RNA 3D Hub //

7L08 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7L08_0011/A/1722:1729No text annotation
geometric
HL_7RQB_006
NA
HL_7L08_0021/A/1746:1752No text annotation
geometric
HL_4WF9_008
HL_76371.1
HL_7L08_0031/A/1786:1791GNRA
homologous
HL_4WF9_015
HL_34789.1
HL_7L08_0041/A/1831:1839Externally structured
geometric
HL_8C3A_022
NA
HL_7L08_0051/A/1847:1856T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_7L08_0061/A/1884:1889No text annotation
geometric
HL_5J7L_143
NA
HL_7L08_0071/A/1933:1941No text annotation
geometric
HL_2ZZM_002
NA
HL_7L08_0081/A/1954:1963No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_7L08_0091/A/1988:1996No text annotation
geometric
HL_5TBW_021
NA
HL_7L08_0101/A/2035:2040No text annotation
homologous
HL_4WF9_025
HL_27530.1
HL_7L08_0111/A/2064:2075No text annotation
HL_7L08_0121/A/2107:2114GNRA
homologous
HL_7A0S_026
HL_34789.1
HL_7L08_0131/A/2129:2136No text annotation
homologous
HL_5J7L_160
NA
HL_7L08_0141/A/2175:2185No text annotation
geometric
HL_5D8H_001
HL_20174.1
HL_7L08_0151/A/2202:2209GNRA wlth tandem sheared
homologous
HL_6PRV_002
HL_98423.1
HL_7L08_0161/A/2279:2286No text annotation
geometric
HL_2Y9H_005
HL_51020.1
HL_7L08_0171/A/2319:2324No text annotation
geometric
HL_5U3G_001
NA
HL_7L08_0191/A/2400:2403Mini UNCG
geometric
HL_5F9R_002
HL_90436.1
HL_7L08_0201/A/2428:2435No text annotation
homologous
HL_7A0S_040
HL_28592.1
HL_7L08_0211/A/2497:2507No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_7L08_0221/A/2518:2532No text annotation
HL_7L08_0231/A/2555:2560No text annotation
geometric
HL_4V9F_011
HL_75660.6
HL_7L08_0251/A/2612:2620No text annotation
homologous
HL_7A0S_048
HL_61418.1
HL_7L08_0261/A/2690:2699No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_7L08_0281/A/2812:2820No text annotation
homologous
HL_7A0S_052
HL_11974.1
HL_7L08_0291/A/2828:2840No text annotation
HL_7L08_0301/A/2862:2870No text annotation
geometric
HL_2ZZM_002
NA
HL_7L08_0311/A/2902:2907GNRA
geometric
HL_5TBW_019
NA
HL_7L08_0321/A/2958:2966No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_7L08_0331/A/3015:3022GNRA variation
homologous
HL_5J7L_194
NA
HL_7L08_0341/A/3038:3044No text annotation
homologous
HL_4WF9_058
HL_48677.1
HL_7L08_0351/A/3081:3086GNRA
homologous
HL_7A0S_062
HL_34789.1
HL_7L08_0371/A/3154:3159No text annotation
geometric
HL_4WRT_001
HL_19413.1
HL_7L08_0381/A/3176:3193No text annotation
geometric
HL_7A0S_074
NA
HL_7L08_0391/A/3216:3224No text annotation
geometric
HL_7RQB_068
NA
HL_7L08_0401/AA/654:664No text annotation
geometric
HL_4LFB_001
HL_31940.1
HL_7L08_0411/AA/701:708No text annotation
geometric
HL_2ZZM_002
NA
HL_7L08_0421/AA/734:740No text annotation
geometric
HL_8C3A_039
NA
HL_7L08_0441/AA/792:796No text annotation
geometric
HL_6U8D_003
HL_32346.5
HL_7L08_0451/AA/804:809No text annotation
HL_7L08_0461/AA/842:847GNRA
geometric
HL_4PQV_001
NA
HL_7L08_0471/AA/894:899GNRA
geometric
HL_1G1X_003
NA
HL_7L08_0481/AA/989:998No text annotation
geometric
HL_5J7L_015
NA
HL_7L08_0491/AA/1023:1028GNRA
geometric
HL_4LFB_016
HL_34789.1
HL_7L08_0501/AA/1074:1084No text annotation
geometric
HL_5J7L_017
NA
HL_7L08_0511/AA/1115:1126No text annotation
geometric
HL_2Y8W_001
NA
HL_7L08_0521/AA/1150:1155No text annotation
geometric
HL_4V9F_003
HL_75660.6
HL_7L08_0531/AA/1217:1226No text annotation
homologous
HL_5J7L_021
NA
HL_7L08_0541/AA/1281:1287No text annotation
geometric
HL_5U3G_001
NA
HL_7L08_0551/AA/1310:1315Externally structured
geometric
HL_8C3A_022
NA
HL_7L08_0601/AA/1580:1585No text annotation
geometric
HL_5NFV_001
HL_69752.3
HL_7L08_0621/B/1630:1638Anticodon loop related
geometric
HL_5T83_002
NA

Problematic loops

#loop idProblemSequence
HL_7L08_018No text annotation
HL_7L08_024No text annotation
HL_7L08_027No text annotation
HL_7L08_036GNRA
HL_7L08_043GNRA
HL_7L08_056No text annotation
HL_7L08_057No text annotation
HL_7L08_063T-loop with 2 stacked bulged bases
HL_7L08_058No text annotation
HL_7L08_059No text annotation
HL_7L08_061tRNA D-loop

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7L08_0011/A/1672:1678,
1/A/1797:1816		No text annotation
IL_7L08_0021/A/1682:1683,
1/A/1768:1770		Single bulged A
homologous
IL_7A0S_002
IL_14190.1
IL_7L08_1041/A/1684:1739,
1/A/1758:1767		No text annotation
IL_7L08_0031/A/1739:1745,
1/A/1753:1758		7x6 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_106
IL_02666.1
IL_7L08_0041/A/1845:1847,
1/A/1856:1858		Isolated non-canonical cWW pair
geometric
IL_3SZX_001
IL_01003.1
IL_7L08_0051/A/1877:1879,
1/A/1895:1897		Isolated non-canonical cWW pair
geometric
IL_3GM7_002
IL_01003.1
IL_7L08_0061/A/1880:1883,
1/A/1890:1894		No text annotation
IL_7L08_0071/A/1904:1906,
1/A/2016:2018		Isolated non-canonical cWW pair
geometric
IL_7A0S_014
IL_01003.1
IL_7L08_0081/A/1906:1910,
1/A/2009:2016		tHW-tHW cross-strand stack
homologous
IL_5J7L_260
NA
IL_7L08_0091/A/1913:1915,
1/A/2004:2006		Isolated non-canonical cWW pair
geometric
IL_5TBW_079
NA
IL_7L08_0101/A/1925:1927,
1/A/1977:1979		Isolated non-canonical cWW contact
geometric
IL_5UNE_001
NA
IL_7L08_0111/A/1929:1930,
1/A/1973:1975		Single bulged A
geometric
IL_4V9F_025
IL_14190.1
IL_7L08_0121/A/1948:1951,
1/A/1966:1968		Major groove platform with extra cWW
homologous
IL_7A0S_019
IL_36931.1
IL_7L08_0131/A/1985:1987,
1/A/1997:2001		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_7L08_0141/A/2046:2048,
1/A/2091:2094		No text annotation
geometric
IL_4N0T_004
IL_32983.1
IL_7L08_0151/A/2057:2063,
1/A/2076:2082		No text annotation
IL_7L08_0161/A/2145:2147,
1/A/2254:2255		Single bulged C
homologous
IL_5J7L_276
NA
IL_7L08_0171/A/2149:2153,
1/A/2248:2252		UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_7L08_1131/A/2170:2174,
1/A/2186:2190		No text annotation
IL_7L08_0201/A/2197:2200,
1/A/2211:2212		No text annotation
homologous
IL_6PRV_002
NA
IL_7L08_0211/A/2306:2313,
1/A/2674:2680		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_7L08_0221/A/2329:2333,
1/A/2441:2448		No text annotation
IL_7L08_0231/A/2349:2355,
1/A/2360:2364		No text annotation
IL_7L08_1061/A/2377:2381,
1/A/2411:2419		No text annotation
IL_7L08_1071/A/2384:2400,
1/A/2403:2408		No text annotation
IL_7L08_0241/A/2456:2461,
1/A/2666:2668		No text annotation
IL_7L08_0251/A/2467:2469,
1/A/2658:2660		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_7L08_0261/A/2470:2473,
1/A/2656:2657		Major groove platform; stack outside cWW
homologous
IL_5J7L_306
NA
IL_7L08_1081/A/2470:2487,
1/A/2648:2657		No text annotation
IL_7L08_0271/A/2473:2487,
1/A/2648:2656		No text annotation
IL_7L08_0281/A/2490:2491,
1/A/2643:2645		Single bulged A
homologous
IL_5J7L_312
NA
IL_7L08_0291/A/2548:2551,
1/A/2566:2567		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_7L08_0301/A/2552:2553,
1/A/2562:2565		Major groove intercalation
homologous
IL_7A0S_067
IL_78536.1
IL_7L08_0311/A/2596:2597,
1/A/2627:2630		Multiple bulged bases
geometric
IL_7V9E_001
NA
IL_7L08_0321/A/2597:2608,
1/A/2624:2627		No text annotation
homologous
IL_4WF9_077
IL_84014.1
IL_7L08_0331/A/2712:2715,
1/A/3104:3106		No text annotation
geometric
IL_6DME_003
IL_75527.1
IL_7L08_0341/A/2717:2719,
1/A/3099:3102		No text annotation
homologous
IL_4WF9_079
IL_80025.1
IL_7L08_0351/A/2730:2732,
1/A/2929:2930		Single bulged U
homologous
IL_7A0S_075
IL_97561.1
IL_7L08_0361/A/2733:2734,
1/A/2925:2928		Minor groove platform
homologous
IL_5J7L_324
NA
IL_7L08_0371/A/2744:2746,
1/A/2802:2803		Minor groove platform
geometric
IL_7A0S_003
IL_34520.1
IL_7L08_0381/A/2753:2758,
1/A/2789:2795		No text annotation
IL_7L08_1091/A/2857:2860,
1/A/2872:2875		Double sheared
geometric
IL_4WF9_016
IL_58355.1
IL_7L08_0411/A/2940:2941,
1/A/2985:2987		Single stack bend
geometric
IL_7RQB_091
NA
IL_7L08_0421/A/2941:2942,
1/A/2983:2985		Major groove platform
homologous
IL_4WF9_090
IL_48076.7
IL_7L08_0431/A/2943:2946,
1/A/2980:2982		Major groove platform with extra pair
geometric
IL_7RQB_093
NA
IL_7L08_0441/A/2946:2948,
1/A/2976:2980		Major groove minor groove platform with extra cWW
homologous
IL_4WF9_092
IL_36931.1
IL_7L08_0451/A/2953:2955,
1/A/2968:2971		No text annotation
geometric
IL_4P3T_002
NA
IL_7L08_0461/A/2955:2957,
1/A/2967:2968		Minor groove platform
geometric
IL_4V88_412
NA
IL_7L08_0471/A/2994:2995,
1/A/3067:3069		Major groove platform
homologous
IL_4WF9_094
IL_46637.1
IL_7L08_0481/A/2997:2999,
1/A/3061:3065		Isolated non-canonical cWW with bulges
homologous
IL_4WF9_095
IL_68118.1
IL_7L08_0491/A/2999:3000,
1/A/3058:3061		No text annotation
geometric
IL_5J7L_341
NA
IL_7L08_0501/A/3008:3010,
1/A/3027:3031		No text annotation
IL_7L08_0511/A/3078:3079,
1/A/3088:3090		Single bulged A
homologous
IL_5J7L_344
NA
IL_7L08_0521/A/3115:3117,
1/A/3139:3141		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_7L08_0541/A/3148:3152,
1/A/3161:3163		Major groove minor groove platform with tHH
geometric
IL_4WF9_050
IL_06671.1
IL_7L08_0551/AA/649:651,
1/AA/667:668		No text annotation
IL_7L08_0561/AA/674:676,
1/AA/921:923		Isolated non-canonical cWW pair
geometric
IL_1YZ9_001
NA
IL_7L08_0571/AA/685:686,
1/AA/859:861		Single bulged A
geometric
IL_5J7L_002
NA
IL_7L08_0581/AA/690:692,
1/AA/822:823		Single bulged A
geometric
IL_6WPI_001
IL_14190.1
IL_7L08_0591/AA/694:696,
1/AA/819:820		Minor groove platform
geometric
IL_4LFB_004
IL_34520.1
IL_7L08_0601/AA/727:729,
1/AA/744:747		Minor groove platform with extra cWW
geometric
IL_7RQB_031
NA
IL_7L08_0611/AA/729:732,
1/AA/742:744		No text annotation
geometric
IL_4V9F_053
IL_86407.1
IL_7L08_0621/AA/756:761,
1/AA/779:786		Kink-turn with non-sequential stacking
geometric
IL_6CZR_123
NA
IL_7L08_0631/AA/762:765,
1/AA/777:778		Major groove platform; stack outside cWW
geometric
IL_1NTA_003
IL_74641.1
IL_7L08_1111/AA/762:766,
1/AA/775:778		No text annotation
IL_7L08_0641/AA/765:766,
1/AA/775:777		No text annotation
IL_7L08_0651/AA/830:832,
1/AA/855:856		Single bulged U
geometric
IL_4V9F_074
IL_97561.1
IL_7L08_0661/AA/834:838,
1/AA/852:853		C-loop
geometric
IL_5J7L_018
NA
IL_7L08_0671/AA/838:839,
1/AA/850:852		Single bulged A
geometric
IL_6WPI_001
IL_14190.1
IL_7L08_0681/AA/876:885,
1/AA/910:913		No text annotation
IL_7L08_0691/AA/887:893,
1/AA/900:908		Kink-turn related
geometric
IL_4V88_415
NA
IL_7L08_0701/AA/935:941,
1/AA/1133:1134		Major groove intercalation
geometric
IL_1U9S_003
NA
IL_7L08_0711/AA/946:950,
1/AA/1044:1049		UAA/GAN
geometric
IL_5TBW_063
NA
IL_7L08_1141/AA/974:980,
1/AA/1008:1014		No text annotation
IL_7L08_0731/AA/982:984,
1/AA/1004:1006		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_01003.1
IL_7L08_0741/AA/986:988,
1/AA/999:1002		No text annotation
IL_7L08_0751/AA/1020:1022,
1/AA/1029:1030		Other IL
geometric
IL_3WBM_004
NA
IL_7L08_0761/AA/1062:1066,
1/AA/1092:1093		Left turn
geometric
IL_5J7L_036
NA
IL_7L08_0771/AA/1067:1071,
1/AA/1087:1091		tSH-tHW-tHS
geometric
IL_5J7L_037
NA
IL_7L08_0781/AA/1109:1111,
1/AA/1130:1132		Isolated non-canonical cWW pair
geometric
IL_1Z7F_002
NA
IL_7L08_0791/AA/1139:1147,
1/AA/1158:1164		No text annotation
IL_7L08_0801/AA/1175:1176,
1/AA/1477:1479		Single bulged A
geometric
IL_4LFB_035
IL_14190.1
IL_7L08_0811/AA/1178:1180,
1/AA/1474:1475		Single bulged G
geometric
IL_6CZR_148
NA
IL_7L08_0851/AA/1253:1255,
1/AA/1338:1339		Single bulged C
geometric
IL_6ZDP_001
NA
IL_7L08_0881/AA/1265:1266,
1/AA/1325:1327		Single bulged A
geometric
IL_5J7L_049
NA
IL_7L08_0891/AA/1266:1268,
1/AA/1323:1325		Isolated non-canonical cWW pair
geometric
IL_4V83_235
IL_01003.1
IL_7L08_0901/AA/1274:1277,
1/AA/1298:1301		Double sheared
geometric
IL_1SAQ_002
NA
IL_7L08_0911/AA/1278:1279,
1/AA/1289:1297		No text annotation
geometric
IL_8S95_001
NA
IL_7L08_0941/AA/1483:1485,
1/AA/1566:1569		No text annotation
geometric
IL_5J7L_058
NA
IL_7L08_0951/AA/1485:1488,
1/AA/1562:1566		No text annotation
geometric
IL_4V88_464
NA
IL_7L08_0961/AA/1489:1491,
1/AA/1559:1561		Isolated non-canonical cWW pair
geometric
IL_5MWI_002
NA
IL_7L08_0971/AA/1491:1495,
1/AA/1554:1559		No text annotation
geometric
IL_5TBW_121
NA
IL_7L08_1161/AA/1500:1503,
1/AA/1547:1549		No text annotation
IL_7L08_0991/AA/1507:1510,
1/AA/1540:1543		Tandem non-canonical cWW pairs
geometric
IL_6MWN_005
IL_71194.1
IL_7L08_1001/AA/1510:1511,
1/AA/1538:1540		No text annotation
IL_7L08_1011/AA/1511:1516,
1/AA/1533:1538		No text annotation
IL_7L08_1031/B/1627:1629,
1/B/1639:1641		Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_01003.1

Problematic loops

#loop idProblemSequence
IL_7L08_105No text annotation
IL_7L08_018Isolated near basepair
IL_7L08_019No text annotation
IL_7L08_039No text annotation
IL_7L08_040Double sheared with non-canonical cWW
IL_7L08_0538x7 Sarcin-Ricin; G-bulge
IL_7L08_110Tandem non-canonical cWW pairs
IL_7L08_072No text annotation
IL_7L08_082C-loop
IL_7L08_083Minor groove platform
IL_7L08_084No text annotation
IL_7L08_115No text annotation
IL_7L08_086Isolated cWS basepair
IL_7L08_112No text annotation
IL_7L08_087Minor groove platform
IL_7L08_092No text annotation
IL_7L08_093Single stack bend
IL_7L08_098No text annotation
IL_7L08_102No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7L08_0141/A/1678:1681,
1/A/1771:1785,
1/A/1792:1797		No text annotation
J3_7L08_0011/A/1915:1921,
1/A/1983:1985,
1/A/2001:2004		No text annotation
homologous
J3_7A0S_004
J3_46658.1
J3_7L08_0021/A/1930:1932,
1/A/1942:1946,
1/A/1970:1973		No text annotation
homologous
J3_4WF9_003
J3_69816.1
J3_7L08_0151/A/2153:2168,
1/A/2192:2197,
1/A/2212:2248		No text annotation
J3_7L08_0031/A/2336:2343,
1/A/2423:2427,
1/A/2436:2438		No text annotation
J3_7L08_0041/A/2343:2345,
1/A/2368:2375,
1/A/2421:2423		No text annotation
J3_7L08_0161/A/2846:2848,
1/A/2890:2900,
1/A/2909:2915		No text annotation
J3_7L08_0051/A/3004:3007,
1/A/3032:3034,
1/A/3048:3054		No text annotation
homologous
J3_4WF9_009
J3_32601.6
J3_7L08_0061/AA/677:680,
1/AA/866:872,
1/AA/917:920		No text annotation
J3_7L08_0071/AA/687:690,
1/AA/823:830,
1/AA/856:858		No text annotation
J3_7L08_0081/AA/973:974,
1/AA/1014:1020,
1/AA/1030:1031		No text annotation
J3_7L08_0091/AA/1192:1194,
1/AA/1428:1434,
1/AA/1456:1462		No text annotation
J3_7L08_0111/AA/1210:1216,
1/AA/1227:1238,
1/AA/1351:1354		No text annotation
J3_7L08_0171/AA/1268:1273,
1/AA/1302:1308,
1/AA/1317:1323		No text annotation
homologous
J3_4LFB_007
J3_01343.1
J4_7L08_0011/A/2314:2317,
1/A/2326:2327,
1/A/2450:2453,
1/A/2671:2673		No text annotation
J4_7L08_0021/A/2336:2345,
1/A/2368:2375,
1/A/2421:2427,
1/A/2436:2438		No text annotation
J4_7L08_0031/A/2492:2496,
1/A/2508:2513,
1/A/2537:2542,
1/A/2637:2642		No text annotation
J4_7L08_0041/A/2544:2546,
1/A/2569:2570,
1/A/2587:2596,
1/A/2630:2635		No text annotation
homologous
J4_5J7L_026
NA
J4_7L08_0051/A/3111:3113,
1/A/3143:3144,
1/A/3167:3174,
1/A/3195:3202		No text annotation
J4_7L08_0061/AA/698:701,
1/AA/708:715,
1/AA/800:802,
1/AA/811:817		No text annotation
J4_7L08_0071/AA/717:725,
1/AA/749:753,
1/AA/789:791,
1/AA/797:798		No text annotation
J4_7L08_0081/AA/941:943,
1/AA/1052:1057,
1/AA/1098:1109,
1/AA/1132:1133		No text annotation
homologous
J4_5J7L_003
NA
J5_7L08_0011/A/1827:1829,
1/A/1841:1845,
1/A/1858:1860,
1/A/2305:2306,
1/A/2680:2681		No text annotation
homologous
J5_7A0S_003
J5_43153.6
J5_7L08_0021/A/1865:1875,
1/A/1899:1903,
1/A/2019:2022,
1/A/2271:2275,
1/A/2290:2300		No text annotation
J5_7L08_0031/A/2720:2727,
1/A/2933:2940,
1/A/2987:2994,
1/A/3069:3075,
1/A/3093:3098		No text annotation
J5_7L08_0041/A/2737:2740,
1/A/2807:2810,
1/A/2822:2823,
1/A/2845:2846,
1/A/2915:2922		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_7L08_0011/A/2027:2032,
1/A/2043:2045,
1/A/2095:2098,
1/A/2123:2127,
1/A/2138:2143,
1/A/2257:2266		No text annotation
J6_7L08_0021/A/2737:2740,
1/A/2807:2810,
1/A/2822:2823,
1/A/2845:2848,
1/A/2890:2900,
1/A/2909:2922		No text annotation

Problematic loops

#loop idProblemSequence
J3_7L08_010No text annotation
J3_7L08_012No text annotation
J3_7L08_013No text annotation

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