RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8QFD_0011/5/32:39No text annotation
homologous
HL_5TBW_001
NA
HL_8QFD_0021/5/63:68No text annotation
homologous
HL_8C3A_002
NA
HL_8QFD_0031/5/84:90No text annotation
homologous
HL_5TBW_003
NA
HL_8QFD_0051/5/199:206T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_8QFD_0061/5/217:221No text annotation
homologous
HL_5TBW_006
NA
HL_8QFD_0071/5/225:233T-loop with unstacked turn
homologous
HL_5TBW_007
NA
HL_8QFD_0081/5/284:293No text annotation
homologous
HL_5TBW_008
NA
HL_8QFD_0091/5/309:318Pseudoknot geometry
homologous
HL_8C3A_009
NA
HL_8QFD_0101/5/363:368GNRA
homologous
HL_8C3A_010
NA
HL_8QFD_0111/5/388:393GNRA
homologous
HL_8C3A_011
NA
HL_8QFD_0151/5/1170:1175Mini UNCG
geometric
HL_4TUW_002
HL_12626.2
HL_8QFD_0161/5/1309:1318T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_8QFD_0181/5/1381:1386GNRA
homologous
HL_5TBW_016
NA
HL_8QFD_0221/5/1585:1594No text annotation
homologous
HL_5TBW_020
NA
HL_8QFD_0231/5/1619:1627No text annotation
homologous
HL_8C3A_021
NA
HL_8QFD_0241/5/1667:1672Externally structured
homologous
HL_8C3A_022
NA
HL_8QFD_0261/5/1808:1815No text annotation
geometric
HL_2Y9H_005
HL_44506.2
HL_8QFD_0271/5/1856:1862GNRA
homologous
HL_5TBW_025
NA
HL_8QFD_0281/5/1878:1885No text annotation
homologous
HL_5TBW_026
NA
HL_8QFD_0311/5/2309:2314GNRA
homologous
HL_5TBW_030
NA
HL_8QFD_0321/5/2368:2376T-loop with 2 stacked bulged bases
homologous
HL_8C3A_031
NA
HL_8QFD_0331/5/2412:2418Pseudoknot geometry with 3' bulge
homologous
HL_5TBW_032
NA
HL_8QFD_0341/5/2450:2455GNRA variation
homologous
HL_5TBW_033
NA
HL_8QFD_0351/5/2461:2463No text annotation
HL_8QFD_0361/5/2515:2524No text annotation
homologous
HL_5TBW_035
NA
HL_8QFD_0371/5/2570:2575GNRA
homologous
HL_8C3A_036
NA
HL_8QFD_0381/5/2616:2624No text annotation
homologous
HL_8C3A_037
NA
HL_8QFD_0391/5/2656:2662No text annotation
homologous
HL_8C3A_038
NA
HL_8QFD_0401/5/2697:2702No text annotation
geometric
HL_2Y9H_003
HL_75660.7
HL_8QFD_0411/5/2730:2734No text annotation
homologous
HL_8C3A_040
NA
HL_8QFD_0421/5/2784:2791No text annotation
homologous
HL_5TBW_041
NA
HL_8QFD_0431/5/2802:2808GNRA
homologous
HL_5TBW_042
NA
HL_8QFD_0441/5/2864:2869UNCG
homologous
HL_8C3A_043
NA
HL_8QFD_0461/5/3614:3618No text annotation
homologous
HL_8C3A_045
NA
HL_8QFD_0471/5/3639:3649No text annotation
homologous
HL_5TBW_046
NA
HL_8QFD_0481/5/3668:3674GNRA
homologous
HL_8C3A_047
NA
HL_8QFD_0491/5/3724:3729GNRA
homologous
HL_5TBW_048
NA
HL_8QFD_0511/5/3796:3804No text annotation
homologous
HL_8C3A_050
NA
HL_8QFD_0521/5/3873:3882No text annotation
homologous
HL_5TBW_051
NA
HL_8QFD_0541/5/4193:4201No text annotation
homologous
HL_8C3A_055
NA
HL_8QFD_0551/5/4210:4222No text annotation
homologous
HL_8C3A_056
NA
HL_8QFD_0561/5/4250:4258No text annotation
homologous
HL_8C3A_057
NA
HL_8QFD_0571/5/4270:4277Pseudoknot geometry
homologous
HL_8C3A_058
NA
HL_8QFD_0581/5/4301:4309No text annotation
homologous
HL_8C3A_059
NA
HL_8QFD_0591/5/4321:4326GNRA
homologous
HL_5TBW_059
NA
HL_8QFD_0601/5/4352:4362No text annotation
geometric
HL_2ZZM_002
HL_33487.1
HL_8QFD_0611/5/4417:4425No text annotation
homologous
HL_5TBW_061
NA
HL_8QFD_0621/5/4474:4481No text annotation
homologous
HL_5TBW_062
NA
HL_8QFD_0631/5/4497:4503No text annotation
geometric
HL_5TBW_063
NA
HL_8QFD_0641/5/4540:4545GNRA
homologous
HL_8C3A_065
NA
HL_8QFD_0651/5/4603:4608GNRA
homologous
HL_8C3A_066
NA
HL_8QFD_0661/5/4646:4651Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_8QFD_0671/5/4688:4702No text annotation
homologous
HL_5TBW_067
NA
HL_8QFD_0681/5/4906:4913No text annotation
geometric
HL_2Y9H_003
HL_75660.7
HL_8QFD_0691/5/4974:4982No text annotation
geometric
HL_5J7L_201
NA
HL_8QFD_0761/7/32:45No text annotation
homologous
HL_8P9A_183
HL_01182.1
HL_8QFD_0711/7/36:41No text annotation
homologous
HL_5TBW_185
NA
HL_8QFD_0721/7/86:91GNRA
homologous
HL_8C3A_074
NA
HL_8QFD_0731/8/47:56No text annotation
geometric
HL_7RQB_001
NA
HL_8QFD_0751/8/107:112No text annotation
homologous
HL_5TBW_075
NA

Problematic loops

#loop idProblemSequence
HL_8QFD_004No text annotation
HL_8QFD_012No text annotation
HL_8QFD_013No text annotation
HL_8QFD_014No text annotation
HL_8QFD_017No text annotation
HL_8QFD_019Externally structured
HL_8QFD_020No text annotation
HL_8QFD_021No text annotation
HL_8QFD_025Externally structured
HL_8QFD_029No text annotation
HL_8QFD_030Mini UNCG
HL_8QFD_045No text annotation
HL_8QFD_050No text annotation
HL_8QFD_053No text annotation
HL_8QFD_070No text annotation
HL_8QFD_074No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8QFD_0011/5/1:2,
1/8/149:151		Single bulged C
homologous
IL_8C3A_002
NA
IL_8QFD_0021/5/7:9,
1/8/143:144		Single bulged U
homologous
IL_8C3A_003
NA
IL_8QFD_0031/5/11:13,
1/8/139:141		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_01003.2
IL_8QFD_0041/5/21:22,
1/5/50:52		No text annotation
homologous
IL_8C3A_004
NA
IL_8QFD_0051/5/25:32,
1/5/39:47		9x8 Sarcin-Ricin; G-bulge
geometric
IL_4WF9_008
IL_93502.1
IL_8QFD_0061/5/76:83,
1/5/91:97		No text annotation
homologous
IL_8C3A_006
NA
IL_8QFD_0071/5/113:116,
1/5/147:148		Stack outside cWW
geometric
IL_5J7L_268
NA
IL_8QFD_1531/5/113:117,
1/5/142:148		No text annotation
IL_8QFD_0081/5/116:117,
1/5/142:147		No text annotation
homologous
IL_8C3A_007
NA
IL_8QFD_0091/5/120:121,
1/5/137:139		Single bulged C
geometric
IL_1S03_006
IL_05642.2
IL_8QFD_0101/5/190:191,
1/5/239:241		Single bulged C
geometric
IL_1DQF_001
NA
IL_8QFD_0111/5/194:196,
1/5/209:210		Single bulged U
homologous
IL_8C3A_013
NA
IL_8QFD_0121/5/334:337,
1/8/32:33		Minor groove platform, major groove intercalation
geometric
IL_1U9S_005
IL_55206.1
IL_8QFD_0131/5/343:345,
1/8/25:26		Single bulged A
homologous
IL_8C3A_014
NA
IL_8QFD_0141/5/382:385,
1/5/396:409		No text annotation
homologous
IL_5TBW_014
NA
IL_8QFD_0151/5/410:416,
1/8/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_8QFD_0161/5/438:441,
1/5/1292:1296		No text annotation
geometric
IL_7MLW_007
IL_49140.1
IL_8QFD_0181/5/704:705,
1/5/1278:1280		Single bulged G
geometric
IL_4LFB_036
IL_28408.2
IL_8QFD_0191/5/718:719,
1/5/934:937		Multiple bulged bases
geometric
IL_1R3E_001
IL_05670.1
IL_8QFD_0201/5/722:726,
1/5/930:931		No text annotation
IL_8QFD_0211/5/727:730,
1/5/920:929		No text annotation
IL_8QFD_0231/5/737:744,
1/5/903:911		No text annotation
geometric
IL_5TBW_020
NA
IL_8QFD_0241/5/1065:1066,
1/5/1229:1231		Single bulged A
geometric
IL_2VPL_002
IL_14190.2
IL_8QFD_0261/5/1074:1076,
1/5/1205:1209		Isolated near basepair
geometric
IL_7A0S_030
IL_42997.5
IL_8QFD_0271/5/1078:1079,
1/5/1201:1203		Single bulged C
geometric
IL_3SN2_001
IL_05642.2
IL_8QFD_0281/5/1088:1089,
1/5/1190:1192		No text annotation
IL_8QFD_0301/5/1161:1163,
1/5/1182:1184		Isolated non-canonical cWW pair
geometric
IL_5ED1_002
IL_01003.2
IL_8QFD_0311/5/1165:1168,
1/5/1177:1180		Tandem non-canonical cWW pairs
geometric
IL_1MFQ_004
IL_15225.2
IL_8QFD_0321/5/1349:1352,
1/5/1371:1374		No text annotation
IL_8QFD_1541/5/1349:1353,
1/5/1368:1374		No text annotation
IL_8QFD_0331/5/1352:1353,
1/5/1368:1371		Multiple bulged bases
geometric
IL_1R3E_002
IL_05670.1
IL_8QFD_0341/5/1417:1421,
1/5/1447:1452		Triple sheared related
geometric
IL_4V9F_018
IL_67427.1
IL_8QFD_0351/5/1423:1426,
1/5/1442:1445		Double sheared
geometric
IL_4LFB_060
IL_58355.2
IL_8QFD_0361/5/1459:1460,
1/5/1488:1490		Single bulged A
homologous
IL_5TBW_024
NA
IL_8QFD_0371/5/1512:1514,
1/5/1647:1649		Isolated non-canonical cWW pair
homologous
IL_8C3A_029
NA
IL_8QFD_0381/5/1514:1518,
1/5/1640:1647		tHW-tHW cross-strand stack
geometric
IL_5TBW_028
NA
IL_8QFD_0391/5/1537:1538,
1/5/1604:1606		Single bulged A
geometric
IL_4WF9_022
IL_14190.2
IL_8QFD_0401/5/1542:1543,
1/5/1568:1570		Single bulged G
homologous
IL_8C3A_032
NA
IL_8QFD_0411/5/1543:1547,
1/5/1564:1568		Triple sheared
geometric
IL_5J7L_263
NA
IL_8QFD_0421/5/1578:1581,
1/5/1597:1599		Major groove platform with extra cWW
homologous
IL_8C3A_034
NA
IL_8QFD_0431/5/1582:1584,
1/5/1595:1596		Single bulged U
homologous
IL_8C3A_035
NA
IL_8QFD_0441/5/1616:1618,
1/5/1628:1632		Multiple bulged bases
geometric
IL_5TBW_033
NA
IL_8QFD_0451/5/1663:1665,
1/5/1674:1676		Isolated non-canonical cWW pair
homologous
IL_8C3A_037
NA
IL_8QFD_0461/5/1678:1680,
1/5/1840:1843		No text annotation
IL_8QFD_0481/5/1715:1717,
1/5/1830:1831		Single bulged G
homologous
IL_8C3A_040
NA
IL_8QFD_0491/5/1724:1729,
1/5/1784:1789		5x5 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_7A0S_027
NA
IL_8QFD_0501/5/1729:1730,
1/5/1782:1784		Minor groove platform
homologous
IL_5TBW_039
NA
IL_8QFD_0511/5/1731:1736,
1/5/1778:1781		C-loop with bulged stacked A's
homologous
IL_8C3A_043
NA
IL_8QFD_0521/5/1738:1741,
1/5/1773:1776		Tandem non-canonical cWW pairs
geometric
IL_5TBW_041
NA
IL_8QFD_0531/5/1741:1743,
1/5/1771:1773		Isolated non-canonical cWW pair
homologous
IL_8C3A_045
NA
IL_8QFD_0541/5/1806:1808,
1/5/1815:1816		Single bulged G
geometric
IL_4V88_442
NA
IL_8QFD_0551/5/1850:1852,
1/5/1866:1868		Isolated non-canonical cWW pair
homologous
IL_5TBW_046
NA
IL_8QFD_0571/5/1897:1901,
1/5/2059:2063		UAA/GAN
homologous
IL_8C3A_051
NA
IL_8QFD_0581/5/1903:1910,
1/5/2056:2057		SSU/LSU pseudoknot
geometric
IL_7RQB_037
NA
IL_8QFD_0591/5/1910:1912,
1/5/2055:2056		No text annotation
IL_8QFD_0601/5/1912:1914,
1/5/2054:2055		No text annotation
IL_8QFD_0611/5/1918:1925,
1/5/2045:2050		No text annotation
geometric
IL_5TBW_051
NA
IL_8QFD_0631/5/1938:1940,
1/5/2027:2028		Single bulged U
homologous
IL_5TBW_053
NA
IL_8QFD_0641/5/2075:2077,
1/5/2264:2265		Single bulged C
geometric
IL_3W3S_001
IL_05642.2
IL_8QFD_0651/5/2282:2284,
1/5/2334:2337		Isolated cWS basepair
homologous
IL_5TBW_057
NA
IL_8QFD_0661/5/2291:2293,
1/5/2326:2327		Single bulged A
homologous
IL_8C3A_062
NA
IL_8QFD_0671/5/2294:2301,
1/5/2321:2325		Kink-turn
homologous
IL_5TBW_059
NA
IL_8QFD_0681/5/2304:2306,
1/5/2317:2318		Single bulged A
homologous
IL_5TBW_060
NA
IL_8QFD_0691/5/2350:2356,
1/5/3858:3863		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_061
NA
IL_8QFD_0701/5/2398:2401,
1/5/2775:2776		Major groove platform; stack outside cWW
geometric
IL_4V9F_050
IL_74641.2
IL_8QFD_0711/5/2407:2411,
1/5/2419:2421		C-loop
geometric
IL_7A0S_047
IL_06671.1
IL_8QFD_0721/5/2438:2442,
1/5/2501:2506		UAA/GAN
homologous
IL_8C3A_067
NA
IL_8QFD_0741/5/2541:2542,
1/5/2760:2762		Single bulged U
geometric
IL_2A64_002
IL_97561.2
IL_8QFD_0751/5/2581:2585,
1/5/2744:2748		Triple sheared
homologous
IL_5TBW_067
NA
IL_8QFD_0761/5/2605:2606,
1/5/2716:2718		Single bulged A
geometric
IL_3MJA_001
NA
IL_8QFD_0771/5/2606:2607,
1/5/2714:2716		Single stack bend
homologous
IL_8C3A_076
NA
IL_8QFD_0781/5/2638:2640,
1/5/2677:2680		Isolated tHS basepair with bulges
geometric
IL_4V9F_076
IL_87316.1
IL_8QFD_0791/5/2643:2645,
1/5/2673:2674		Single bulged G
geometric
IL_3NDB_004
NA
IL_8QFD_0801/5/2648:2654,
1/5/2664:2670		No text annotation
homologous
IL_8C3A_079
NA
IL_8QFD_0811/5/2696:2697,
1/5/2702:2704		No text annotation
IL_8QFD_0821/5/2824:2830,
1/5/3850:3853		No text annotation
homologous
IL_8C3A_080
NA
IL_8QFD_0831/5/2836:2838,
1/5/3842:3844		No text annotation
homologous
IL_8C3A_081
NA
IL_8QFD_0841/5/2839:2842,
1/5/3840:3841		Major groove platform; stack outside cWW
homologous
IL_8C3A_082
NA
IL_8QFD_1551/5/2839:2847,
1/5/3837:3841		No text annotation
homologous
IL_8P9A_305
IL_80252.1
IL_8QFD_0851/5/2842:2847,
1/5/3837:3840		Intercalated tWH
geometric
IL_4V9F_062
IL_28217.1
IL_8QFD_0861/5/2859:2864,
1/5/2869:2875		tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_20700.1
IL_8QFD_0871/5/2881:2883,
1/5/3610:3612		Isolated non-canonical cWW pair
homologous
IL_8C3A_085
NA
IL_8QFD_0881/5/2888:2889,
1/5/3602:3605		No text annotation
geometric
IL_5TBW_080
NA
IL_8QFD_0891/5/3632:3633,
1/5/3827:3829		Single bulged A
homologous
IL_5TBW_082
NA
IL_8QFD_0901/5/3660:3665,
1/5/3677:3684		Kink-turn related
homologous
IL_5TBW_083
NA
IL_8QFD_0911/5/3700:3703,
1/5/3749:3750		Major groove intercalation
homologous
IL_5TBW_084
NA
IL_8QFD_0921/5/3704:3705,
1/5/3745:3748		Major groove intercalation
homologous
IL_5TBW_085
NA
IL_8QFD_0931/5/3708:3710,
1/5/3741:3742		Single bulged U
geometric
IL_7KVT_002
IL_97561.2
IL_8QFD_0941/5/3710:3714,
1/5/3739:3741		Other IL
geometric
IL_4PDB_001
IL_70784.1
IL_8QFD_0951/5/3715:3721,
1/5/3732:3738		No text annotation
homologous
IL_8C3A_093
NA
IL_8QFD_0961/5/3780:3781,
1/5/3811:3814		Bulged stacked bases
geometric
IL_5TBW_089
NA
IL_8QFD_0971/5/3781:3792,
1/5/3808:3811		No text annotation
homologous
IL_5TBW_090
NA
IL_8QFD_0981/5/3895:3898,
1/5/4563:4565		Major groove platform with extra pair
homologous
IL_5TBW_091
NA
IL_8QFD_0991/5/3900:3902,
1/5/4558:4561		No text annotation
homologous
IL_8C3A_097
NA
IL_8QFD_1001/5/3913:3915,
1/5/4388:4389		Single bulged U
homologous
IL_5TBW_093
NA
IL_8QFD_1011/5/3916:3917,
1/5/4384:4387		Minor groove platform
homologous
IL_5TBW_094
NA
IL_8QFD_1021/5/3927:3929,
1/5/4181:4184		No text annotation
homologous
IL_8C3A_100
NA
IL_8QFD_1561/5/3948:3952,
1/5/4060:4065		No text annotation
homologous
IL_8C3A_102
NA
IL_8QFD_1041/5/3955:3966,
1/5/4055:4057		Isolated non-canonical cWW pair
geometric
IL_8C3A_149
NA
IL_8QFD_1051/5/3970:3974,
1/5/4038:4051		No text annotation
IL_8QFD_1061/5/4082:4088,
1/5/4161:4164		No text annotation
homologous
IL_8C3A_106
NA
IL_8QFD_1081/5/4191:4192,
1/5/4202:4204		Single bulged A
homologous
IL_8C3A_107
NA
IL_8QFD_1091/5/4243:4245,
1/5/4263:4267		Isolated tHS basepair with bulges
homologous
IL_5TBW_099
NA
IL_8QFD_1101/5/4291:4293,
1/5/4317:4318		Single bulged A
geometric
IL_4V88_399
NA
IL_8QFD_1111/5/4295:4298,
1/5/4312:4315		Tandem non-canonical cWW pairs
homologous
IL_5TBW_100
NA
IL_8QFD_1121/5/4347:4350,
1/5/4364:4365		Single stack bend
geometric
IL_5J7L_032
NA
IL_8QFD_1131/5/4400:4401,
1/5/4442:4444		Major groove platform
geometric
IL_5TBW_102
NA
IL_8QFD_1571/5/4400:4403,
1/5/4440:4444		No text annotation
homologous
IL_8C3A_111
NA
IL_8QFD_1141/5/4401:4403,
1/5/4440:4442		Isolated non-canonical cWW pair
homologous
IL_5TBW_103
NA
IL_8QFD_1151/5/4403:4405,
1/5/4439:4440		Major groove platform
geometric
IL_5TBW_104
NA
IL_8QFD_1161/5/4405:4407,
1/5/4435:4439		Major groove minor groove platform with extra cWW
homologous
IL_5TBW_105
NA
IL_8QFD_1171/5/4412:4416,
1/5/4426:4430		No text annotation
homologous
IL_8C3A_114
NA
IL_8QFD_1181/5/4453:4454,
1/5/4526:4528		Major groove platform
homologous
IL_8C3A_115
NA
IL_8QFD_1191/5/4456:4458,
1/5/4520:4524		No text annotation
homologous
IL_8C3A_116
NA
IL_8QFD_1201/5/4458:4459,
1/5/4517:4520		Multiple bulged bases
geometric
IL_5TBW_109
NA
IL_8QFD_1211/5/4466:4468,
1/5/4489:4491		Isolated non-canonical cWW pair
geometric
IL_5TBW_110
NA
IL_8QFD_1581/5/4466:4470,
1/5/4485:4491		No text annotation
IL_8QFD_1221/5/4468:4470,
1/5/4485:4489		No text annotation
geometric
IL_3DD2_004
IL_09353.1
IL_8QFD_1231/5/4495:4497,
1/5/4503:4505		Isolated non-canonical cWW pair
homologous
IL_8C3A_120
NA
IL_8QFD_1241/5/4537:4538,
1/5/4547:4549		Single bulged A
homologous
IL_5TBW_113
NA
IL_8QFD_1251/5/4580:4582,
1/5/4721:4723		No text annotation
geometric
IL_3ICQ_003
NA
IL_8QFD_1261/5/4582:4585,
1/5/4717:4721		Other IL
geometric
IL_4WF9_054
IL_74317.1
IL_8QFD_1271/5/4590:4592,
1/5/4618:4620		Isolated non-canonical cWW pair
homologous
IL_5TBW_115
NA
IL_8QFD_1281/5/4596:4603,
1/5/4608:4614		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_8QFD_1291/5/4624:4629,
1/5/4669:4673		No text annotation
IL_8QFD_1301/5/4632:4637,
1/5/4662:4666		UAA/GAN related
homologous
IL_5TBW_118
NA
IL_8QFD_1311/5/4638:4640,
1/5/4659:4661		Isolated cWH basepair
geometric
IL_3R1C_018
IL_10892.2
IL_8QFD_1321/5/4641:4642,
1/5/4655:4658		Multiple bulged bases
homologous
IL_5TBW_119
NA
IL_8QFD_1331/5/4680:4685,
1/5/4705:4710		UAA/GAN with extra cWW
geometric
IL_5J7L_350
NA
IL_8QFD_1351/5/4749:4751,
1/5/4947:4950		No text annotation
IL_8QFD_1361/5/4756:4765,
1/5/4868:4876		No text annotation
IL_8QFD_1371/5/4884:4888,
1/5/4929:4933		Triple non-canonical cWW pairs
geometric
IL_8S95_002
IL_71154.2
IL_8QFD_1381/5/4971:4974,
1/5/4982:4985		Tandem non-canonical cWW pairs
homologous
IL_8C3A_135
NA
IL_8QFD_1391/5/4991:4993,
1/5/5056:5058		Isolated non-canonical cWW pair
geometric
IL_3D0U_006
IL_01003.2
IL_8QFD_1401/5/4995:4996,
1/5/5052:5054		No text annotation
IL_8QFD_1411/5/4999:5001,
1/5/5044:5049		Isolated non-canonical cWW pair
homologous
IL_5TBW_132
NA
IL_8QFD_1421/5/5002:5008,
1/5/5038:5043		No text annotation
IL_8QFD_1431/5/5011:5013,
1/5/5034:5035		Single bulged C
geometric
IL_4WF9_035
IL_05642.2
IL_8QFD_1441/5/5013:5016,
1/5/5031:5034		Double sheared; A in syn
homologous
IL_8C3A_141
NA
IL_8QFD_1451/7/15:16,
1/7/62:64		Single bulged A
homologous
IL_8C3A_143
NA
IL_8QFD_1461/7/21:27,
1/7/52:57		Minor groove platform related
homologous
IL_8C3A_144
NA
IL_8QFD_1471/7/28:29,
1/7/48:51		Major groove minor groove platform; mini C-loop
homologous
IL_7RQB_113
NA
IL_8QFD_1481/7/32:36,
1/7/41:45		Symmetric double minor groove platform
geometric
IL_7RQB_114
NA
IL_8QFD_1491/7/71:78,
1/7/98:104		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8C3A_148
NA
IL_8QFD_1501/7/79:81,
1/7/95:97		Isolated non-canonical cWW pair
geometric
IL_4V88_470
NA
IL_8QFD_1511/7/82:85,
1/7/92:94		Isolated non-canonical cWW pair
homologous
IL_8C3A_149
NA
IL_8QFD_1521/8/64:66,
1/8/92:95		Isolated non-canonical cWW pair
homologous
IL_5TBW_145
NA

Problematic loops

#loop idProblemSequence
IL_8QFD_017Tandem non-canonical cWW pairs
IL_8QFD_022No text annotation
IL_8QFD_025Decoding loop related
IL_8QFD_029Isolated cWH basepair
IL_8QFD_047No text annotation
IL_8QFD_056No text annotation
IL_8QFD_062No text annotation
IL_8QFD_073Isolated non-canonical cWW pair
IL_8QFD_103No text annotation
IL_8QFD_107No text annotation
IL_8QFD_134No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8QFD_0011/5/107:111,
1/5/150:155,
1/5/270:273		No text annotation
J3_8QFD_0131/5/346:362,
1/5/369:374,
1/8/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_8QFD_0141/5/375:382,
1/5/409:410,
1/8/19:20		No text annotation
geometric
J3_5TBW_002
NA
J3_8QFD_0151/5/375:385,
1/5/396:410,
1/8/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_8QFD_0031/5/1523:1529,
1/5/1614:1616,
1/5/1632:1635		No text annotation
homologous
J3_8C3A_003
NA
J3_8QFD_0041/5/1538:1540,
1/5/1572:1576,
1/5/1601:1604		No text annotation
homologous
J3_8C3A_004
NA
J3_8QFD_0161/5/1718:1719,
1/5/1794:1798,
1/5/1824:1829		No text annotation
homologous
J3_8P9A_051
J3_84137.1
J3_8QFD_0051/5/2385:2391,
1/5/2797:2799,
1/5/2811:2814		No text annotation
homologous
J3_5TBW_008
NA
J3_8QFD_0061/5/2394:2397,
1/5/2777:2783,
1/5/2792:2794		No text annotation
homologous
J3_5TBW_009
NA
J3_8QFD_0171/5/2432:2437,
1/5/2507:2511,
1/5/2528:2529		No text annotation
homologous
J3_8P9A_055
J3_94309.1
J3_8QFD_0071/5/2543:2547,
1/5/2564:2567,
1/5/2749:2759		No text annotation
J3_8QFD_0181/5/2567:2568,
1/5/2577:2581,
1/5/2748:2749		No text annotation
homologous
J3_8C3A_054
NA
J3_8QFD_0191/5/2590:2594,
1/5/2729:2730,
1/5/2734:2739		No text annotation
homologous
J3_8P9A_058
J3_08594.1
J3_8QFD_0081/5/3937:3939,
1/5/4074:4078,
1/5/4168:4173		Kink-turn 3-way junction
geometric
J3_5J7L_044
NA
J3_8QFD_0201/5/4228:4230,
1/5/4331:4342,
1/5/4370:4375		No text annotation
homologous
J3_8P9A_061
J3_04772.1
J3_8QFD_0091/5/4241:4243,
1/5/4267:4269,
1/5/4278:4283		No text annotation
homologous
J3_8C3A_010
NA
J3_8QFD_0101/5/4463:4466,
1/5/4491:4493,
1/5/4507:4513		No text annotation
homologous
J3_5TBW_014
NA
J3_8QFD_0211/7/9:14,
1/7/65:66,
1/7/109:110		No text annotation
homologous
J3_8P9A_066
J3_26985.1
J3_8QFD_0221/8/44:45,
1/8/58:64,
1/8/95:99		No text annotation
homologous
J3_8C3A_060
NA
J4_8QFD_0011/5/106:107,
1/5/273:278,
1/5/299:305,
1/5/322:325		No text annotation
homologous
J4_8P9A_012
J4_94698.1
J4_8QFD_0021/5/2357:2363,
1/5/2381:2383,
1/5/2816:2821,
1/5/3856:3857		No text annotation
J4_8QFD_0031/5/2398:2402,
1/5/2426:2431,
1/5/2530:2531,
1/5/2769:2776		No text annotation
J4_8QFD_0041/5/2401:2402,
1/5/2426:2431,
1/5/2530:2531,
1/5/2769:2775		No text annotation
J4_8QFD_0051/5/2610:2611,
1/5/2629:2634,
1/5/2684:2690,
1/5/2710:2711		No text annotation
J4_8QFD_0061/5/3634:3638,
1/5/3650:3654,
1/5/3690:3694,
1/5/3821:3826		No text annotation
homologous
J4_8P9A_017
J4_78485.1
J4_8QFD_0071/5/3696:3698,
1/5/3752:3753,
1/5/3771:3780,
1/5/3814:3819		No text annotation
homologous
J4_8P9A_018
J4_42306.1
J4_8QFD_0081/5/4231:4235,
1/5/4289:4291,
1/5/4318:4319,
1/5/4328:4330		No text annotation
J4_8QFD_0091/5/4231:4235,
1/5/4289:4293,
1/5/4317:4319,
1/5/4328:4330		No text annotation
homologous
J4_8P9A_019
J4_59590.1
J4_8QFD_0101/5/4587:4590,
1/5/4620:4621,
1/5/4676:4678,
1/5/4712:4715		No text annotation
J5_8QFD_0011/5/14:16,
1/8/35:42,
1/8/101:106,
1/8/113:114,
1/8/136:138		No text annotation
homologous
J5_8P9A_010
J5_27223.1
J5_8QFD_0021/5/1327:1332,
1/5/1508:1511,
1/5/1650:1653,
1/5/2280:2282,
1/5/2337:2343		No text annotation
homologous
J5_8P9A_011
J5_08384.1
J5_8QFD_0031/5/2847:2855,
1/5/2879:2880,
1/5/3613:3614,
1/5/3618:3626,
1/5/3835:3837		No text annotation
homologous
J5_8P9A_013
J5_99177.1
J5_8QFD_0041/5/3903:3910,
1/5/4392:4400,
1/5/4444:4453,
1/5/4528:4534,
1/5/4552:4557		No text annotation
J5_8QFD_0051/5/3920:3923,
1/5/4188:4191,
1/5/4204:4205,
1/5/4227:4228,
1/5/4375:4381		No text annotation
homologous
J5_8P9A_015
J5_96125.1
J6_8QFD_0011/5/16:21,
1/5/52:62,
1/5/69:73,
1/5/100:104,
1/5/327:334,
1/8/33:35		No text annotation
J6_8QFD_0021/5/3920:3923,
1/5/4188:4191,
1/5/4204:4205,
1/5/4227:4230,
1/5/4331:4342,
1/5/4370:4381		No text annotation
J7_8QFD_0011/5/1658:1663,
1/5/1676:1677,
1/5/1844:1847,
1/5/1871:1876,
1/5/1887:1891,
1/5/2069:2070,
1/5/2270:2275		No text annotation

Problematic loops

#loop idProblemSequence
J3_8QFD_002No text annotation
J3_8QFD_011No text annotation
J3_8QFD_012No text annotation

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