RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8UJD_0011/L5/37:44No text annotation
homologous
HL_8CRE_001
NA
HL_8UJD_0021/L5/68:73No text annotation
homologous
HL_8CRE_002
NA
HL_8UJD_0031/L5/89:95No text annotation
homologous
HL_8CRE_003
NA
HL_8UJD_0051/L5/204:211T-loop with 2 bulged bases not stacked
geometric
HL_1P6V_004
NA
HL_8UJD_0061/L5/222:226No text annotation
geometric
HL_5J7L_143
NA
HL_8UJD_0071/L5/230:238T-loop with unstacked turn
homologous
HL_8CRE_007
NA
HL_8UJD_0081/L5/289:298T-loop related
homologous
HL_8CRE_008
NA
HL_8UJD_0091/L5/314:323No text annotation
homologous
HL_8CRE_009
NA
HL_8UJD_0101/L5/368:373GNRA
homologous
HL_8CRE_010
NA
HL_8UJD_0111/L5/393:398GNRA
homologous
HL_8CRE_011
NA
HL_8UJD_0121/L5/1170:1191No text annotation
HL_8UJD_0141/L5/1317:1326T-loop with 2 stacked bulged bases
homologous
HL_8CRE_013
NA
HL_8UJD_0151/L5/1364:1373No text annotation
HL_8UJD_0161/L5/1389:1394GNRA
homologous
HL_8CRE_015
NA
HL_8UJD_0181/L5/1436:1448No text annotation
HL_8UJD_0191/L5/1480:1484No text annotation
HL_8UJD_0211/L5/1593:1602No text annotation
homologous
HL_8CRE_019
NA
HL_8UJD_0221/L5/1627:1635No text annotation
homologous
HL_8P9A_133
HL_79004.1
HL_8UJD_0231/L5/1675:1680No text annotation
homologous
HL_8P9A_134
HL_27530.1
HL_8UJD_0251/L5/1816:1823T-loop related
homologous
HL_8CRE_023
NA
HL_8UJD_0261/L5/1864:1870GNRA
homologous
HL_8CRE_024
NA
HL_8UJD_0271/L5/1886:1893No text annotation
homologous
HL_8CRE_025
NA
HL_8UJD_0301/L5/2317:2322GNRA
homologous
HL_8CRE_029
NA
HL_8UJD_0311/L5/2376:2384T-loop with 2 stacked bulged bases
homologous
HL_8CRE_030
NA
HL_8UJD_0321/L5/2420:2426Pseudoknot geometry with 3' bulge
homologous
HL_8CRE_031
NA
HL_8UJD_0331/L5/2458:2463GNRA variation
homologous
HL_8CRE_032
NA
HL_8UJD_0351/L5/2523:2532No text annotation
homologous
HL_8P9A_146
HL_77449.1
HL_8UJD_0371/L5/2578:2583GNRA
homologous
HL_8P9A_147
HL_34789.1
HL_8UJD_0381/L5/2624:2632Pseudoknot geometry
homologous
HL_8P9A_148
HL_68642.1
HL_8UJD_0391/L5/2664:2670Other HL
geometric
HL_4V9F_039
HL_67772.1
HL_8UJD_0411/L5/2738:2742No text annotation
homologous
HL_8CRE_039
NA
HL_8UJD_0421/L5/2792:2799No text annotation
homologous
HL_8P9A_152
HL_28592.1
HL_8UJD_0431/L5/2810:2816GNRA
homologous
HL_8P9A_153
HL_34789.1
HL_8UJD_0441/L5/2872:2877UNCG
homologous
HL_8P9A_154
HL_61337.1
HL_8UJD_0451/L5/3614:3618No text annotation
homologous
HL_8CRE_043
NA
HL_8UJD_0461/L5/3639:3649No text annotation
homologous
HL_8CRE_044
NA
HL_8UJD_0471/L5/3668:3674GNRA
homologous
HL_8CRE_045
NA
HL_8UJD_0481/L5/3724:3729GNRA
homologous
HL_8P9A_159
HL_34789.1
HL_8UJD_0501/L5/3773:3775No text annotation
HL_8UJD_0511/L5/3796:3804No text annotation
homologous
HL_8CRE_048
NA
HL_8UJD_0521/L5/3873:3882No text annotation
homologous
HL_8CRE_049
NA
HL_8UJD_0551/L5/4193:4201No text annotation
homologous
HL_8P9A_165
HL_11974.1
HL_8UJD_0561/L5/4210:4222No text annotation
homologous
HL_8P9A_166
HL_02042.1
HL_8UJD_0571/L5/4250:4258No text annotation
homologous
HL_8P9A_167
HL_02452.1
HL_8UJD_0581/L5/4270:4277Pseudoknot geometry
homologous
HL_8CRE_056
NA
HL_8UJD_0591/L5/4301:4309No text annotation
homologous
HL_8CRE_057
NA
HL_8UJD_0601/L5/4321:4326GNRA
homologous
HL_8CRE_058
NA
HL_8UJD_0611/L5/4352:4362No text annotation
geometric
HL_7JRT_001
NA
HL_8UJD_0621/L5/4417:4425No text annotation
homologous
HL_8P9A_172
HL_52011.1
HL_8UJD_0631/L5/4474:4481GNRA variation
homologous
HL_8CRE_061
NA
HL_8UJD_0641/L5/4497:4503No text annotation
homologous
HL_8P9A_174
HL_48677.1
HL_8UJD_0651/L5/4540:4545GNRA
homologous
HL_8P9A_175
HL_34789.1
HL_8UJD_0661/L5/4603:4608GNRA
homologous
HL_8CRE_064
NA
HL_8UJD_0671/L5/4646:4651No text annotation
homologous
HL_8CRE_065
NA
HL_8UJD_0681/L5/4688:4702No text annotation
homologous
HL_8CRE_066
NA
HL_8UJD_0691/L5/4907:4914No text annotation
geometric
HL_8CRE_068
NA
HL_8UJD_0701/L5/4975:4983No text annotation
homologous
HL_8CRE_069
NA
HL_8UJD_0721/L7/32:45No text annotation
geometric
HL_8OI5_068
HL_01182.1
HL_8UJD_0731/L7/36:41No text annotation
homologous
HL_8OI5_069
HL_59381.1
HL_8UJD_0741/L7/86:91GNRA
homologous
HL_8P9A_185
HL_34789.1
HL_8UJD_0751/L8/47:56No text annotation
homologous
HL_8CRE_074
NA
HL_8UJD_0761/L8/68:90No text annotation
HL_8UJD_0771/L8/107:112No text annotation
homologous
HL_8P9A_188
HL_13184.1
HL_8UJD_0781/L8/122:128No text annotation

Problematic loops

#loop idProblemSequence
HL_8UJD_004No text annotation
HL_8UJD_013No text annotation
HL_8UJD_017No text annotation
HL_8UJD_020GNRA
HL_8UJD_024No text annotation
HL_8UJD_028No text annotation
HL_8UJD_029GNRA wlth tandem sheared
HL_8UJD_034No text annotation
HL_8UJD_036GNRA
HL_8UJD_040No text annotation
HL_8UJD_049No text annotation
HL_8UJD_053No text annotation
HL_8UJD_054No text annotation
HL_8UJD_071No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8UJD_0011/L5/6:7,
1/L8/149:151		Single bulged C
homologous
IL_8P9A_231
IL_05642.1
IL_8UJD_0021/L5/12:14,
1/L8/143:144		Single bulged U
homologous
IL_8P9A_232
IL_97561.1
IL_8UJD_0031/L5/16:18,
1/L8/139:141		Isolated non-canonical cWW pair
geometric
IL_1Z7F_006
NA
IL_8UJD_0041/L5/26:27,
1/L5/55:57		Single stack bend
homologous
IL_8CRE_004
NA
IL_8UJD_0051/L5/30:37,
1/L5/44:52		tSH-tHW-tHH-tHS
homologous
IL_8CRE_005
NA
IL_8UJD_0061/L5/81:88,
1/L5/96:102		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8CRE_006
NA
IL_8UJD_0071/L5/118:122,
1/L5/147:153		No text annotation
IL_8UJD_0081/L5/125:126,
1/L5/142:144		Single bulged C
geometric
IL_1DQF_001
NA
IL_8UJD_0091/L5/169:175,
1/L5/261:266		No text annotation
IL_8UJD_0111/L5/182:189,
1/L5/252:255		No text annotation
IL_8UJD_0121/L5/195:196,
1/L5/244:246		Single bulged C
geometric
IL_1DQF_001
NA
IL_8UJD_0131/L5/199:201,
1/L5/214:215		No text annotation
homologous
IL_8CRE_013
NA
IL_8UJD_0141/L5/339:342,
1/L8/32:33		Minor groove platform
geometric
IL_9DFE_073
IL_24264.1
IL_8UJD_0151/L5/348:350,
1/L8/25:26		Single bulged A
homologous
IL_8CRE_014
NA
IL_8UJD_0161/L5/387:390,
1/L5/401:414		No text annotation
geometric
IL_8CRE_015
NA
IL_8UJD_0171/L5/415:421,
1/L8/13:19		No text annotation
homologous
IL_8P9A_244
IL_22311.1
IL_8UJD_0181/L5/443:446,
1/L5/1300:1304		No text annotation
IL_8UJD_0191/L5/448:450,
1/L5/1297:1298		No text annotation
IL_8UJD_0201/L5/459:460,
1/L5/695:697		Single bulged C
geometric
IL_3W3S_001
NA
IL_8UJD_0211/L5/462:464,
1/L5/691:693		Isolated non-canonical cWW pair
geometric
IL_8PFQ_001
IL_01003.1
IL_8UJD_0221/L5/466:472,
1/L5/682:689		No text annotation
IL_8UJD_0231/L5/482:485,
1/L5/671:672		Multiple bulged bases
geometric
IL_5T83_004
NA
IL_8UJD_0241/L5/487:488,
1/L5/665:669		Minor groove platform
geometric
IL_5J7L_247
NA
IL_8UJD_0271/L5/500:505,
1/L5/653:655		No text annotation
IL_8UJD_0281/L5/508:510,
1/L5/649:650		Single bulged A
geometric
IL_6WPI_001
IL_14190.1
IL_8UJD_0291/L5/512:516,
1/L5/645:647		No text annotation
IL_8UJD_0301/L5/709:710,
1/L5/1286:1288		Single bulged G
geometric
IL_4LFB_036
IL_28408.1
IL_8UJD_0311/L5/723:724,
1/L5/942:945		Multiple bulged bases
geometric
IL_7Q80_003
IL_44609.1
IL_8UJD_0321/L5/727:731,
1/L5/938:939		No text annotation
IL_8UJD_0331/L5/732:735,
1/L5/928:937		No text annotation
IL_8UJD_0341/L5/737:742,
1/L5/922:926		No text annotation
IL_8UJD_0351/L5/745:752,
1/L5/911:919		No text annotation
geometric
IL_8CRE_022
NA
IL_8UJD_0361/L5/1073:1074,
1/L5/1237:1239		Single bulged A
geometric
IL_2VPL_002
IL_14190.1
IL_8UJD_0371/L5/1082:1084,
1/L5/1213:1217		Isolated cWH basepair
geometric
IL_4KTG_005
NA
IL_8UJD_0381/L5/1086:1087,
1/L5/1209:1211		Single bulged C
geometric
IL_3W3S_001
NA
IL_8UJD_0421/L5/1244:1245,
1/L5/1265:1267		No text annotation
geometric
IL_8CRE_048
NA
IL_8UJD_0431/L5/1357:1360,
1/L5/1379:1382		No text annotation
IL_8UJD_0441/L5/1357:1361,
1/L5/1376:1382		No text annotation
IL_8UJD_0451/L5/1360:1361,
1/L5/1376:1379		Single bulged A
geometric
IL_4V9F_090
IL_73464.1
IL_8UJD_0481/L5/1425:1429,
1/L5/1455:1460		No text annotation
geometric
IL_3BBM_001
IL_47352.1
IL_8UJD_0491/L5/1431:1434,
1/L5/1450:1453		Double sheared
geometric
IL_4LFB_060
IL_58355.1
IL_8UJD_0501/L5/1467:1468,
1/L5/1496:1498		Single bulged A
homologous
IL_8CRE_026
NA
IL_8UJD_0511/L5/1474:1476,
1/L5/1489:1490		Single stack bend
geometric
IL_7A0S_005
IL_15011.1
IL_8UJD_0521/L5/1479:1480,
1/L5/1484:1486		No text annotation
IL_8UJD_0531/L5/1520:1522,
1/L5/1655:1657		Isolated non-canonical cWW pair
homologous
IL_8P9A_255
IL_01003.1
IL_8UJD_0541/L5/1522:1526,
1/L5/1648:1655		No text annotation
homologous
IL_8P9A_256
IL_73855.1
IL_8UJD_0551/L5/1545:1546,
1/L5/1612:1614		Single bulged A
homologous
IL_8CRE_031
NA
IL_8UJD_0561/L5/1550:1551,
1/L5/1576:1578		No text annotation
homologous
IL_8CRE_032
NA
IL_8UJD_0571/L5/1551:1555,
1/L5/1572:1576		Triple sheared
homologous
IL_8CRE_033
NA
IL_8UJD_0581/L5/1586:1589,
1/L5/1605:1607		No text annotation
homologous
IL_8CRE_034
NA
IL_8UJD_0591/L5/1590:1592,
1/L5/1603:1604		Single bulged U
homologous
IL_8P9A_260
IL_97561.1
IL_8UJD_0601/L5/1624:1626,
1/L5/1636:1640		No text annotation
homologous
IL_8CRE_036
NA
IL_8UJD_0611/L5/1671:1673,
1/L5/1682:1684		Isolated non-canonical cWW pair
homologous
IL_8CRE_037
NA
IL_8UJD_0621/L5/1686:1688,
1/L5/1848:1851		No text annotation
IL_8UJD_0631/L5/1723:1725,
1/L5/1838:1839		No text annotation
homologous
IL_8CRE_040
NA
IL_8UJD_0641/L5/1732:1737,
1/L5/1792:1797		No text annotation
IL_8UJD_0651/L5/1737:1738,
1/L5/1790:1792		Minor groove platform
homologous
IL_8CRE_042
NA
IL_8UJD_0661/L5/1739:1744,
1/L5/1786:1789		C-loop with bulged stacked A's
homologous
IL_8CRE_043
NA
IL_8UJD_0671/L5/1746:1749,
1/L5/1781:1784		Tandem non-canonical cWW pairs
homologous
IL_8CRE_044
NA
IL_8UJD_0681/L5/1749:1751,
1/L5/1779:1781		Isolated non-canonical cWW pair
homologous
IL_8P9A_270
IL_01003.1
IL_8UJD_0691/L5/1753:1756,
1/L5/1775:1777		No text annotation
geometric
IL_4V9F_053
IL_86407.1
IL_8UJD_0711/L5/1814:1816,
1/L5/1823:1824		Single bulged A
homologous
IL_8P9A_273
IL_14190.1
IL_8UJD_0721/L5/1858:1860,
1/L5/1874:1876		Isolated non-canonical cWW pair
homologous
IL_8P9A_274
IL_01003.1
IL_8UJD_0741/L5/1905:1909,
1/L5/2067:2071		UAA/GAN
homologous
IL_8CRE_051
NA
IL_8UJD_0751/L5/1911:1918,
1/L5/2064:2065		SSU/LSU pseudoknot
homologous
IL_8CRE_052
NA
IL_8UJD_0761/L5/1918:1920,
1/L5/2063:2064		Single bulged G
geometric
IL_8TSV_002
NA
IL_8UJD_0771/L5/1920:1922,
1/L5/2062:2063		No text annotation
IL_8UJD_0781/L5/1926:1933,
1/L5/2053:2058		No text annotation
homologous
IL_8CRE_054
NA
IL_8UJD_0791/L5/1933:1944,
1/L5/2038:2053		No text annotation
homologous
IL_8P9A_280
IL_34501.1
IL_8UJD_0801/L5/1946:1948,
1/L5/2035:2036		Single bulged U
homologous
IL_8P9A_281
IL_97561.1
IL_8UJD_0811/L5/1957:1965,
1/L5/2022:2026		Kink-turn
homologous
IL_8CRE_057
NA
IL_8UJD_0841/L5/2083:2085,
1/L5/2272:2273		Single bulged C
geometric
IL_4C7O_003
NA
IL_8UJD_0851/L5/2087:2110,
1/L5/2252:2270		No text annotation
IL_8UJD_0861/L5/2290:2292,
1/L5/2342:2345		No text annotation
homologous
IL_8CRE_061
NA
IL_8UJD_0871/L5/2299:2301,
1/L5/2334:2335		Single bulged A
homologous
IL_8CRE_062
NA
IL_8UJD_0881/L5/2302:2309,
1/L5/2329:2333		Kink-turn
homologous
IL_8P9A_287
IL_90775.1
IL_8UJD_0891/L5/2312:2314,
1/L5/2325:2326		Single bulged A
homologous
IL_8P9A_288
IL_14190.1
IL_8UJD_0901/L5/2358:2364,
1/L5/3858:3863		7x6 Sarcin-Ricin; G-bulge
homologous
IL_8CRE_065
NA
IL_8UJD_0911/L5/2415:2419,
1/L5/2427:2429		C-loop
homologous
IL_8CRE_066
NA
IL_8UJD_0921/L5/2446:2450,
1/L5/2509:2514		UAA/GAN
homologous
IL_8CRE_067
NA
IL_8UJD_0931/L5/2477:2479,
1/L5/2499:2500		No text annotation
IL_8UJD_0951/L5/2542:2547,
1/L5/2772:2774		No text annotation
IL_8UJD_0961/L5/2549:2550,
1/L5/2768:2770		No text annotation
homologous
IL_8CRE_070
NA
IL_8UJD_0971/L5/2589:2593,
1/L5/2752:2756		Triple sheared
homologous
IL_8P9A_295
IL_15190.1
IL_8UJD_0981/L5/2613:2614,
1/L5/2724:2726		Single bulged C
homologous
IL_8P9A_297
IL_05642.1
IL_8UJD_0991/L5/2614:2615,
1/L5/2722:2724		Single stack bend
homologous
IL_8CRE_075
NA
IL_8UJD_1001/L5/2646:2648,
1/L5/2685:2688		Isolated tHS basepair with bulges
geometric
IL_4V9F_076
IL_87316.1
IL_8UJD_1011/L5/2651:2653,
1/L5/2681:2682		Single bulged G
geometric
IL_7D7W_002
IL_28408.1
IL_8UJD_1021/L5/2656:2662,
1/L5/2672:2678		No text annotation
homologous
IL_8P9A_301
IL_93476.1
IL_8UJD_1031/L5/2832:2838,
1/L5/3850:3853		No text annotation
homologous
IL_8P9A_302
IL_89862.1
IL_8UJD_1041/L5/2844:2846,
1/L5/3842:3844		No text annotation
homologous
IL_8P9A_303
IL_10432.1
IL_8UJD_1051/L5/2847:2850,
1/L5/3840:3841		Major groove platform; stack outside cWW
geometric
IL_8P9A_304
IL_74641.1
IL_8UJD_1061/L5/2847:2855,
1/L5/3837:3841		No text annotation
geometric
IL_8P9A_305
IL_80252.1
IL_8UJD_1071/L5/2850:2855,
1/L5/3837:3840		No text annotation
homologous
IL_8P9A_306
IL_28217.1
IL_8UJD_1081/L5/2867:2872,
1/L5/2877:2883		No text annotation
homologous
IL_8CRE_084
NA
IL_8UJD_1091/L5/2889:2891,
1/L5/3610:3612		Isolated non-canonical cWW pair
homologous
IL_8P9A_308
IL_01003.1
IL_8UJD_1101/L5/2896:2897,
1/L5/3602:3605		No text annotation
homologous
IL_8CRE_086
NA
IL_8UJD_1131/L5/3632:3633,
1/L5/3827:3829		Single bulged A
homologous
IL_8P9A_310
IL_14190.1
IL_8UJD_1141/L5/3660:3665,
1/L5/3677:3684		No text annotation
homologous
IL_8CRE_088
NA
IL_8UJD_1151/L5/3700:3703,
1/L5/3749:3750		Minor groove platform, major groove intercalation
homologous
IL_8CRE_089
NA
IL_8UJD_1161/L5/3704:3705,
1/L5/3745:3748		No text annotation
homologous
IL_8CRE_090
NA
IL_8UJD_1171/L5/3708:3714,
1/L5/3739:3742		No text annotation
IL_8UJD_1181/L5/3715:3721,
1/L5/3732:3738		No text annotation
homologous
IL_8CRE_093
NA
IL_8UJD_1191/L5/3780:3781,
1/L5/3811:3814		No text annotation
geometric
IL_8CRE_094
NA
IL_8UJD_1201/L5/3781:3792,
1/L5/3808:3811		No text annotation
homologous
IL_8CRE_095
NA
IL_8UJD_1211/L5/3895:3898,
1/L5/4563:4565		No text annotation
homologous
IL_8P9A_319
IL_75527.1
IL_8UJD_1221/L5/3900:3902,
1/L5/4558:4561		No text annotation
homologous
IL_8CRE_097
NA
IL_8UJD_1231/L5/3913:3915,
1/L5/4388:4389		No text annotation
homologous
IL_8CRE_098
NA
IL_8UJD_1241/L5/3916:3917,
1/L5/4384:4387		Minor groove platform
homologous
IL_8P9A_322
IL_34520.1
IL_8UJD_1251/L5/3927:3929,
1/L5/4181:4184		No text annotation
homologous
IL_8CRE_100
NA
IL_8UJD_1271/L5/4082:4088,
1/L5/4161:4164		No text annotation
homologous
IL_8CRE_106
NA
IL_8UJD_1281/L5/4191:4192,
1/L5/4202:4204		Single bulged A
homologous
IL_8P9A_325
IL_14190.1
IL_8UJD_1291/L5/4243:4245,
1/L5/4263:4267		No text annotation
homologous
IL_8P9A_326
IL_14250.1
IL_8UJD_1301/L5/4291:4293,
1/L5/4317:4318		Single bulged A
geometric
IL_7MKY_001
IL_14190.1
IL_8UJD_1311/L5/4295:4298,
1/L5/4312:4315		Tandem non-canonical cWW pairs
homologous
IL_8P9A_327
IL_15225.1
IL_8UJD_1321/L5/4347:4350,
1/L5/4364:4365		Single stack bend
geometric
IL_8P9A_328
IL_15011.1
IL_8UJD_1331/L5/4400:4401,
1/L5/4442:4444		Major groove platform
homologous
IL_8P9A_329
IL_48076.7
IL_8UJD_1341/L5/4401:4403,
1/L5/4440:4442		Isolated non-canonical cWW pair
homologous
IL_8P9A_330
IL_01003.1
IL_8UJD_1351/L5/4403:4405,
1/L5/4439:4440		No text annotation
homologous
IL_8CRE_112
NA
IL_8UJD_1361/L5/4405:4407,
1/L5/4435:4439		No text annotation
homologous
IL_8CRE_113
NA
IL_8UJD_1371/L5/4412:4416,
1/L5/4426:4430		Double sheared with non-canonical cWW
homologous
IL_8CRE_114
NA
IL_8UJD_1381/L5/4453:4454,
1/L5/4526:4528		No text annotation
homologous
IL_8P9A_334
IL_46637.1
IL_8UJD_1391/L5/4456:4458,
1/L5/4520:4524		Isolated non-canonical cWW with bulges
homologous
IL_8CRE_116
NA
IL_8UJD_1401/L5/4458:4459,
1/L5/4517:4520		No text annotation
homologous
IL_8P9A_336
IL_44609.1
IL_8UJD_1411/L5/4466:4470,
1/L5/4485:4491		No text annotation
IL_8UJD_1421/L5/4495:4497,
1/L5/4503:4505		Isolated non-canonical cWW pair
homologous
IL_8P9A_340
IL_01003.1
IL_8UJD_1431/L5/4537:4538,
1/L5/4547:4549		Single bulged A
homologous
IL_8P9A_341
IL_14190.1
IL_8UJD_1441/L5/4580:4582,
1/L5/4721:4723		No text annotation
geometric
IL_7ZO1_011
NA
IL_8UJD_1451/L5/4582:4585,
1/L5/4717:4721		Double sheared
homologous
IL_8P9A_342
IL_58355.1
IL_8UJD_1461/L5/4590:4592,
1/L5/4618:4620		Isolated non-canonical cWW pair
homologous
IL_8P9A_343
IL_71625.1
IL_8UJD_1471/L5/4596:4603,
1/L5/4608:4614		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8CRE_125
NA
IL_8UJD_1481/L5/4624:4629,
1/L5/4669:4673		No text annotation
IL_8UJD_1491/L5/4632:4637,
1/L5/4662:4666		No text annotation
homologous
IL_8CRE_127
NA
IL_8UJD_1501/L5/4638:4640,
1/L5/4659:4661		Isolated cWH basepair
geometric
IL_3R1C_012
IL_10892.1
IL_8UJD_1511/L5/4641:4642,
1/L5/4655:4658		No text annotation
homologous
IL_8P9A_347
NA
IL_8UJD_1521/L5/4681:4685,
1/L5/4705:4709		UAA/GAN
homologous
IL_8P9A_348
IL_08938.1
IL_8UJD_1541/L5/4743:4746,
1/L5/4954:4957		Tandem non-canonical cWW pairs
geometric
IL_8CRE_440
IL_15225.1
IL_8UJD_1551/L5/4749:4751,
1/L5/4948:4951		No text annotation
IL_8UJD_1561/L5/4756:4765,
1/L5/4869:4877		No text annotation
IL_8UJD_1571/L5/4769:4771,
1/L5/4863:4865		Isolated non-canonical cWW pair
geometric
IL_3GM7_006
IL_01003.1
IL_8UJD_1591/L5/4885:4889,
1/L5/4930:4934		Triple non-canonical cWW pairs
geometric
IL_8S95_002
NA
IL_8UJD_1601/L5/4890:4897,
1/L5/4924:4929		No text annotation
IL_8UJD_1631/L5/4972:4975,
1/L5/4983:4986		Tandem non-canonical cWW pairs
homologous
IL_8CRE_135
NA
IL_8UJD_1641/L5/4992:4994,
1/L5/5057:5059		Isolated non-canonical cWW pair
geometric
IL_3D0U_006
IL_01003.1
IL_8UJD_1651/L5/4996:4997,
1/L5/5053:5055		Single bulged C
geometric
IL_1KUQ_002
IL_05642.1
IL_8UJD_1661/L5/5000:5002,
1/L5/5045:5050		No text annotation
homologous
IL_8P9A_359
IL_00086.1
IL_8UJD_1671/L5/5003:5009,
1/L5/5039:5044		No text annotation
IL_8UJD_1681/L5/5012:5014,
1/L5/5035:5036		No text annotation
homologous
IL_8CRE_140
NA
IL_8UJD_1691/L5/5014:5017,
1/L5/5032:5035		Double sheared
homologous
IL_8CRE_141
NA
IL_8UJD_1701/L7/15:16,
1/L7/62:64		Single bulged A
homologous
IL_8P9A_364
IL_14190.1
IL_8UJD_1711/L7/21:27,
1/L7/52:57		No text annotation
homologous
IL_8OI5_135
IL_41504.1
IL_8UJD_1721/L7/28:29,
1/L7/48:51		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
NA
IL_8UJD_1731/L7/32:36,
1/L7/41:45		No text annotation
homologous
IL_9DFE_113
IL_58103.12
IL_8UJD_1741/L7/71:78,
1/L7/98:104		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8OI5_139
IL_62167.1
IL_8UJD_1751/L7/79:81,
1/L7/95:97		Isolated non-canonical cWW pair
homologous
IL_7A0S_107
IL_71625.1
IL_8UJD_1761/L7/82:85,
1/L7/92:94		Isolated non-canonical cWW pair
homologous
IL_8OI5_140
IL_01003.1
IL_8UJD_1771/L8/64:66,
1/L8/92:95		Isolated non-canonical cWW with bulges
homologous
IL_8P9A_371
IL_68118.1

Problematic loops

#loop idProblemSequence
IL_8UJD_010Single stack bend
IL_8UJD_025No text annotation
IL_8UJD_026No text annotation
IL_8UJD_039No text annotation
IL_8UJD_040Isolated non-canonical cWW pair
IL_8UJD_041Single stack bend
IL_8UJD_046Single stack bend
IL_8UJD_047Single stack bend
IL_8UJD_070No text annotation
IL_8UJD_073No text annotation
IL_8UJD_082No text annotation
IL_8UJD_083No text annotation
IL_8UJD_094Tandem non-canonical cWW pairs
IL_8UJD_111No text annotation
IL_8UJD_112No text annotation
IL_8UJD_126No text annotation
IL_8UJD_153No text annotation
IL_8UJD_158Single stack bend
IL_8UJD_161Single stack bend
IL_8UJD_162Single bulged C

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8UJD_0011/L5/112:116,
1/L5/155:160,
1/L5/275:278		No text annotation
J3_8UJD_0021/L5/196:199,
1/L5/215:228,
1/L5/240:244		No text annotation
J3_8UJD_0031/L5/351:367,
1/L5/374:379,
1/L8/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_8UJD_0041/L5/380:387,
1/L5/414:415,
1/L8/19:20		No text annotation
geometric
J3_8CRE_005
NA
J3_8UJD_0051/L5/380:390,
1/L5/401:415,
1/L8/19:20		No text annotation
homologous
J3_8CRE_006
NA
J3_8UJD_0061/L5/451:455,
1/L5/701:705,
1/L5/1292:1296		No text annotation
J3_8UJD_0071/L5/712:713,
1/L5/955:976,
1/L5/1278:1284		No text annotation
J3_8UJD_0081/L5/1531:1537,
1/L5/1622:1624,
1/L5/1640:1643		No text annotation
homologous
J3_8P9A_049
J3_46658.1
J3_8UJD_0091/L5/1546:1548,
1/L5/1580:1584,
1/L5/1609:1612		No text annotation
homologous
J3_8CRE_010
NA
J3_8UJD_0101/L5/1726:1727,
1/L5/1802:1806,
1/L5/1832:1837		No text annotation
homologous
J3_8P9A_051
J3_84137.1
J3_8UJD_0121/L5/2393:2399,
1/L5/2805:2807,
1/L5/2819:2822		No text annotation
homologous
J3_8P9A_053
J3_05025.1
J3_8UJD_0131/L5/2402:2405,
1/L5/2785:2791,
1/L5/2800:2802		No text annotation
homologous
J3_8CRE_014
NA
J3_8UJD_0141/L5/2440:2445,
1/L5/2515:2519,
1/L5/2536:2537		No text annotation
homologous
J3_8P9A_055
J3_94309.1
J3_8UJD_0151/L5/2451:2456,
1/L5/2465:2476,
1/L5/2501:2508		No text annotation
J3_8UJD_0161/L5/2551:2555,
1/L5/2572:2575,
1/L5/2757:2767		No text annotation
J3_8UJD_0171/L5/2575:2576,
1/L5/2585:2589,
1/L5/2756:2757		No text annotation
homologous
J3_8P9A_087
J3_05348.1
J3_8UJD_0181/L5/2598:2602,
1/L5/2737:2738,
1/L5/2742:2747		No text annotation
homologous
J3_8CRE_018
NA
J3_8UJD_0191/L5/3937:3939,
1/L5/4074:4078,
1/L5/4168:4173		Kink-turn 3-way junction
geometric
J3_5J7L_044
NA
J3_8UJD_0201/L5/4091:4097,
1/L5/4112:4129,
1/L5/4155:4158		No text annotation
J3_8UJD_0211/L5/4228:4230,
1/L5/4331:4342,
1/L5/4370:4375		No text annotation
homologous
J3_8CRE_021
NA
J3_8UJD_0221/L5/4241:4243,
1/L5/4267:4269,
1/L5/4278:4283		No text annotation
homologous
J3_8P9A_062
J3_05327.1
J3_8UJD_0231/L5/4463:4466,
1/L5/4491:4493,
1/L5/4507:4513		No text annotation
homologous
J3_8P9A_063
J3_44047.1
J3_8UJD_0241/L5/4751:4754,
1/L5/4879:4883,
1/L5/4936:4948		No text annotation
J3_8UJD_0251/L5/4970:4972,
1/L5/4986:4991,
1/L5/5060:5063		No text annotation
J3_8UJD_0261/L7/9:14,
1/L7/65:66,
1/L7/109:110		No text annotation
homologous
J3_8P9A_066
J3_26985.1
J3_8UJD_0271/L8/44:45,
1/L8/58:64,
1/L8/95:99		No text annotation
homologous
J3_8CRE_027
NA
J4_8UJD_0011/L5/111:112,
1/L5/278:283,
1/L5/304:310,
1/L5/327:330		No text annotation
homologous
J4_8P9A_012
J4_94698.1
J4_8UJD_0021/L5/196:199,
1/L5/215:222,
1/L5/226:228,
1/L5/240:244		No text annotation
J4_8UJD_0031/L5/981:983,
1/L5/1070:1072,
1/L5/1240:1243,
1/L5/1268:1273		No text annotation
J4_8UJD_0041/L5/2365:2371,
1/L5/2389:2391,
1/L5/2824:2829,
1/L5/3856:3857		No text annotation
J4_8UJD_0051/L5/2406:2410,
1/L5/2434:2439,
1/L5/2538:2539,
1/L5/2777:2784		No text annotation
homologous
J4_8CRE_004
NA
J4_8UJD_0061/L5/2618:2619,
1/L5/2637:2642,
1/L5/2692:2698,
1/L5/2718:2719		No text annotation
J4_8UJD_0071/L5/3634:3638,
1/L5/3650:3654,
1/L5/3690:3694,
1/L5/3821:3826		No text annotation
homologous
J4_8P9A_017
J4_78485.1
J4_8UJD_0081/L5/3696:3698,
1/L5/3752:3753,
1/L5/3771:3780,
1/L5/3814:3819		No text annotation
homologous
J4_8P9A_018
J4_42306.1
J4_8UJD_0091/L5/4231:4235,
1/L5/4289:4291,
1/L5/4318:4319,
1/L5/4328:4330		No text annotation
J4_8UJD_0101/L5/4231:4235,
1/L5/4289:4293,
1/L5/4317:4319,
1/L5/4328:4330		No text annotation
homologous
J4_8CRE_008
NA
J4_8UJD_0111/L5/4587:4590,
1/L5/4620:4621,
1/L5/4676:4678,
1/L5/4712:4715		No text annotation
J5_8UJD_0011/L5/20:21,
1/L8/35:42,
1/L8/101:106,
1/L8/113:114,
1/L8/136:137		No text annotation
J5_8UJD_0021/L5/1335:1340,
1/L5/1516:1519,
1/L5/1658:1661,
1/L5/2288:2290,
1/L5/2345:2351		No text annotation
homologous
J5_8CRE_002
NA
J5_8UJD_0031/L5/2855:2863,
1/L5/2887:2888,
1/L5/3613:3614,
1/L5/3618:3626,
1/L5/3835:3837		No text annotation
homologous
J5_8CRE_004
NA
J5_8UJD_0041/L5/3696:3698,
1/L5/3752:3753,
1/L5/3771:3773,
1/L5/3775:3780,
1/L5/3814:3819		No text annotation
J5_8UJD_0051/L5/3902:3910,
1/L5/4392:4400,
1/L5/4444:4453,
1/L5/4528:4534,
1/L5/4552:4558		No text annotation
J5_8UJD_0061/L5/3920:3923,
1/L5/4188:4191,
1/L5/4204:4205,
1/L5/4227:4228,
1/L5/4375:4381		No text annotation
homologous
J5_8P9A_015
J5_96125.1
J6_8UJD_0011/L5/21:26,
1/L5/57:67,
1/L5/74:78,
1/L5/105:109,
1/L5/332:339,
1/L8/33:35		No text annotation
J6_8UJD_0021/L5/1352:1355,
1/L5/1384:1388,
1/L5/1395:1399,
1/L5/1418:1421,
1/L5/1464:1466,
1/L5/1499:1504		No text annotation
J6_8UJD_0031/L5/3920:3923,
1/L5/4188:4191,
1/L5/4204:4205,
1/L5/4227:4230,
1/L5/4331:4342,
1/L5/4370:4381		No text annotation
J7_8UJD_0011/L5/1666:1671,
1/L5/1684:1685,
1/L5/1852:1855,
1/L5/1879:1884,
1/L5/1895:1899,
1/L5/2077:2078,
1/L5/2278:2283		No text annotation

Problematic loops

#loop idProblemSequence
J3_8UJD_011No text annotation

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