RNA 3D Hub //

8YDE Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8YDE_0011/1/59:68No text annotation
geometric
HL_8KEB_002
HL_97725.1
HL_8YDE_0021/1/87:95No text annotation
geometric
HL_8B0X_034
HL_65821.1
HL_8YDE_0031/1/123:128No text annotation
geometric
HL_8B0X_035
HL_82710.3
HL_8YDE_0061/1/188:208No text annotation
HL_8YDE_0071/1/225:230No text annotation
geometric
HL_8B0X_039
HL_63151.1
HL_8YDE_0081/1/246:252No text annotation
geometric
HL_8B0X_040
HL_76371.2
HL_8YDE_0111/1/382:392No text annotation
geometric
HL_8B0X_044
HL_91503.8
HL_8YDE_0161/1/566:575No text annotation
geometric
HL_8B0X_048
HL_33597.3
HL_8YDE_0211/1/744:753No text annotation
geometric
HL_7A0S_022
HL_50204.1
HL_8YDE_0221/1/779:785UNCG variation
geometric
HL_7A0S_023
HL_51020.2
HL_8YDE_0231/1/826:831No text annotation
geometric
HL_8B0X_055
HL_27530.1
HL_8YDE_0251/1/955:962GNRA
geometric
HL_9DFE_025
HL_34789.3
HL_8YDE_0301/1/1222:1227No text annotation
geometric
HL_8B0X_059
HL_34789.3
HL_8YDE_0321/1/1324:1330No text annotation
geometric
HL_8B0X_061
HL_49081.1
HL_8YDE_0391/1/1612:1619No text annotation
geometric
HL_8B0X_068
HL_28592.2
HL_8YDE_0441/1/1777:1787No text annotation
geometric
HL_8B0X_073
HL_87681.1
HL_8YDE_0451/1/1806:1811GNRA related
geometric
HL_3OXE_002
HL_37569.3
HL_8YDE_0471/1/1910:1920No text annotation
geometric
HL_9DFE_046
HL_82185.1
HL_8YDE_0481/1/1949:1957No text annotation
geometric
HL_8B0X_077
HL_61418.2
HL_8YDE_0491/1/2027:2036No text annotation
geometric
HL_8B0X_078
HL_78372.1
HL_8YDE_0521/1/2248:2256No text annotation
geometric
HL_7A0S_052
HL_11974.2
HL_8YDE_0531/1/2264:2276No text annotation
geometric
HL_8B0X_081
HL_02042.1
HL_8YDE_0611/1/2551:2557No text annotation
geometric
HL_8P9A_174
HL_48677.1
HL_8YDE_0621/1/2594:2599GNRA
geometric
HL_3IGI_003
HL_34789.3
HL_8YDE_0671/1/2819:2827No text annotation
geometric
HL_8B0X_095
HL_37889.1
HL_8YDE_0721/3/12:22No text annotation
geometric
HL_8B0X_001
HL_73535.1
HL_8YDE_0781/3/296:301No text annotation
geometric
HL_8B0X_006
HL_34789.3
HL_8YDE_0791/3/320:333No text annotation
geometric
HL_8B0X_007
HL_39665.1
HL_8YDE_0841/3/522:527No text annotation
geometric
HL_8B0X_099
HL_34789.3
HL_8YDE_0871/3/726:731No text annotation
geometric
HL_8GLP_103
HL_34789.3
HL_8YDE_0911/3/897:902No text annotation
geometric
HL_8B0X_018
HL_34789.3
HL_8YDE_1061/6/13:22No text annotation
geometric
HL_8B0X_030
HL_63054.2

Problematic loops

#loop idProblemSequence
HL_8YDE_004No text annotation
HL_8YDE_005No text annotation
HL_8YDE_009No text annotation
HL_8YDE_010No text annotation
HL_8YDE_012Pseudoknot geometry
HL_8YDE_013No text annotation
HL_8YDE_014No text annotation
HL_8YDE_015No text annotation
HL_8YDE_017No text annotation
HL_8YDE_018No text annotation
HL_8YDE_019No text annotation
HL_8YDE_020No text annotation
HL_8YDE_024No text annotation
HL_8YDE_026No text annotation
HL_8YDE_027No text annotation
HL_8YDE_028GNRA wlth tandem sheared
HL_8YDE_029No text annotation
HL_8YDE_031No text annotation
HL_8YDE_033No text annotation
HL_8YDE_034No text annotation
HL_8YDE_035No text annotation
HL_8YDE_036No text annotation
HL_8YDE_037No text annotation
HL_8YDE_038Mini UNCG
HL_8YDE_040No text annotation
HL_8YDE_041UNCG
HL_8YDE_042No text annotation
HL_8YDE_043No text annotation
HL_8YDE_046No text annotation
HL_8YDE_050No text annotation
HL_8YDE_051No text annotation
HL_8YDE_054No text annotation
HL_8YDE_055No text annotation
HL_8YDE_056No text annotation
HL_8YDE_057No text annotation
HL_8YDE_058No text annotation
HL_8YDE_059No text annotation
HL_8YDE_060No text annotation
HL_8YDE_063No text annotation
HL_8YDE_064No text annotation
HL_8YDE_065No text annotation
HL_8YDE_066UNCG variation
HL_8YDE_068No text annotation
HL_8YDE_069No text annotation
HL_8YDE_070No text annotation
HL_8YDE_071No text annotation
HL_8YDE_073No text annotation
HL_8YDE_074GNRA
HL_8YDE_075No text annotation
HL_8YDE_076No text annotation
HL_8YDE_077No text annotation
HL_8YDE_080No text annotation
HL_8YDE_081GNRA
HL_8YDE_082No text annotation
HL_8YDE_083No text annotation
HL_8YDE_085No text annotation
HL_8YDE_086No text annotation
HL_8YDE_088No text annotation
HL_8YDE_089No text annotation
HL_8YDE_090No text annotation
HL_8YDE_092No text annotation
HL_8YDE_093GNRA
HL_8YDE_094No text annotation
HL_8YDE_095No text annotation
HL_8YDE_096No text annotation
HL_8YDE_097No text annotation
HL_8YDE_098GNRA
HL_8YDE_099T-loop with 3 stacked bulged bases
HL_8YDE_100No text annotation
HL_8YDE_101No text annotation
HL_8YDE_102No text annotation
HL_8YDE_103No text annotation
HL_8YDE_104No text annotation
HL_8YDE_105No text annotation
HL_8YDE_107No text annotation
HL_8YDE_108T-loop with 2 stacked bulged bases
HL_8YDE_109No text annotation
HL_8YDE_110No text annotation
HL_8YDE_111T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8YDE_0011/1/24:30,
1/1/510:516		No text annotation
geometric
IL_8B0X_065
IL_22311.1
IL_8YDE_0031/1/43:44,
1/1/434:436		No text annotation
geometric
IL_8B0X_067
IL_34520.3
IL_8YDE_0061/1/239:245,
1/1/253:258		No text annotation
geometric
IL_8B0X_071
IL_02666.1
IL_8YDE_0111/1/481:484,
1/1/496:509		No text annotation
geometric
IL_8B0X_075
IL_44923.1
IL_8YDE_0131/1/606:610,
1/1/618:622		No text annotation
geometric
IL_8B0X_078
IL_66798.3
IL_8YDE_0141/1/672:674,
1/1/806:808		No text annotation
geometric
IL_8B0X_079
IL_01003.3
IL_8YDE_0151/1/674:678,
1/1/799:806		No text annotation
geometric
IL_8B0X_080
IL_73855.1
IL_8YDE_0191/1/738:740,
1/1/757:758		No text annotation
geometric
IL_8B0X_084
IL_48076.8
IL_8YDE_0201/1/775:777,
1/1/787:791		No text annotation
geometric
IL_8B0X_085
IL_89509.1
IL_8YDE_0241/1/850:851,
1/1/926:928		No text annotation
geometric
IL_8B0X_089
IL_15011.2
IL_8YDE_0251/1/856:862,
1/1/915:921		No text annotation
geometric
IL_8B0X_090
IL_94128.1
IL_8YDE_0261/1/862:863,
1/1/913:915		No text annotation
geometric
IL_8B0X_091
IL_28408.2
IL_8YDE_0281/1/870:872,
1/1/905:907		No text annotation
geometric
IL_8B0X_093
IL_01003.3
IL_8YDE_0311/1/994:996,
1/1/1159:1160		No text annotation
geometric
IL_8B0X_096
IL_05642.2
IL_8YDE_0361/1/1024:1030,
1/1/1124:1140		No text annotation
geometric
IL_8B0X_101
IL_50715.4
IL_8YDE_0421/1/1196:1198,
1/1/1247:1250		No text annotation
geometric
IL_8B0X_105
IL_42997.5
IL_8YDE_0431/1/1202:1206,
1/1/1240:1243		No text annotation
IL_8YDE_0501/1/1432:1435,
1/1/1557:1561		No text annotation
geometric
IL_8B0X_115
IL_28284.1
IL_8YDE_0601/1/1666:1674,
1/1/1990:1994		No text annotation
geometric
IL_4WF9_117
IL_80252.1
IL_8YDE_0611/1/1686:1691,
1/1/1696:1702		No text annotation
geometric
IL_8B0X_127
IL_20700.1
IL_8YDE_0641/1/1770:1771,
1/1/1980:1982		No text annotation
geometric
IL_8B0X_131
IL_14190.2
IL_8YDE_0651/1/1798:1804,
1/1/1813:1821		No text annotation
geometric
IL_8B0X_132
IL_17069.6
IL_8YDE_0661/1/1837:1840,
1/1/1902:1903		Minor groove platform, major groove intercalation
geometric
IL_4V9F_066
IL_55206.1
IL_8YDE_0671/1/1841:1842,
1/1/1898:1901		Major groove intercalation
geometric
IL_4V9F_067
IL_71421.2
IL_8YDE_0681/1/1846:1849,
1/1/1893:1894		No text annotation
geometric
IL_8B0X_135
IL_73108.2
IL_8YDE_0711/1/1933:1945,
1/1/1961:1967		No text annotation
IL_8YDE_0721/1/2050:2052,
1/1/2617:2618		No text annotation
geometric
IL_8B0X_139
IL_48076.8
IL_8YDE_0731/1/2054:2056,
1/1/2612:2615		No text annotation
geometric
IL_8B0X_140
IL_80025.1
IL_8YDE_0741/1/2067:2069,
1/1/2442:2443		No text annotation
geometric
IL_8B0X_182
IL_97561.3
IL_8YDE_0751/1/2070:2071,
1/1/2438:2441		No text annotation
geometric
IL_8B0X_143
IL_34520.3
IL_8YDE_0761/1/2081:2083,
1/1/2236:2239		No text annotation
geometric
IL_8B0X_144
IL_87316.1
IL_8YDE_0771/1/2085:2087,
1/1/2232:2234		No text annotation
geometric
IL_8B0X_145
IL_71625.2
IL_8YDE_0821/1/2350:2353,
1/1/2364:2367		No text annotation
geometric
IL_8B0X_148
IL_58355.2
IL_8YDE_0841/1/2453:2454,
1/1/2498:2500		No text annotation
geometric
IL_8B0X_183
IL_15011.2
IL_8YDE_0851/1/2454:2455,
1/1/2496:2498		Major groove platform
geometric
IL_7EOG_001
IL_48076.8
IL_8YDE_0861/1/2457:2461,
1/1/2489:2494		No text annotation
IL_8YDE_0871/1/2466:2470,
1/1/2480:2484		No text annotation
geometric
IL_8B0X_153
IL_87767.2
IL_8YDE_0881/1/2507:2508,
1/1/2580:2582		Major groove platform
geometric
IL_4WF9_094
IL_46637.2
IL_8YDE_0891/1/2510:2512,
1/1/2574:2578		No text annotation
geometric
IL_8B0X_155
IL_68118.3
IL_8YDE_0911/1/2522:2523,
1/1/2540:2543		No text annotation
geometric
IL_8B0X_157
IL_94991.2
IL_8YDE_0931/1/2636:2640,
1/1/2774:2782		No text annotation
geometric
IL_8B0X_160
IL_04638.4
IL_8YDE_0971/1/2695:2696,
1/1/2711:2714		No text annotation
geometric
IL_8B0X_164
IL_44609.2
IL_8YDE_1331/3/569:575,
1/3/880:881		No text annotation
geometric
IL_8B0X_025
IL_20847.1
IL_8YDE_1341/3/580:584,
1/3/757:761		No text annotation
geometric
IL_8B0X_026
IL_05821.1
IL_8YDE_1431/3/774:778,
1/3/804:805		No text annotation
geometric
IL_8B0X_035
IL_29346.3
IL_8YDE_1451/3/887:894,
1/3/905:910		No text annotation
geometric
IL_8B0X_037
IL_84044.1
IL_8YDE_1531/3/1048:1050,
1/3/1208:1209		No text annotation
geometric
IL_8B0X_044
IL_97561.3
IL_8YDE_1691/3/1412:1414,
1/3/1486:1488		No text annotation
geometric
IL_8B0X_060
IL_01003.3
IL_8YDE_1701/3/1416:1419,
1/3/1481:1484		No text annotation
geometric
IL_8B0X_061
IL_58355.2
IL_8YDE_1711/3/1430:1435,
1/3/1466:1470		No text annotation
geometric
IL_8B0X_062
IL_67427.1

Problematic loops

#loop idProblemSequence
IL_8YDE_002Single bulged A
IL_8YDE_004No text annotation
IL_8YDE_005Single stack bend
IL_8YDE_007No text annotation
IL_8YDE_008No text annotation
IL_8YDE_009No text annotation
IL_8YDE_010No text annotation
IL_8YDE_012No text annotation
IL_8YDE_016No text annotation
IL_8YDE_017Single bulged G
IL_8YDE_018Triple sheared
IL_8YDE_021No text annotation
IL_8YDE_022No text annotation
IL_8YDE_023No text annotation
IL_8YDE_027No text annotation
IL_8YDE_029No text annotation
IL_8YDE_030No text annotation
IL_8YDE_032UAA/GAN
IL_8YDE_033No text annotation
IL_8YDE_034No text annotation
IL_8YDE_035No text annotation
IL_8YDE_037No text annotation
IL_8YDE_038No text annotation
IL_8YDE_039Kink-turn
IL_8YDE_040No text annotation
IL_8YDE_041Major groove platform
IL_8YDE_044No text annotation
IL_8YDE_045No text annotation
IL_8YDE_046No text annotation
IL_8YDE_047No text annotation
IL_8YDE_048No text annotation
IL_8YDE_049No text annotation
IL_8YDE_051No text annotation
IL_8YDE_052Single bulged U
IL_8YDE_053No text annotation
IL_8YDE_054No text annotation
IL_8YDE_055No text annotation
IL_8YDE_056No text annotation
IL_8YDE_057No text annotation
IL_8YDE_058No text annotation
IL_8YDE_059No text annotation
IL_8YDE_062No text annotation
IL_8YDE_063No text annotation
IL_8YDE_069No text annotation
IL_8YDE_070No text annotation
IL_8YDE_078No text annotation
IL_8YDE_079No text annotation
IL_8YDE_080No text annotation
IL_8YDE_081No text annotation
IL_8YDE_083No text annotation
IL_8YDE_090No text annotation
IL_8YDE_092No text annotation
IL_8YDE_094No text annotation
IL_8YDE_095No text annotation
IL_8YDE_096UAA/GAN related, with intercalation
IL_8YDE_098No text annotation
IL_8YDE_099No text annotation
IL_8YDE_100Major groove intercalation
IL_8YDE_101No text annotation
IL_8YDE_102No text annotation
IL_8YDE_103Major groove intercalation
IL_8YDE_104No text annotation
IL_8YDE_105Major groove minor groove platform; mini C-loop
IL_8YDE_106No text annotation
IL_8YDE_107No text annotation
IL_8YDE_108No text annotation
IL_8YDE_109No text annotation
IL_8YDE_110No text annotation
IL_8YDE_111No text annotation
IL_8YDE_112No text annotation
IL_8YDE_113No text annotation
IL_8YDE_114Minor groove platform
IL_8YDE_115No text annotation
IL_8YDE_116No text annotation
IL_8YDE_117No text annotation
IL_8YDE_118Isolated cWH basepair
IL_8YDE_119No text annotation
IL_8YDE_120No text annotation
IL_8YDE_121No text annotation
IL_8YDE_122No text annotation
IL_8YDE_123C-loop
IL_8YDE_124No text annotation
IL_8YDE_125No text annotation
IL_8YDE_126No text annotation
IL_8YDE_127No text annotation
IL_8YDE_128No text annotation
IL_8YDE_129No text annotation
IL_8YDE_130No text annotation
IL_8YDE_131SSU/LSU pseudoknot
IL_8YDE_132No text annotation
IL_8YDE_135No text annotation
IL_8YDE_136No text annotation
IL_8YDE_137No text annotation
IL_8YDE_138No text annotation
IL_8YDE_139No text annotation
IL_8YDE_140No text annotation
IL_8YDE_141No text annotation
IL_8YDE_142No text annotation
IL_8YDE_144No text annotation
IL_8YDE_146No text annotation
IL_8YDE_147No text annotation
IL_8YDE_148Minor groove platform
IL_8YDE_149Minor groove platform
IL_8YDE_150No text annotation
IL_8YDE_151No text annotation
IL_8YDE_152No text annotation
IL_8YDE_154Isolated cWS basepair
IL_8YDE_155No text annotation
IL_8YDE_156No text annotation
IL_8YDE_157No text annotation
IL_8YDE_158No text annotation
IL_8YDE_159No text annotation
IL_8YDE_160No text annotation
IL_8YDE_161No text annotation
IL_8YDE_162No text annotation
IL_8YDE_163No text annotation
IL_8YDE_164No text annotation
IL_8YDE_165No text annotation
IL_8YDE_166No text annotation
IL_8YDE_167No text annotation
IL_8YDE_168No text annotation
IL_8YDE_172Single bulged A
IL_8YDE_173No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8YDE_0011/1/30:31,
1/1/474:481,
1/1/509:510		No text annotation
geometric
J3_8B0X_014
J3_68715.1
J3_8YDE_0021/1/30:31,
1/1/474:484,
1/1/496:510		No text annotation
geometric
J3_8B0X_032
J3_17917.1
J3_8YDE_0031/1/32:35,
1/1/445:461,
1/1/468:473		No text annotation
geometric
J3_8B0X_033
J3_07616.1
J3_8YDE_0061/1/683:689,
1/1/773:775,
1/1/791:794		No text annotation
geometric
J3_8B0X_016
J3_46658.1
J3_8YDE_0071/1/698:700,
1/1/732:736,
1/1/760:763		No text annotation
geometric
J3_4WF9_003
J3_69816.1
J3_8YDE_0121/1/1424:1429,
1/1/1564:1565,
1/1/1568:1574		No text annotation
geometric
J3_8B0X_035
J3_34864.3
J3_8YDE_0131/1/2091:2093,
1/1/2196:2200,
1/1/2223:2228		No text annotation
geometric
J3_8B0X_021
J3_17460.1
J3_8YDE_0141/1/2282:2284,
1/1/2384:2395,
1/1/2421:2427		No text annotation
geometric
J3_9E6Q_015
J3_04772.1
J3_8YDE_0151/1/2295:2299,
1/1/2317:2323,
1/1/2332:2337		No text annotation
J3_8YDE_0161/1/2517:2520,
1/1/2545:2547,
1/1/2561:2567		No text annotation
J3_8YDE_0181/1/2812:2815,
1/1/2831:2836,
1/1/2882:2888		No text annotation
J3_8YDE_0241/3/672:673,
1/3/717:725,
1/3/732:734		No text annotation
geometric
J3_8B0X_003
J3_74074.1
J3_8YDE_0251/3/826:829,
1/3/857:861,
1/3/868:874		No text annotation
J3_8YDE_0261/3/936:939,
1/3/1344:1350,
1/3/1372:1379		No text annotation
geometric
J3_8B0X_005
J3_85722.1
J3_8YDE_0271/3/943:946,
1/3/1235:1237,
1/3/1337:1340		No text annotation
geometric
J3_8B0X_006
J3_44359.1
J3_8YDE_0291/3/990:993,
1/3/1045:1047,
1/3/1210:1215		No text annotation
geometric
J3_4LFB_005
J3_84394.1
J3_8YDE_0301/3/990:997,
1/3/1044:1047,
1/3/1210:1215		No text annotation
geometric
J3_8B0X_029
J3_28881.1
J3_8YDE_0311/3/1063:1068,
1/3/1107:1113,
1/3/1187:1193		No text annotation
geometric
J3_8B0X_010
J3_01343.1
J3_8YDE_0351/3/1237:1241,
1/3/1296:1303,
1/3/1334:1337		No text annotation
geometric
J3_8B0X_013
J3_03192.1
J4_8YDE_0011/1/268:269,
1/1/370:375,
1/1/399:406,
1/1/421:424		No text annotation
J4_8YDE_0031/1/1270:1276,
1/1/1294:1295,
1/1/1645:1648,
1/1/2009:2010		No text annotation
J4_8YDE_0061/1/1772:1776,
1/1/1788:1792,
1/1/1827:1830,
1/1/1975:1979		No text annotation
J4_8YDE_0071/1/1833:1835,
1/1/1905:1906,
1/1/1924:1933,
1/1/1967:1972		No text annotation
J4_8YDE_0081/1/2285:2289,
1/1/2343:2347,
1/1/2370:2372,
1/1/2381:2383		No text annotation
J4_8YDE_0101/3/115:122,
1/3/239:240,
1/3/286:289,
1/3/311:312		No text annotation
J4_8YDE_0121/3/575:577,
1/3/764:769,
1/3/810:821,
1/3/879:880		No text annotation
J4_8YDE_0141/6/7:10,
1/6/25:27,
1/6/43:49,
1/6/65:66		No text annotation
J5_8YDE_0021/1/531:533,
1/1/560:566,
1/1/575:579,
1/1/1261:1269,
1/1/2011:2018		No text annotation
J5_8YDE_0031/1/584:589,
1/1/668:671,
1/1/809:812,
1/1/1195:1196,
1/1/1250:1256		No text annotation
J5_8YDE_0051/1/2057:2064,
1/1/2446:2453,
1/1/2500:2507,
1/1/2582:2588,
1/1/2606:2611		No text annotation
J5_8YDE_0061/1/2074:2077,
1/1/2243:2246,
1/1/2258:2259,
1/1/2281:2282,
1/1/2427:2435		No text annotation
J5_8YDE_0091/3/58:61,
1/3/106:113,
1/3/314:316,
1/3/337:339,
1/3/350:354		No text annotation
J6_8YDE_0021/1/2074:2077,
1/1/2243:2246,
1/1/2258:2259,
1/1/2281:2284,
1/1/2384:2395,
1/1/2421:2435		No text annotation
J7_8YDE_0011/1/8:15,
1/1/525:531,
1/1/2018:2023,
1/1/2040:2043,
1/1/2625:2630,
1/1/2788:2789,
1/1/2894:2895		No text annotation
J7_8YDE_0021/1/817:822,
1/1/835:838,
1/1/940:946,
1/1/971:976,
1/1/987:991,
1/1/1163:1164,
1/1/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_8YDE_004No text annotation
J3_8YDE_005No text annotation
J3_8YDE_008No text annotation
J3_8YDE_009No text annotation
J3_8YDE_010No text annotation
J3_8YDE_011No text annotation
J3_8YDE_017No text annotation
J3_8YDE_019No text annotation
J3_8YDE_020No text annotation
J3_8YDE_021No text annotation
J3_8YDE_022No text annotation
J3_8YDE_023No text annotation
J3_8YDE_028No text annotation
J3_8YDE_032No text annotation
J3_8YDE_033No text annotation
J3_8YDE_034No text annotation
J4_8YDE_002No text annotation
J4_8YDE_004No text annotation
J4_8YDE_005No text annotation
J4_8YDE_009No text annotation
J4_8YDE_011No text annotation
J4_8YDE_013No text annotation
J4_8YDE_015No text annotation
J5_8YDE_001No text annotation
J5_8YDE_004No text annotation
J5_8YDE_007No text annotation
J5_8YDE_008No text annotation
J6_8YDE_001No text annotation

Coloring options:
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