RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5MRE_0031/A/153:158No text annotation
geometric
HL_5TBW_006
NA
HL_5MRE_0051/A/234:241No text annotation
homologous
HL_4WF9_006
HL_48677.1
HL_5MRE_0061/A/265:270No text annotation
homologous
HL_5J7L_140
NA
HL_5MRE_0071/A/286:292No text annotation
homologous
HL_7A0S_008
HL_76371.2
HL_5MRE_0081/A/324:332GNRA related
geometric
HL_5J7L_179
NA
HL_5MRE_0091/A/347:355No text annotation
homologous
HL_9DFE_013
HL_30680.5
HL_5MRE_0101/A/393:398GNRA
homologous
HL_7RQB_015
NA
HL_5MRE_0111/A/441:448Mini UNCG with extended bulge
homologous
HL_7A0S_017
HL_90436.3
HL_5MRE_0121/A/465:474T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
NA
HL_5MRE_0131/A/505:511GNRA
geometric
HL_8DP3_003
HL_34789.4
HL_5MRE_0141/A/539:546GNRA wlth tandem sheared
geometric
HL_3HHN_010
HL_98423.3
HL_5MRE_0151/A/612:619No text annotation
geometric
HL_5U3G_001
HL_75660.7
HL_5MRE_0161/A/635:644No text annotation
homologous
HL_7RQB_023
NA
HL_5MRE_0171/A/670:676No text annotation
homologous
HL_5J7L_156
NA
HL_5MRE_0181/A/717:722No text annotation
homologous
HL_5J7L_157
NA
HL_5MRE_0191/A/881:888GNRA
homologous
HL_7RQB_027
NA
HL_5MRE_0201/A/904:911No text annotation
homologous
HL_4WF9_028
HL_47171.1
HL_5MRE_0221/A/1075:1078Mini UNCG
geometric
HL_6JOO_002
HL_90436.3
HL_5MRE_0251/A/1254:1258Mini UNCG
geometric
HL_5J7L_204
NA
HL_5MRE_0261/A/1313:1320No text annotation
HL_5MRE_0271/A/1343:1351No text annotation
HL_5MRE_0281/A/1384:1389No text annotation
geometric
HL_4WF9_003
HL_75660.7
HL_5MRE_0301/A/1564:1571No text annotation
homologous
HL_7RQB_040
NA
HL_5MRE_0311/A/1581:1589GNRA with extra cWW
homologous
HL_4WF9_039
HL_87268.2
HL_5MRE_0321/A/1643:1649UNCG
geometric
HL_6JQ6_004
HL_61337.3
HL_5MRE_0331/A/1684:1694No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_5MRE_0341/A/1713:1719GNRA
homologous
HL_7RQB_046
NA
HL_5MRE_0351/A/1773:1778GNRA
homologous
HL_7RQB_047
NA
HL_5MRE_0361/A/1811:1820No text annotation
homologous
HL_9DFE_046
HL_82185.1
HL_5MRE_0371/A/1849:1857No text annotation
homologous
HL_5J7L_182
NA
HL_5MRE_0381/A/1927:1936No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_5MRE_0421/A/2290:2302No text annotation
homologous
HL_5J7L_187
NA
HL_5MRE_0431/A/2327:2332No text annotation
geometric
HL_1WZ2_007
HL_75660.7
HL_5MRE_0441/A/2357:2363No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_5MRE_0461/A/2454:2462No text annotation
geometric
HL_4V9F_057
HL_02452.1
HL_5MRE_0481/A/2590:2597Pseudoknot geometry
homologous
HL_5J7L_189
NA
HL_5MRE_0491/A/2622:2629GNRA with extra cWW
homologous
HL_4WF9_053
HL_87268.2
HL_5MRE_0501/A/2641:2646GNRA
homologous
HL_7RQB_058
NA
HL_5MRE_0511/A/2671:2680No text annotation
homologous
HL_5J7L_192
NA
HL_5MRE_0521/A/2737:2745No text annotation
homologous
HL_7A0S_059
HL_52011.1
HL_5MRE_0531/A/2794:2802GNRA variation
homologous
HL_7A0S_060
HL_46665.2
HL_5MRE_0541/A/2818:2824No text annotation
homologous
HL_4WF9_058
HL_48677.1
HL_5MRE_0551/A/2861:2866GNRA
homologous
HL_7RQB_063
NA
HL_5MRE_0561/A/2925:2930GNRA
homologous
HL_5J7L_197
NA
HL_5MRE_0581/A/3019:3026Pseudoknot geometry
geometric
HL_3HHN_009
HL_30680.5
HL_5MRE_0591/A/3081:3096No text annotation
homologous
HL_5J7L_199
NA
HL_5MRE_0601/A/3135:3143No text annotation
geometric
HL_7RQB_068
NA
HL_5MRE_0621/aa/19:29No text annotation
homologous
HL_4LFB_001
HL_73535.1
HL_5MRE_0641/aa/152:160tRNA anticodon loop
geometric
HL_5L4O_002
NA
HL_5MRE_0971/aa/263:272GNRA related
homologous
HL_6CZR_077
NA
HL_5MRE_0681/aa/302:307GNRA
homologous
HL_6CZR_078
NA
HL_5MRE_0691/aa/327:337No text annotation
geometric
HL_8C3A_201
NA
HL_5MRE_0701/aa/347:350Mini UNCG
geometric
HL_4V88_192
NA
HL_5MRE_0711/aa/383:388GNRA
homologous
HL_4LFB_010
HL_34789.4
HL_5MRE_0731/aa/491:498No text annotation
geometric
HL_7RQB_019
NA
HL_5MRE_0741/aa/521:529No text annotation
geometric
HL_4WF9_009
HL_40612.1
HL_5MRE_0771/aa/636:641Externally structured
geometric
HL_5TBW_022
NA
HL_5MRE_0791/aa/753:765No text annotation
HL_5MRE_0801/aa/792:797GNRA
homologous
HL_5J7L_016
NA
HL_5MRE_0811/aa/851:861No text annotation
homologous
HL_5J7L_017
NA
HL_5MRE_0821/aa/928:933GNRA
homologous
HL_5J7L_019
NA
HL_5MRE_0831/aa/962:967GNRA
homologous
HL_4LFB_020
HL_34789.4
HL_5MRE_0841/aa/1028:1037No text annotation
homologous
HL_5J7L_021
NA
HL_5MRE_0851/aa/1123:1128GNRA
homologous
HL_5J7L_023
NA
HL_5MRE_0861/aa/1136:1143T-loop related
homologous
HL_4LFB_025
HL_63894.2
HL_5MRE_0871/aa/1171:1180No text annotation
HL_5MRE_0891/aa/1301:1308tRNA anticodon loop
geometric
HL_6JXM_002
HL_97725.1
HL_5MRE_0901/aa/1349:1354Mini UNCG
geometric
HL_4OOG_001
HL_12626.2
HL_5MRE_0911/aa/1382:1391T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_93658.1
HL_5MRE_0921/aa/1425:1435No text annotation
homologous
HL_5J7L_029
NA
HL_5MRE_0931/aa/1607:1612GNRA
homologous
HL_4LFB_032
HL_34789.4
HL_5MRE_0941/bb/12:23No text annotation
homologous
HL_5IB8_207
NA
HL_5MRE_0951/bb/31:39No text annotation
homologous
HL_4V8N_144
NA
HL_5MRE_0961/bb/53:61T-loop with 2 stacked bulged bases
homologous
HL_6ORD_037
NA

Problematic loops

#loop idProblemSequence
HL_5MRE_001No text annotation
HL_5MRE_002No text annotation
HL_5MRE_004No text annotation
HL_5MRE_021No text annotation
HL_5MRE_023No text annotation
HL_5MRE_024Mini UNCG
HL_5MRE_029No text annotation
HL_5MRE_039No text annotation
HL_5MRE_040No text annotation
HL_5MRE_041No text annotation
HL_5MRE_045No text annotation
HL_5MRE_047No text annotation
HL_5MRE_057No text annotation
HL_5MRE_061No text annotation
HL_5MRE_063No text annotation
HL_5MRE_065No text annotation
HL_5MRE_066No text annotation
HL_5MRE_067No text annotation
HL_5MRE_072No text annotation
HL_5MRE_075No text annotation
HL_5MRE_076No text annotation
HL_5MRE_078No text annotation
HL_5MRE_088No text annotation
HL_5MRE_098No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5MRE_0011/A/22:24,
1/A/3275:3277		Isolated non-canonical cWW pair
geometric
IL_3RG5_002
IL_68118.3
IL_5MRE_0021/A/25:32,
1/A/3273:3274		No text annotation
IL_5MRE_0031/A/58:63,
1/A/407:413		Triple sheared with non-canonical cWW
geometric
IL_7A0S_018
IL_29495.1
IL_5MRE_0041/A/96:97,
1/A/378:380		Single bulged A
homologous
IL_7RQB_002
NA
IL_5MRE_0051/A/113:121,
1/A/140:145		No text annotation
IL_5MRE_0061/A/173:176,
1/A/202:205		Tandem non-canonical cWW pairs
geometric
IL_4WF9_109
NA
IL_5MRE_0071/A/223:224,
1/A/252:254		Single stack bend
homologous
IL_5J7L_249
NA
IL_5MRE_0081/A/228:234,
1/A/241:248		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_250
NA
IL_5MRE_0091/A/279:285,
1/A/293:298		7x6 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_007
NA
IL_5MRE_0101/A/433:436,
1/A/453:456		No text annotation
IL_5MRE_0111/A/463:465,
1/A/474:476		No text annotation
homologous
IL_7RQB_015
NA
IL_5MRE_0121/A/537:539,
1/A/546:548		Isolated non-canonical cWW pair
geometric
IL_5TBW_046
NA
IL_5MRE_0131/A/581:583,
1/A/697:699		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_01003.3
IL_5MRE_0141/A/583:587,
1/A/690:697		tHW-tHW cross-strand stack
homologous
IL_7RQB_018
NA
IL_5MRE_0151/A/606:607,
1/A/654:656		Single bulged A
homologous
IL_5J7L_261
NA
IL_5MRE_0161/A/611:612,
1/A/619:621		Single bulged G
homologous
IL_4WF9_023
IL_28408.2
IL_5MRE_0171/A/629:632,
1/A/647:649		Major groove platform with extra cWW
homologous
IL_7RQB_022
NA
IL_5MRE_0181/A/666:669,
1/A/677:682		No text annotation
IL_5MRE_0191/A/728:729,
1/A/866:868		Single stack bend
homologous
IL_7RQB_024
NA
IL_5MRE_0201/A/734:738,
1/A/858:861		Tandem non-canonical cWW pairs
geometric
IL_6CZR_141
NA
IL_5MRE_1541/A/734:740,
1/A/855:861		No text annotation
IL_5MRE_0211/A/738:740,
1/A/855:858		No text annotation
IL_5MRE_0221/A/780:785,
1/A/841:846		5x5 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_7A0S_027
NA
IL_5MRE_0231/A/785:786,
1/A/839:841		Minor groove platform related
geometric
IL_7TZS_003
IL_34520.3
IL_5MRE_0241/A/787:791,
1/A/835:838		C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_5MRE_0251/A/797:799,
1/A/828:829		Single bulged A
geometric
IL_5TBW_060
NA
IL_5MRE_1551/A/806:807,
1/A/818:820		Single stack bend
geometric
IL_5J7L_032
NA
IL_5MRE_0271/A/807:809,
1/A/817:818		Single stack bend
geometric
IL_5J7L_032
NA
IL_5MRE_0281/A/877:879,
1/A/890:892		Isolated non-canonical cWW pair
homologous
IL_7A0S_031
IL_01003.3
IL_5MRE_0291/A/919:922,
1/A/1179:1181		Major groove platform with extra pair
geometric
IL_5TBW_091
NA
IL_5MRE_0301/A/924:928,
1/A/1173:1177		UAA/GAN
geometric
IL_4WF9_036
IL_08938.1
IL_5MRE_0311/A/943:949,
1/A/1106:1120		No text annotation
geometric
IL_7RQB_039
NA
IL_5MRE_1561/A/950:957,
1/A/1091:1105		No text annotation
IL_5MRE_0321/A/1230:1232,
1/A/1280:1283		Isolated cWS basepair
homologous
IL_5J7L_286
NA
IL_5MRE_0331/A/1237:1244,
1/A/1268:1275		No text annotation
IL_5MRE_0341/A/1295:1302,
1/A/1911:1917		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_5MRE_0351/A/1355:1362,
1/A/1403:1409		No text annotation
IL_5MRE_0361/A/1364:1368,
1/A/1397:1401		UAA/GAN
homologous
IL_5J7L_292
NA
IL_5MRE_0371/A/1370:1372,
1/A/1394:1395		Single bulged A
geometric
IL_4V88_409
NA
IL_5MRE_0381/A/1372:1374,
1/A/1392:1394		Isolated non-canonical cWW pair
geometric
IL_3RG5_002
IL_68118.3
IL_5MRE_0401/A/1411:1413,
1/A/1545:1549		No text annotation
IL_5MRE_0411/A/1426:1428,
1/A/1525:1527		Isolated non-canonical cWW pair
geometric
IL_5TBW_042
NA
IL_5MRE_0421/A/1433:1435,
1/A/1486:1488		Isolated non-canonical cWW pair
geometric
IL_3D0U_006
IL_01003.3
IL_5MRE_0431/A/1437:1440,
1/A/1481:1484		Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_15225.2
IL_5MRE_0441/A/1492:1493,
1/A/1515:1521		No text annotation
IL_5MRE_0451/A/1603:1608,
1/A/1904:1906		No text annotation
homologous
IL_5J7L_304
NA
IL_5MRE_0461/A/1615:1617,
1/A/1895:1897		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_5MRE_0471/A/1618:1621,
1/A/1893:1894		Major groove platform; stack outside cWW
geometric
IL_7RQB_066
NA
IL_5MRE_1571/A/1618:1626,
1/A/1890:1894		No text annotation
homologous
IL_5J7L_386
NA
IL_5MRE_0481/A/1621:1626,
1/A/1890:1893		Intercalated tWH
geometric
IL_5J7L_307
NA
IL_5MRE_0491/A/1635:1636,
1/A/1658:1668		No text annotation
IL_5MRE_0501/A/1638:1643,
1/A/1649:1656		No text annotation
IL_5MRE_0511/A/1677:1678,
1/A/1880:1882		Single bulged A
homologous
IL_7RQB_069
NA
IL_5MRE_0521/A/1705:1711,
1/A/1721:1729		Kink-turn related
homologous
IL_7RQB_070
NA
IL_5MRE_0531/A/1738:1740,
1/A/1873:1876		No text annotation
IL_5MRE_1641/A/1745:1748,
1/A/1803:1804		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_5MRE_0551/A/1749:1750,
1/A/1799:1802		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_5MRE_0561/A/1755:1757,
1/A/1793:1794		No text annotation
IL_5MRE_0571/A/1757:1764,
1/A/1786:1793		No text annotation
IL_5MRE_0581/A/1764:1766,
1/A/1785:1786		Single stack bend
geometric
IL_5J7L_269
NA
IL_5MRE_0591/A/1833:1834,
1/A/1864:1867		Bulged stacked bases
geometric
IL_4V9F_070
IL_24886.2
IL_5MRE_0601/A/1834:1845,
1/A/1861:1864		No text annotation
homologous
IL_4WF9_077
IL_84014.1
IL_5MRE_0611/A/1950:1952,
1/A/2884:2885		Major groove platform
homologous
IL_5J7L_320
NA
IL_5MRE_0621/A/1954:1956,
1/A/2879:2882		Major groove platform with intercalation
geometric
IL_5TBW_092
NA
IL_5MRE_0631/A/1967:1969,
1/A/2708:2709		Single bulged U
homologous
IL_7RQB_080
NA
IL_5MRE_0641/A/1970:1971,
1/A/2704:2707		Minor groove platform
homologous
IL_4WF9_081
IL_34520.3
IL_5MRE_0651/A/1981:1983,
1/A/2262:2265		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_5MRE_0661/A/1988:1991,
1/A/2256:2257		Multiple bulged bases
geometric
IL_4LFB_007
IL_75289.1
IL_5MRE_0671/A/2185:2187,
1/A/2201:2203		Isolated non-canonical cWW pair
geometric
IL_3GM7_006
IL_01003.3
IL_5MRE_0681/A/2287:2288,
1/A/2304:2306		No text annotation
IL_5MRE_0691/A/2437:2440,
1/A/2608:2610		No text annotation
IL_5MRE_0701/A/2469:2472,
1/A/2578:2580		Minor groove platform with extra cWW
geometric
IL_5J7L_006
NA
IL_5MRE_0711/A/2617:2620,
1/A/2631:2634		Double sheared
homologous
IL_7RQB_089
NA
IL_5MRE_0721/A/2668:2670,
1/A/2681:2682		Major groove platform
homologous
IL_7RQB_090
NA
IL_5MRE_0731/A/2720:2721,
1/A/2762:2764		Major groove platform
geometric
IL_1I6U_001
IL_48076.8
IL_5MRE_0741/A/2723:2725,
1/A/2759:2760		Major groove platform
geometric
IL_4WF9_091
IL_48076.8
IL_5MRE_0751/A/2725:2727,
1/A/2755:2759		Major groove minor groove platform with extra cWW
homologous
IL_5J7L_337
NA
IL_5MRE_1581/A/2731:2736,
1/A/2746:2751		No text annotation
IL_5MRE_0771/A/2773:2774,
1/A/2847:2849		Major groove platform
homologous
IL_7A0S_088
IL_46637.2
IL_5MRE_0781/A/2776:2778,
1/A/2841:2845		Isolated non-canonical cWW with bulges
geometric
IL_5J7L_340
NA
IL_5MRE_0791/A/2778:2779,
1/A/2838:2841		No text annotation
homologous
IL_5J7L_341
NA
IL_5MRE_0801/A/2788:2789,
1/A/2807:2810		Major groove platform with intercalation
homologous
IL_7RQB_099
NA
IL_5MRE_0811/A/2858:2859,
1/A/2868:2870		Single bulged A
homologous
IL_5J7L_344
NA
IL_5MRE_0821/A/2902:2906,
1/A/3112:3116		Triple sheared
geometric
IL_7RQB_075
NA
IL_5MRE_0831/A/2919:2925,
1/A/2930:2935		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_5J7L_346
NA
IL_5MRE_0841/A/2947:2951,
1/A/3061:3063		C-loop
homologous
IL_7RQB_104
NA
IL_5MRE_0851/A/2954:2958,
1/A/3054:3058		UAA/GAN variation
geometric
IL_4V9F_094
IL_45790.2
IL_5MRE_0861/A/2962:2963,
1/A/3047:3050		Multiple bulged bases
homologous
IL_4WF9_103
IL_44609.2
IL_5MRE_0871/A/3073:3078,
1/A/3099:3104		UAA/GAN with extra cWW
homologous
IL_7RQB_107
NA
IL_5MRE_0881/A/3123:3126,
1/A/3259:3260		Multiple bulged bases
geometric
IL_7V9E_001
NA
IL_5MRE_0891/A/3158:3159,
1/A/3246:3248		Major groove intercalation
geometric
IL_5J7L_352
NA
IL_5MRE_0901/A/3161:3162,
1/A/3242:3244		Single stack bend
geometric
IL_4V83_236
IL_15011.2
IL_5MRE_0911/A/3162:3165,
1/A/3240:3242		No text annotation
geometric
IL_8CRE_417
IL_32983.2
IL_5MRE_0921/A/3165:3168,
1/A/3237:3240		No text annotation
IL_5MRE_0931/A/3169:3173,
1/A/3234:3236		No text annotation
IL_5MRE_0941/aa/37:39,
1/aa/666:667		Single bulged G
homologous
IL_4LFB_001
IL_28408.2
IL_5MRE_0951/aa/51:52,
1/aa/400:402		Single bulged A
homologous
IL_5J7L_002
NA
IL_5MRE_0961/aa/54:59,
1/aa/363:365		No text annotation
homologous
IL_5J7L_003
NA
IL_5MRE_0971/aa/61:63,
1/aa/360:361		Minor groove platform
homologous
IL_4LFB_004
IL_34520.3
IL_5MRE_0981/aa/70:73,
1/aa/103:104		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_5MRE_0991/aa/74:75,
1/aa/99:102		Multiple bulged bases
geometric
IL_4YAZ_007
IL_71421.2
IL_5MRE_1001/aa/127:129,
1/aa/238:239		Single bulged A
geometric
IL_3MJA_001
NA
IL_5MRE_1011/aa/130:134,
1/aa/235:237		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_5MRE_1021/aa/134:138,
1/aa/233:235		No text annotation
IL_5MRE_1601/aa/134:140,
1/aa/232:235		No text annotation
IL_5MRE_1031/aa/138:140,
1/aa/232:233		Multiple bulged bases
geometric
IL_4V88_392
NA
IL_5MRE_1041/aa/246:251,
1/aa/282:289		Kink-turn with non-sequential stacking
homologous
IL_6CZR_123
NA
IL_5MRE_1051/aa/253:256,
1/aa/279:280		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_5MRE_1061/aa/297:299,
1/aa/310:314		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_5MRE_1071/aa/346:347,
1/aa/350:352		Single bulged A
geometric
IL_7RQB_059
NA
IL_5MRE_1081/aa/371:373,
1/aa/396:397		Single bulged U
homologous
IL_5J7L_017
NA
IL_5MRE_1091/aa/375:379,
1/aa/393:394		C-loop
homologous
IL_5J7L_018
NA
IL_5MRE_1101/aa/379:380,
1/aa/391:393		Single bulged G
geometric
IL_5J7L_019
NA
IL_5MRE_1111/aa/517:521,
1/aa/529:534		tSH-tHW-tWW
geometric
IL_5J7L_022
NA
IL_5MRE_1131/aa/617:626,
1/aa/653:655		No text annotation
IL_5MRE_1141/aa/629:635,
1/aa/642:650		Kink-turn related
geometric
IL_4V88_415
NA
IL_5MRE_1151/aa/674:676,
1/aa/948:949		No text annotation
IL_5MRE_1161/aa/678:684,
1/aa/945:946		No text annotation
homologous
IL_5J7L_026
NA
IL_5MRE_1171/aa/689:693,
1/aa/822:826		tSH-tHW-tHS
geometric
IL_4LFB_023
IL_05821.1
IL_5MRE_1181/aa/693:695,
1/aa/821:822		Single bulged A
geometric
IL_1DUQ_002
NA
IL_5MRE_1191/aa/717:718,
1/aa/816:819		Major groove platform; stack outside cWW
geometric
IL_5J7L_031
NA
IL_5MRE_1201/aa/725:729,
1/aa/807:809		No text annotation
IL_5MRE_1211/aa/739:742,
1/aa/779:782		Tandem non-canonical cWW pairs
geometric
IL_4V88_432
NA
IL_5MRE_1221/aa/748:753,
1/aa/765:773		Kink-turn
homologous
IL_4LFB_031
IL_95727.1
IL_5MRE_1231/aa/839:843,
1/aa/869:870		Left turn
homologous
IL_5J7L_036
NA
IL_5MRE_1241/aa/844:848,
1/aa/864:868		tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_5MRE_1251/aa/902:905,
1/aa/911:915		No text annotation
IL_5MRE_1261/aa/951:959,
1/aa/970:976		No text annotation
IL_5MRE_1271/aa/987:989,
1/aa/1460:1463		Isolated non-canonical cWW with bulges
geometric
IL_4V9F_097
IL_68118.3
IL_5MRE_1281/aa/990:994,
1/aa/1456:1459		No text annotation
IL_5MRE_1651/aa/990:996,
1/aa/1454:1459		No text annotation
IL_5MRE_1291/aa/1018:1019,
1/aa/1258:1260		Minor groove platform
homologous
IL_4LFB_038
IL_34520.3
IL_5MRE_1301/aa/1058:1061,
1/aa/1091:1092		No text annotation
IL_5MRE_1311/aa/1062:1064,
1/aa/1088:1090		Isolated non-canonical cWW pair
geometric
IL_4E48_006
IL_01003.3
IL_5MRE_1321/aa/1095:1097,
1/aa/1240:1241		Single bulged U
homologous
IL_4LFB_042
IL_97561.3
IL_5MRE_1331/aa/1099:1102,
1/aa/1237:1238		Multiple bulged bases
geometric
IL_1FUF_002
NA
IL_5MRE_1341/aa/1104:1105,
1/aa/1231:1235		Minor groove platform
homologous
IL_5J7L_048
NA
IL_5MRE_1351/aa/1107:1108,
1/aa/1227:1229		Single bulged A
homologous
IL_5J7L_049
NA
IL_5MRE_1361/aa/1278:1287,
1/aa/1324:1331		No text annotation
IL_5MRE_1371/aa/1289:1292,
1/aa/1317:1322		180 degree turn
geometric
IL_4LFB_052
IL_08849.1
IL_5MRE_1381/aa/1293:1297,
1/aa/1312:1316		Triple sheared
geometric
IL_2A64_006
IL_15190.2
IL_5MRE_1391/aa/1347:1349,
1/aa/1354:1356		Isolated non-canonical cWW pair
geometric
IL_3U4M_001
IL_71625.3
IL_5MRE_1401/aa/1371:1376,
1/aa/1397:1402		No text annotation
homologous
IL_5J7L_057
NA
IL_5MRE_1411/aa/1419:1421,
1/aa/1439:1440		Single bulged A
geometric
IL_5J7L_246
NA
IL_5MRE_1421/aa/1467:1469,
1/aa/1593:1596		No text annotation
geometric
IL_5J7L_058
NA
IL_5MRE_1431/aa/1469:1472,
1/aa/1589:1593		No text annotation
geometric
IL_4V88_464
NA
IL_5MRE_1441/aa/1473:1475,
1/aa/1586:1588		Isolated non-canonical cWW pair
geometric
IL_3GM7_003
IL_01003.3
IL_5MRE_1451/aa/1475:1477,
1/aa/1583:1586		No text annotation
geometric
IL_6DME_003
IL_75527.2
IL_5MRE_1461/aa/1484:1487,
1/aa/1573:1576		Double sheared
homologous
IL_5J7L_062
NA
IL_5MRE_1471/aa/1495:1497,
1/aa/1564:1565		Single bulged A
geometric
IL_5WWT_001
IL_14190.2
IL_5MRE_1631/aa/1499:1503,
1/aa/1559:1562		UAA/GAN variation
homologous
IL_6CZR_170
NA
IL_5MRE_1491/aa/1505:1508,
1/aa/1554:1557		Tandem non-canonical cWW pairs
geometric
IL_5C5W_003
NA
IL_5MRE_1501/aa/1510:1512,
1/aa/1551:1552		Single bulged U
geometric
IL_2PJP_001
IL_97561.3
IL_5MRE_1511/aa/1516:1520,
1/aa/1543:1547		Triple non-canonical cWW pairs
geometric
IL_5BTM_001
IL_71154.3
IL_5MRE_1521/aa/1526:1528,
1/aa/1536:1537		Single stack bend with SAM intercalation
geometric
IL_2QWY_008
IL_75501.1
IL_5MRE_1531/bb/50:52,
1/bb/62:64		No text annotation

Problematic loops

#loop idProblemSequence
IL_5MRE_026No text annotation
IL_5MRE_039Multiple bulged bases
IL_5MRE_054No text annotation
IL_5MRE_076No text annotation
IL_5MRE_159No text annotation
IL_5MRE_112Tandem non-canonical cWW pairs
IL_5MRE_161No text annotation
IL_5MRE_162Isolated cWS basepair
IL_5MRE_148Triple sheared related

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5MRE_0271/A/309:319,
1/A/337:344,
1/A/358:361		No text annotation
J3_5MRE_0011/A/592:598,
1/A/664:666,
1/A/682:685		No text annotation
geometric
J3_8VTW_001
NA
J3_5MRE_0281/A/592:598,
1/A/664:669,
1/A/677:685		No text annotation
J3_5MRE_0021/A/607:609,
1/A/623:627,
1/A/651:654		No text annotation
homologous
J3_7RQB_005
NA
J3_5MRE_0031/A/746:747,
1/A/775:779,
1/A/847:849		No text annotation
J3_5MRE_0041/A/961:962,
1/A/1062:1068,
1/A/1085:1087		No text annotation
J3_5MRE_0051/A/1329:1334,
1/A/1577:1580,
1/A/1590:1594		No text annotation
J3_5MRE_0061/A/1337:1340,
1/A/1557:1563,
1/A/1572:1574		No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_5MRE_0071/A/1428:1432,
1/A/1489:1491,
1/A/1522:1525		No text annotation
J3_5MRE_0081/A/1626:1635,
1/A/1668:1672,
1/A/1887:1890		No text annotation
J3_5MRE_0291/A/1626:1636,
1/A/1658:1672,
1/A/1887:1890		No text annotation
J3_5MRE_0101/A/1993:1995,
1/A/2091:2095,
1/A/2249:2254		No text annotation
J3_5MRE_0301/A/2309:2311,
1/A/2651:2663,
1/A/2687:2693		No text annotation
J3_5MRE_0111/A/2445:2447,
1/A/2587:2589,
1/A/2598:2603		No text annotation
homologous
J3_5J7L_045
NA
J3_5MRE_0121/A/2447:2450,
1/A/2466:2467,
1/A/2582:2587		No text annotation
J3_5MRE_0131/A/2783:2786,
1/A/2812:2814,
1/A/2828:2834		No text annotation
homologous
J3_5J7L_046
NA
J3_5MRE_0141/A/2971:2973,
1/A/3013:3016,
1/A/3029:3035		No text annotation
J3_5MRE_0151/A/3130:3131,
1/A/3147:3156,
1/A/3250:3255		No text annotation
J3_5MRE_0161/aa/53:54,
1/aa/365:371,
1/aa/397:399		No text annotation
homologous
J3_5J7L_001
NA
J3_5MRE_0311/aa/53:59,
1/aa/363:371,
1/aa/397:399		No text annotation
homologous
J3_4LFB_014
J3_63856.1
J3_5MRE_0171/aa/412:415,
1/aa/487:490,
1/aa/499:505		No text annotation
J3_5MRE_0181/aa/696:698,
1/aa/714:717,
1/aa/819:820		No text annotation
geometric
J3_6CZR_016
NA
J3_5MRE_0321/aa/696:698,
1/aa/714:718,
1/aa/816:820		No text annotation
homologous
J3_4LFB_015
J3_17385.5
J3_5MRE_0191/aa/737:738,
1/aa/783:791,
1/aa/798:800		No text annotation
J3_5MRE_0201/aa/891:893,
1/aa/924:927,
1/aa/934:939		No text annotation
geometric
J3_7A0S_007
J3_47341.1
J3_5MRE_0331/aa/997:1004,
1/aa/1412:1418,
1/aa/1441:1453		No text annotation
J3_5MRE_0211/aa/1008:1011,
1/aa/1267:1269,
1/aa/1405:1408		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_5MRE_0221/aa/1020:1027,
1/aa/1038:1049,
1/aa/1253:1257		No text annotation
homologous
J3_5J7L_006
NA
J3_5MRE_0231/aa/1055:1058,
1/aa/1092:1094,
1/aa/1242:1247		No text annotation
geometric
J3_4LFB_005
J3_84394.1
J3_5MRE_0341/aa/1055:1061,
1/aa/1091:1094,
1/aa/1242:1247		No text annotation
J3_5MRE_0241/aa/1110:1115,
1/aa/1154:1160,
1/aa/1219:1225		No text annotation
homologous
J3_5J7L_008
NA
J3_5MRE_0251/aa/1120:1121,
1/aa/1130:1135,
1/aa/1144:1149		No text annotation
homologous
J3_5J7L_009
NA
J3_5MRE_0261/aa/1162:1164,
1/aa/1187:1190,
1/aa/1212:1217		No text annotation
J4_5MRE_0011/A/66:71,
1/A/91:95,
1/A/381:392,
1/A/399:404		No text annotation
J4_5MRE_0021/A/930:937,
1/A/1126:1127,
1/A/1142:1144,
1/A/1168:1171		No text annotation
J4_5MRE_0031/A/1303:1308,
1/A/1325:1326,
1/A/1597:1600,
1/A/1909:1910		No text annotation
homologous
J4_4WF9_004
J4_64571.6
J4_5MRE_0041/A/1340:1343,
1/A/1351:1354,
1/A/1410:1411,
1/A/1549:1557		No text annotation
J4_5MRE_0051/A/1679:1683,
1/A/1695:1699,
1/A/1735:1740,
1/A/1873:1879		No text annotation
J4_5MRE_0061/A/1741:1743,
1/A/1806:1807,
1/A/1824:1833,
1/A/1867:1872		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_5MRE_0121/A/2910:2913,
1/A/2941:2942,
1/A/3068:3072,
1/A/3105:3108		No text annotation
J4_5MRE_0081/aa/115:123,
1/aa/243:244,
1/aa/291:294,
1/aa/317:318		No text annotation
homologous
J4_4LFB_001
J4_90044.1
J4_5MRE_0091/aa/513:514,
1/aa/537:538,
1/aa/557:558,
1/aa/605:606		No text annotation
J4_5MRE_0101/aa/684:686,
1/aa/829:834,
1/aa/875:886,
1/aa/944:945		No text annotation
homologous
J4_5J7L_003
NA
J4_5MRE_0111/bb/7:10,
1/bb/25:27,
1/bb/43:50,
1/bb/64:66		No text annotation
J5_5MRE_0011/A/428:430,
1/A/459:463,
1/A/476:478,
1/A/1294:1295,
1/A/1917:1918		No text annotation
homologous
J5_9DFE_003
J5_43153.6
J5_5MRE_0021/A/483:488,
1/A/577:580,
1/A/700:703,
1/A/1229:1230,
1/A/1283:1289		No text annotation
homologous
J5_4WF9_004
J5_74302.6
J5_5MRE_0031/A/1974:1977,
1/A/2269:2272,
1/A/2284:2285,
1/A/2308:2309,
1/A/2693:2701		No text annotation
homologous
J5_4WF9_007
J5_39529.2
J5_5MRE_0041/aa/43:46,
1/aa/407:409,
1/aa/508:513,
1/aa/606:613,
1/aa/659:662		No text annotation
J5_5MRE_0051/aa/65:68,
1/aa/106:112,
1/aa/321:322,
1/aa/342:343,
1/aa/355:358		No text annotation
J6_5MRE_0011/A/2312:2317,
1/A/2375:2381,
1/A/2421:2437,
1/A/2610:2614,
1/A/2637:2639,
1/A/2648:2650		No text annotation
J7_5MRE_0011/A/43:49,
1/A/422:428,
1/A/1918:1923,
1/A/1940:1943,
1/A/2892:2898,
1/A/3120:3123,
1/A/3260:3262		No text annotation
J7_5MRE_0021/A/708:713,
1/A/726:727,
1/A/869:872,
1/A/897:902,
1/A/913:917,
1/A/1183:1184,
1/A/1219:1224		No text annotation

Problematic loops

#loop idProblemSequence
J3_5MRE_009No text annotation
J4_5MRE_007No text annotation

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