
IL_26793.1
IL_5ND8_1541/a/1010:1011,
1/a/1050:1052		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_5ND8_1551/a/1036:1038,
1/a/1045:1046		Single bulged A
geometric
IL_5J7L_064
IL_31462.6
IL_5ND8_1561/a/1060:1062,
1/a/1219:1220		Single bulged U
homologous
IL_5J7L_046
IL_89505.4
IL_5ND8_1571/a/1064:1068,
1/a/1215:1217		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_5ND8_1581/a/1069:1070,
1/a/1210:1214		Minor groove platform
homologous
IL_6CZR_155
NA
IL_5ND8_1591/a/1072:1073,
1/a/1206:1208		Single bulged A
geometric
IL_5J7L_049
IL_31462.6
IL_5ND8_1601/a/1073:1075,
1/a/1204:1206		Isolated non-canonical cWW pair
geometric
IL_4PCJ_001
IL_28037.2
IL_5ND8_1611/a/1136:1139,
1/a/1156:1160		Minor groove platform
homologous
IL_6CZR_158
NA
IL_5ND8_1621/a/1141:1144,
1/a/1153:1154		Minor groove platform
homologous
IL_5J7L_052
IL_15052.4
IL_5ND8_1631/a/1169:1172,
1/a/1186:1192		No text annotation
geometric
IL_5J7L_053
IL_42032.1
IL_5ND8_1641/a/1258:1264,
1/a/1295:1301		No text annotation
homologous
IL_5J7L_054
IL_09129.2
IL_5ND8_1651/a/1266:1269,
1/a/1288:1293		180 degree turn
homologous
IL_5J7L_055
IL_11344.2
IL_5ND8_1661/a/1270:1274,
1/a/1283:1287		Triple sheared
homologous
IL_5J7L_056
IL_17948.2
IL_5ND8_1671/a/1314:1319,
1/a/1340:1345		No text annotation
geometric
IL_4LFB_055
IL_85536.2
IL_5ND8_1681/a/1410:1412,
1/a/1513:1516		No text annotation
geometric
IL_5J7L_058
IL_61438.4
IL_5ND8_1691/a/1412:1415,
1/a/1509:1513		No text annotation
geometric
IL_4V88_464
NA
IL_5ND8_1701/a/1416:1418,
1/a/1506:1508		Isolated non-canonical cWW pair
geometric
IL_4JGN_002
IL_87907.2
IL_5ND8_1711/a/1418:1420,
1/a/1503:1506		Isolated non-canonical cWW pair
geometric
IL_1U6B_001
IL_57744.1
IL_5ND8_1721/a/1423:1425,
1/a/1498:1500		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
IL_87907.2
IL_5ND8_1731/a/1427:1430,
1/a/1493:1496		Double sheared
homologous
IL_5J7L_062
IL_09705.15
IL_5ND8_1741/a/1435:1438,
1/a/1485:1488		Tandem non-canonical cWW pairs
geometric
IL_5TBW_100
NA
IL_5ND8_1751/a/1441:1446,
1/a/1478:1482		Triple sheared related
geometric
IL_5J7L_063
IL_80231.1
IL_5ND8_1761/a/1446:1448,
1/a/1476:1478		Isolated non-canonical cWW pair
homologous
IL_4LFB_063
IL_87907.2
IL_5ND8_1771/a/1451:1454,
1/a/1471:1473		Isolated tHS basepair with bulges
geometric
IL_7RQB_012
NA
IL_5ND8_1781/a/1456:1459,
1/a/1467:1469		No text annotation
homologous
IL_5J7L_065
IL_31531.3

Problematic loops

#loop idProblemSequence
IL_5ND8_009Major groove minor groove platform with extra cWW
IL_5ND8_028Isolated cWS basepair
IL_5ND8_030No text annotation
IL_5ND8_181Major groove platform with extra cWW
IL_5ND8_183Isolated non-canonical cWW with bulges
IL_5ND8_070No text annotation
IL_5ND8_076Tandem non-canonical cWW pairs
IL_5ND8_103Tandem non-canonical cWW pairs
IL_5ND8_106Tandem non-canonical cWW pairs
IL_5ND8_186No text annotation
IL_5ND8_188Isolated cWH basepair
IL_5ND8_1899x7 Sarcin-Ricin with inserted C; G-bulge

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5ND8_0011/A/30:31,
1/A/520:527,
1/A/554:555		No text annotation
homologous
J3_7RQB_001
NA
J3_5ND8_0261/A/30:31,
1/A/520:530,
1/A/541:555		No text annotation
homologous
J3_4WF9_011
J3_92134.2
J3_5ND8_0271/A/32:35,
1/A/491:507,
1/A/514:519		No text annotation
homologous
J3_9DFE_003
J3_30040.2
J3_5ND8_0021/A/56:57,
1/A/70:76,
1/A/109:113		No text annotation
homologous
J3_5J7L_037
J3_35667.2
J3_5ND8_0031/A/272:276,
1/A/295:302,
1/A/415:416		No text annotation
homologous
J3_7RQB_003
NA
J3_5ND8_0041/A/728:734,
1/A/818:820,
1/A/836:839		No text annotation
homologous
J3_5J7L_038
J3_64189.2
J3_5ND8_0051/A/743:745,
1/A/777:781,
1/A/805:808		No text annotation
homologous
J3_4WF9_003
J3_44724.7
J3_5ND8_0061/A/1335:1340,
1/A/1669:1671,
1/A/1683:1686		No text annotation
homologous
J3_4WF9_004
J3_32852.6
J3_5ND8_0071/A/1343:1346,
1/A/1649:1655,
1/A/1664:1666		No text annotation
homologous
J3_7RQB_008
NA
J3_5ND8_0081/A/1381:1387,
1/A/1418:1422,
1/A/1439:1440		No text annotation
homologous
J3_7RQB_009
NA
J3_5ND8_0291/A/1468:1473,
1/A/1611:1612,
1/A/1615:1621		No text annotation
homologous
J3_7A0S_019
J3_34864.2
J3_5ND8_0091/A/2118:2120,
1/A/2223:2228,
1/A/2249:2255		No text annotation
homologous
J3_4WF9_007
J3_07703.1
J3_5ND8_0101/A/2322:2324,
1/A/2348:2350,
1/A/2359:2364		No text annotation
homologous
J3_4WF9_008
J3_61124.2
J3_5ND8_0111/A/2544:2547,
1/A/2572:2574,
1/A/2588:2594		No text annotation
homologous
J3_4WF9_009
J3_32601.5
J3_5ND8_0121/A/2816:2817,
1/A/2826:2831,
1/A/2909:2913		No text annotation
homologous
J3_7RQB_013
NA
J3_5ND8_0131/A/2834:2835,
1/A/2851:2856,
1/A/2902:2906		No text annotation
homologous
J3_7A0S_013
J3_76911.2
J3_5ND8_0311/B/8:14,
1/B/66:77,
1/B/94:107		No text annotation
J3_5ND8_0141/a/47:48,
1/a/369:375,
1/a/401:403		No text annotation
homologous
J3_5J7L_001
J3_67856.4
J3_5ND8_0321/a/47:53,
1/a/367:375,
1/a/401:403		No text annotation
homologous
J3_4LFB_014
J3_46317.4
J3_5ND8_0151/a/594:596,
1/a/659:662,
1/a/762:763		No text annotation
geometric
J3_1KUQ_001
J3_56052.5
J3_5ND8_0331/a/594:596,
1/a/659:663,
1/a/759:763		No text annotation
homologous
J3_5J7L_051
J3_17385.4
J3_5ND8_0161/a/680:681,
1/a/725:733,
1/a/740:742		No text annotation
homologous
J3_5J7L_003
J3_11934.4
J3_5ND8_0171/a/834:837,
1/a/867:871,
1/a/878:884		No text annotation
homologous
J3_5J7L_004
J3_85054.4
J3_5ND8_0381/a/946:949,
1/a/1355:1361,
1/a/1383:1390		No text annotation
homologous
J3_5J7L_052
J3_25303.4
J3_5ND8_0181/a/953:956,
1/a/1246:1248,
1/a/1348:1351		No text annotation
homologous
J3_5J7L_005
J3_52655.4
J3_5ND8_0191/a/965:972,
1/a/983:994,
1/a/1232:1236		No text annotation
homologous
J3_4LFB_004
J3_83516.4
J3_5ND8_0201/a/1000:1003,
1/a/1057:1059,
1/a/1221:1226		No text annotation
homologous
J3_4LFB_005
J3_82572.1
J3_5ND8_0351/a/1000:1007,
1/a/1056:1059,
1/a/1221:1226		No text annotation
homologous
J3_5J7L_053
J3_76475.2
J3_5ND8_0211/a/1011:1018,
1/a/1031:1036,
1/a/1046:1050		No text annotation
J3_5ND8_0361/a/1011:1018,
1/a/1031:1038,
1/a/1045:1050		No text annotation
J3_5ND8_0221/a/1075:1080,
1/a/1119:1125,
1/a/1198:1204		No text annotation
homologous
J3_4LFB_007
J3_08394.3
J3_5ND8_0391/a/1085:1086,
1/a/1095:1098,
1/a/1111:1114		No text annotation
homologous
J3_4LFB_017
J3_79369.1
J3_5ND8_0241/a/1128:1130,
1/a/1166:1169,
1/a/1192:1195		No text annotation
homologous
J3_5J7L_010
J3_82365.4
J3_5ND8_0371/a/1128:1130,
1/a/1166:1172,
1/a/1186:1195		No text annotation
homologous
J3_5J7L_054
J3_17791.2
J3_5ND8_0251/a/1248:1252,
1/a/1307:1314,
1/a/1345:1348		No text annotation
homologous
J3_4LFB_009
J3_37047.6
J4_5ND8_0011/A/271:272,
1/A/416:421,
1/A/445:452,
1/A/467:470		No text annotation
homologous
J4_4WF9_001
J4_45801.6
J4_5ND8_0021/A/340:344,
1/A/359:362,
1/A/366:368,
1/A/380:384		No text annotation
homologous
J4_9DFE_002
J4_71729.5
J4_5ND8_0031/A/644:647,
1/A/669:673,
1/A/680:684,
1/A/694:701		No text annotation
homologous
J4_4WF9_003
J4_60168.1
J4_5ND8_0041/A/1308:1313,
1/A/1331:1332,
1/A/1689:1692,
1/A/2036:2037		No text annotation
homologous
J4_4WF9_004
J4_64571.5
J4_5ND8_0051/A/1347:1351,
1/A/1375:1380,
1/A/1441:1442,
1/A/1641:1648		No text annotation
homologous
J4_4WF9_005
J4_69051.6
J4_5ND8_0061/A/1350:1351,
1/A/1375:1380,
1/A/1441:1442,
1/A/1641:1647		No text annotation
homologous
J4_4WF9_006
J4_10313.5
J4_5ND8_0071/A/1799:1803,
1/A/1815:1819,
1/A/1854:1857,
1/A/2002:2006		No text annotation
homologous
J4_4WF9_007
J4_61477.5
J4_5ND8_0081/A/1860:1862,
1/A/1932:1933,
1/A/1951:1960,
1/A/1994:1999		No text annotation
homologous
J4_9DFE_008
J4_93343.1
J4_5ND8_0091/A/2312:2316,
1/A/2370:2374,
1/A/2397:2399,
1/A/2408:2410		No text annotation
homologous
J4_9DFE_009
J4_04930.6
J4_5ND8_0101/A/2670:2673,
1/A/2701:2703,
1/A/2758:2762,
1/A/2796:2798		No text annotation
homologous
J4_4WF9_009
J4_77044.4
J4_5ND8_0111/a/114:122,
1/a/246:248,
1/a/294:297,
1/a/319:320		No text annotation
J4_5ND8_0121/a/142:144,
1/a/178:185,
1/a/206:213,
1/a/227:229		No text annotation
J4_5ND8_0131/a/583:585,
1/a/772:777,
1/a/818:829,
1/a/889:890		No text annotation
homologous
J4_4LFB_003
J4_61885.6
J5_5ND8_0011/A/47:54,
1/A/115:120,
1/A/129:130,
1/A/149:151,
1/A/178:180		No text annotation
homologous
J5_4WF9_001
J5_01737.2
J5_5ND8_0021/A/271:276,
1/A/295:302,
1/A/415:421,
1/A/445:452,
1/A/467:470		No text annotation
J5_5ND8_0031/A/576:578,
1/A/603:607,
1/A/620:622,
1/A/1299:1300,
1/A/2044:2045		No text annotation
homologous
J5_5J7L_014
J5_43153.5
J5_5ND8_0091/A/627:632,
1/A/713:716,
1/A/854:858,
1/A/1233:1237,
1/A/1285:1294		No text annotation
J5_5ND8_0051/A/1718:1727,
1/A/1749:1751,
1/A/1778:1779,
1/A/1783:1791,
1/A/2015:2017		No text annotation
J5_5ND8_0061/A/2084:2091,
1/A/2473:2480,
1/A/2527:2533,
1/A/2610:2615,
1/A/2633:2638		No text annotation
J5_5ND8_0101/a/37:40,
1/a/411:414,
1/a/444:449,
1/a/501:508,
1/a/553:556		No text annotation
J5_5ND8_0081/a/59:62,
1/a/105:112,
1/a/322:324,
1/a/345:347,
1/a/358:362		No text annotation
homologous
J5_4LFB_002
J5_59910.6
J6_5ND8_0011/A/45:46,
1/A/181:186,
1/A/217:227,
1/A/234:238,
1/A/265:269,
1/A/472:479		No text annotation
J6_5ND8_0031/A/2101:2104,
1/A/2270:2273,
1/A/2285:2286,
1/A/2308:2311,
1/A/2411:2422,
1/A/2448:2462		No text annotation
J7_5ND8_0031/A/8:15,
1/A/570:576,
1/A/2045:2050,
1/A/2067:2070,
1/A/2652:2657,
1/A/2815:2816,
1/A/2913:2914		No text annotation
J7_5ND8_0021/A/862:867,
1/A/880:881,
1/A/987:990,
1/A/1015:1020,
1/A/1031:1035,
1/A/1207:1208,
1/A/1224:1229		No text annotation

Problematic loops

#loop idProblemSequence
J3_5ND8_028No text annotation
J3_5ND8_030No text annotation
J3_5ND8_034No text annotation
J3_5ND8_023No text annotation
J5_5ND8_004No text annotation
J5_5ND8_007No text annotation
J6_5ND8_002No text annotation
J7_5ND8_001No text annotation

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