RNA 3D Hub //

9Y49 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_9Y49_0011/A5/37:44No text annotation
homologous
HL_8GLP_001
HL_02262.1
HL_9Y49_0021/A5/68:73No text annotation
homologous
HL_9PN5_002
HL_23875.1
HL_9Y49_0031/A5/89:95No text annotation
homologous
HL_9AXU_003
HL_76371.4
HL_9Y49_0051/A5/204:211No text annotation
homologous
HL_9H3G_009
HL_13999.5
HL_9Y49_0061/A5/222:226No text annotation
homologous
HL_9AXU_006
HL_75660.10
HL_9Y49_0071/A5/230:238No text annotation
homologous
HL_9AXU_007
HL_27670.6
HL_9Y49_0081/A5/289:298No text annotation
homologous
HL_8GLP_008
HL_63894.4
HL_9Y49_0091/A5/314:323No text annotation
homologous
HL_8GLP_009
HL_00911.4
HL_9Y49_0101/A5/368:373No text annotation
homologous
HL_9AXU_010
HL_34789.6
HL_9Y49_0111/A5/393:398No text annotation
homologous
HL_8GLP_118
HL_34789.6
HL_9Y49_0171/A5/1317:1326No text annotation
homologous
HL_9PN5_014
HL_33597.7
HL_9Y49_0181/A5/1364:1373No text annotation
HL_9Y49_0191/A5/1389:1394No text annotation
homologous
HL_9PN5_016
HL_34789.6
HL_9Y49_0231/A5/1561:1566No text annotation
homologous
HL_8GLP_022
HL_34789.6
HL_9Y49_0241/A5/1593:1602No text annotation
homologous
HL_9AXU_018
HL_50204.3
HL_9Y49_0251/A5/1627:1635No text annotation
homologous
HL_9PN5_021
HL_28253.1
HL_9Y49_0261/A5/1675:1680No text annotation
homologous
HL_9H3G_028
HL_27530.3
HL_9Y49_0281/A5/1816:1823No text annotation
homologous
HL_9PN5_023
HL_63894.4
HL_9Y49_0291/A5/1864:1870No text annotation
homologous
HL_9AXU_023
HL_34789.6
HL_9Y49_0301/A5/1886:1893No text annotation
homologous
HL_8GLP_029
HL_47171.3
HL_9Y49_0331/A6/2317:2322No text annotation
homologous
HL_9AXU_027
HL_34789.6
HL_9Y49_0341/A6/2376:2384T-loop with 2 stacked bulged bases
homologous
HL_8GLP_033
HL_33597.7
HL_9Y49_0351/A6/2420:2426No text annotation
homologous
HL_8GLP_034
HL_49081.2
HL_9Y49_0361/A6/2458:2463No text annotation
homologous
HL_8GLP_035
HL_34789.6
HL_9Y49_0381/A6/2523:2532No text annotation
homologous
HL_8GLP_038
HL_77449.3
HL_9Y49_0421/A6/2664:2670No text annotation
homologous
HL_9PN5_037
HL_97067.2
HL_9Y49_0441/A6/2738:2742No text annotation
homologous
HL_9PN5_039
HL_90436.5
HL_9Y49_0451/A6/2792:2799No text annotation
homologous
HL_8GLP_045
HL_28592.4
HL_9Y49_0461/A6/2810:2816No text annotation
homologous
HL_8GLP_046
HL_34789.6
HL_9Y49_0471/A6/2872:2877No text annotation
homologous
HL_8GLP_047
HL_61337.6
HL_9Y49_0491/A6/3614:3618No text annotation
homologous
HL_8GLP_049
NA
HL_9Y49_0501/A6/3639:3649No text annotation
homologous
HL_9H3G_049
HL_87681.3
HL_9Y49_0511/A6/3668:3674No text annotation
homologous
HL_9H3G_050
HL_34789.6
HL_9Y49_0521/A6/3724:3729No text annotation
homologous
HL_9AXU_044
HL_34789.6
HL_9Y49_0531/A6/3757:3767No text annotation
homologous
HL_9H3G_052
HL_82185.3
HL_9Y49_0541/A6/3796:3804No text annotation
homologous
HL_9H3G_053
HL_77449.3
HL_9Y49_0551/A6/3873:3882No text annotation
homologous
HL_8GLP_055
HL_78372.3
HL_9Y49_0561/A6/3977:4034No text annotation
HL_9Y49_0591/A6/4193:4201LSU P loop
homologous
HL_8GLP_059
HL_11974.4
HL_9Y49_0601/A6/4210:4222No text annotation
homologous
HL_8GLP_060
HL_02042.3
HL_9Y49_0621/A6/4270:4277No text annotation
homologous
HL_8GLP_062
HL_52651.4
HL_9Y49_0631/A6/4301:4309No text annotation
homologous
HL_9PN5_056
HL_15296.3
HL_9Y49_0641/A6/4321:4326No text annotation
homologous
HL_8GLP_064
HL_34789.6
HL_9Y49_0651/A6/4352:4362No text annotation
homologous
HL_8GLP_065
HL_14856.1
HL_9Y49_0661/A6/4417:4425No text annotation
homologous
HL_9H3G_062
HL_52011.3
HL_9Y49_0671/A6/4474:4481No text annotation
homologous
HL_9H3G_063
HL_02262.1
HL_9Y49_0681/A6/4497:4503No text annotation
homologous
HL_9H3G_064
HL_02262.1
HL_9Y49_0691/A6/4540:4545No text annotation
homologous
HL_8GLP_069
HL_34789.6
HL_9Y49_0701/A6/4603:4608No text annotation
homologous
HL_8GLP_070
HL_34789.6
HL_9Y49_0721/A6/4688:4702No text annotation
homologous
HL_9PN5_065
HL_53269.4
HL_9Y49_0751/A6/4975:4983No text annotation
homologous
HL_9H3G_071
HL_37889.3
HL_9Y49_0771/A7/36:41No text annotation
homologous
HL_4V9F_071
HL_59381.4
HL_9Y49_0781/A7/86:91GNRA
homologous
HL_4V9F_072
HL_34789.6
HL_9Y49_0791/A8/47:56No text annotation
homologous
HL_9AXU_071
HL_17803.3
HL_9Y49_0801/A8/68:90No text annotation
homologous
HL_9H3G_002
NA
HL_9Y49_0811/A8/107:112No text annotation
homologous
HL_9H3G_003
HL_23875.1
HL_9Y49_0831/B2/7:17No text annotation
homologous
HL_9H3G_079
HL_73535.3
HL_9Y49_0911/B2/416:421No text annotation
homologous
HL_9PN5_085
HL_34789.6
HL_9Y49_0921/B2/441:452No text annotation
homologous
HL_9PN5_086
HL_86432.3
HL_9Y49_0971/B2/618:623No text annotation
homologous
HL_9PN5_091
HL_34789.6
HL_9Y49_1001/B2/820:828No text annotation
homologous
HL_9PN5_092
HL_11974.4
HL_9Y49_1031/B2/957:966No text annotation
homologous
HL_9H3G_093
HL_38491.4
HL_9Y49_1041/B2/994:999No text annotation
homologous
HL_9H3G_094
HL_34789.6
HL_9Y49_1051/B2/1054:1064No text annotation
homologous
HL_9H3G_095
HL_38491.4
HL_9Y49_1071/B2/1141:1146No text annotation
homologous
HL_9H3G_097
HL_34789.6
HL_9Y49_1081/B2/1178:1183No text annotation
homologous
HL_9PN5_100
HL_34789.6
HL_9Y49_1111/B2/1353:1358No text annotation
homologous
HL_9H3G_101
HL_34789.6
HL_9Y49_1121/B2/1366:1373No text annotation
homologous
HL_9H3G_102
HL_63894.4
HL_9Y49_1191/B2/1847:1852No text annotation
homologous
HL_9H3G_108
HL_34789.6

Problematic loops

#loop idProblemSequence
HL_9Y49_004No text annotation
HL_9Y49_012No text annotation
HL_9Y49_013No text annotation
HL_9Y49_014No text annotation
HL_9Y49_015No text annotation
HL_9Y49_016No text annotation
HL_9Y49_020No text annotation
HL_9Y49_021No text annotation
HL_9Y49_022No text annotation
HL_9Y49_027GNRA
HL_9Y49_031No text annotation
HL_9Y49_032GNRA with tandem sheared
HL_9Y49_037No text annotation
HL_9Y49_039No text annotation
HL_9Y49_040No text annotation
HL_9Y49_041No text annotation
HL_9Y49_043No text annotation
HL_9Y49_048No text annotation
HL_9Y49_057UNCG
HL_9Y49_058No text annotation
HL_9Y49_061No text annotation
HL_9Y49_071No text annotation
HL_9Y49_073No text annotation
HL_9Y49_074No text annotation
HL_9Y49_076No text annotation
HL_9Y49_082No text annotation
HL_9Y49_084No text annotation
HL_9Y49_085No text annotation
HL_9Y49_086No text annotation
HL_9Y49_087No text annotation
HL_9Y49_088No text annotation
HL_9Y49_089No text annotation
HL_9Y49_090No text annotation
HL_9Y49_093No text annotation
HL_9Y49_094No text annotation
HL_9Y49_095GNRA
HL_9Y49_096No text annotation
HL_9Y49_098No text annotation
HL_9Y49_099No text annotation
HL_9Y49_101No text annotation
HL_9Y49_102No text annotation
HL_9Y49_106No text annotation
HL_9Y49_109No text annotation
HL_9Y49_110No text annotation
HL_9Y49_113GNRA
HL_9Y49_114No text annotation
HL_9Y49_115No text annotation
HL_9Y49_116No text annotation
HL_9Y49_117No text annotation
HL_9Y49_118No text annotation
HL_9Y49_120tRNA D-loop
HL_9Y49_121tRNA anticodon loop
HL_9Y49_122T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_9Y49_0021/A5/12:14,
1/A8/143:144		Single bulged U
homologous
IL_8GLP_002
IL_97561.7
IL_9Y49_0031/A5/16:18,
1/A8/139:141		Isolated non-canonical cWW pair
homologous
IL_8GLP_003
IL_01003.6
IL_9Y49_0041/A5/26:27,
1/A5/55:57		Single stack bend
homologous
IL_9H3G_008
IL_15011.5
IL_9Y49_0051/A5/30:37,
1/A5/44:52		9x8 Sarcin-Ricin; G-bulge
homologous
IL_8GLP_005
IL_93502.3
IL_9Y49_0061/A5/81:88,
1/A5/96:102		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8GLP_006
IL_62167.5
IL_9Y49_0081/A5/118:122,
1/A5/147:153		Kink-turn with embedded cWW pair
geometric
IL_8GLP_287
IL_65996.1
IL_9Y49_0091/A5/121:122,
1/A5/147:152		No text annotation
homologous
IL_8GLP_008
IL_10396.3
IL_9Y49_0141/A5/195:196,
1/A5/244:246		Single bulged C
homologous
IL_8GLP_015
IL_05642.5
IL_9Y49_0151/A5/199:201,
1/A5/214:215		Single bulged U
homologous
IL_8GLP_016
IL_97561.7
IL_9Y49_0161/A5/348:350,
1/A8/25:26		Single bulged A
homologous
IL_8GLP_018
IL_14190.4
IL_9Y49_0171/A5/387:390,
1/A5/401:414		No text annotation
geometric
IL_8GLP_019
IL_44923.3
IL_9Y49_0181/A5/415:421,
1/A8/13:19		No text annotation
homologous
IL_8GLP_021
IL_22311.3
IL_9Y49_0191/A5/443:446,
1/A5/1300:1304		No text annotation
IL_9Y49_0201/A5/448:450,
1/A5/1297:1298		No text annotation
geometric
IL_9H3G_115
IL_57267.1
IL_9Y49_0361/A5/708:709,
1/A5/1287:1289		No text annotation
IL_9Y49_0531/A5/1359:1360,
1/A5/1376:1378		No text annotation
IL_9Y49_0541/A5/1360:1364,
1/A5/1373:1376		No text annotation
IL_9Y49_0551/A5/1425:1429,
1/A5/1455:1460		No text annotation
homologous
IL_8GLP_051
IL_47352.3
IL_9Y49_0571/A5/1467:1468,
1/A5/1496:1498		Single bulged A
homologous
IL_8GLP_053
IL_14190.4
IL_9Y49_0581/A5/1474:1476,
1/A5/1489:1490		Single stack bend
homologous
IL_8GLP_054
IL_15011.5
IL_9Y49_0591/A5/1520:1522,
1/A5/1655:1657		Isolated non-canonical cWW pair
homologous
IL_8GLP_289
IL_01003.6
IL_9Y49_0601/A5/1522:1526,
1/A5/1648:1655		No text annotation
homologous
IL_8GLP_290
IL_73855.3
IL_9Y49_0611/A5/1550:1551,
1/A5/1576:1578		Single bulged G
homologous
IL_8GLP_058
IL_28408.4
IL_9Y49_0621/A5/1551:1555,
1/A5/1572:1576		No text annotation
homologous
IL_8GLP_059
IL_15190.4
IL_9Y49_0631/A5/1586:1589,
1/A5/1605:1607		No text annotation
homologous
IL_9PN5_031
IL_36931.4
IL_9Y49_0641/A5/1590:1592,
1/A5/1603:1604		Single bulged U
homologous
IL_9H3G_038
IL_97561.7
IL_9Y49_0651/A5/1624:1626,
1/A5/1636:1640		No text annotation
homologous
IL_9H3G_039
IL_89509.3
IL_9Y49_0661/A5/1671:1673,
1/A5/1682:1684		Isolated non-canonical cWW pair
homologous
IL_9H3G_040
IL_71625.5
IL_9Y49_0671/A5/1686:1688,
1/A5/1848:1851		No text annotation
homologous
IL_8GLP_064
IL_16315.2
IL_9Y49_0681/A5/1722:1726,
1/A5/1836:1840		Triple non-canonical cWW pairs
geometric
IL_5BTM_001
IL_71154.5
IL_9Y49_0691/A5/1732:1737,
1/A5/1792:1797		No text annotation
homologous
IL_8GLP_291
IL_46203.1
IL_9Y49_0701/A5/1737:1738,
1/A5/1790:1792		Minor groove platform
homologous
IL_9AXU_038
IL_41261.1
IL_9Y49_0711/A5/1739:1744,
1/A5/1786:1789		No text annotation
homologous
IL_9H3G_046
IL_16301.3
IL_9Y49_0721/A5/1746:1749,
1/A5/1781:1784		Tandem non-canonical cWW pairs; U in syn
homologous
IL_9PN5_040
IL_71194.4
IL_9Y49_0731/A5/1749:1751,
1/A5/1779:1781		Isolated non-canonical cWW pair
homologous
IL_9PN5_041
IL_01003.6
IL_9Y49_0761/A5/1814:1816,
1/A5/1823:1824		Single bulged G
homologous
IL_9AXU_043
IL_28408.4
IL_9Y49_0771/A5/1858:1860,
1/A5/1874:1876		Isolated non-canonical cWW pair
homologous
IL_9H3G_052
IL_01003.6
IL_9Y49_0791/A5/1905:1909,
1/A5/2067:2071		UAA/GAN
homologous
IL_9PN5_046
IL_08938.3
IL_9Y49_0801/A5/1911:1918,
1/A5/2064:2065		No text annotation
homologous
IL_9H3G_055
IL_11411.3
IL_9Y49_0811/A5/1918:1920,
1/A5/2063:2064		Single bulged G
homologous
IL_8GLP_077
IL_28408.4
IL_9Y49_0821/A5/1920:1924,
1/A5/2060:2063		Tandem non-canonical cWW pairs
geometric
IL_4EYA_010
IL_37443.2
IL_9Y49_0831/A5/1926:1933,
1/A5/2053:2058		No text annotation
homologous
IL_9H3G_057
IL_39054.3
IL_9Y49_0841/A5/1933:1944,
1/A5/2038:2053		No text annotation
homologous
IL_8GLP_080
IL_34501.3
IL_9Y49_0851/A5/1946:1948,
1/A5/2035:2036		Single bulged U
homologous
IL_9H3G_059
IL_97561.7
IL_9Y49_0891/A5/2083:2085,
1/A6/2272:2273		Single bulged C
geometric
IL_8GLP_024
IL_05642.5
IL_9Y49_0901/A6/2290:2292,
1/A6/2342:2345		No text annotation
homologous
IL_8GLP_084
IL_84227.1
IL_9Y49_0911/A6/2299:2301,
1/A6/2334:2335		Single bulged A
homologous
IL_8GLP_085
IL_14190.4
IL_9Y49_0921/A6/2302:2309,
1/A6/2329:2333		Kink-turn
homologous
IL_8GLP_086
IL_90775.3
IL_9Y49_0931/A6/2312:2314,
1/A6/2325:2326		No text annotation
IL_9Y49_0941/A6/2358:2364,
1/A6/3858:3863		7x6 Sarcin-Ricin; G-bulge
homologous
IL_8GLP_300
IL_02666.3
IL_9Y49_0951/A6/2415:2419,
1/A6/2427:2429		No text annotation
homologous
IL_8GLP_301
IL_06671.3
IL_9Y49_0961/A6/2446:2450,
1/A6/2509:2514		UAA/GAN
homologous
IL_9PN5_062
IL_08938.3
IL_9Y49_1021/A6/2595:2597,
1/A6/2748:2750		Isolated non-canonical cWW pair
geometric
IL_8GLP_173
IL_01003.6
IL_9Y49_1031/A6/2613:2614,
1/A6/2724:2726		Single bulged C
homologous
IL_9PN5_068
IL_05642.5
IL_9Y49_1041/A6/2614:2615,
1/A6/2722:2724		Single stack bend
homologous
IL_8GLP_098
IL_15011.5
IL_9Y49_1061/A6/2651:2653,
1/A6/2681:2682		No text annotation
geometric
IL_9AXU_095
IL_57267.1
IL_9Y49_1091/A6/2832:2838,
1/A6/3850:3853		No text annotation
homologous
IL_9H3G_083
IL_89862.3
IL_9Y49_1101/A6/2844:2846,
1/A6/3842:3844		No text annotation
homologous
IL_9H3G_084
IL_10432.3
IL_9Y49_1111/A6/2847:2850,
1/A6/3840:3841		Major groove platform; stack outside cWW
geometric
IL_8GLP_304
IL_74641.4
IL_9Y49_1121/A6/2847:2855,
1/A6/3837:3841		No text annotation
geometric
IL_8GLP_305
IL_80252.3
IL_9Y49_1131/A6/2850:2855,
1/A6/3837:3840		No text annotation
homologous
IL_8GLP_107
IL_28217.3
IL_9Y49_1141/A6/2867:2872,
1/A6/2877:2883		No text annotation
homologous
IL_8GLP_108
IL_20700.3
IL_9Y49_1181/A6/3632:3633,
1/A6/3827:3829		Single bulged A
homologous
IL_9H3G_091
IL_14190.4
IL_9Y49_1191/A6/3660:3665,
1/A6/3677:3684		No text annotation
homologous
IL_9PN5_081
IL_14684.3
IL_9Y49_1201/A6/3700:3703,
1/A6/3749:3750		No text annotation
homologous
IL_8GLP_116
IL_55206.3
IL_9Y49_1211/A6/3704:3705,
1/A6/3745:3748		No text annotation
homologous
IL_9PN5_083
IL_71421.5
IL_9Y49_1221/A6/3708:3710,
1/A6/3741:3742		Single bulged U
homologous
IL_9H3G_095
IL_97561.7
IL_9Y49_1231/A6/3710:3714,
1/A6/3739:3741		No text annotation
geometric
IL_8OI5_066
IL_15698.7
IL_9Y49_1241/A6/3714:3721,
1/A6/3732:3739		No text annotation
homologous
IL_8GLP_121
NA
IL_9Y49_1251/A6/3780:3781,
1/A6/3811:3814		No text annotation
geometric
IL_8OI5_091
IL_24886.4
IL_9Y49_1261/A6/3781:3792,
1/A6/3808:3811		No text annotation
homologous
IL_9AXU_084
IL_84014.3
IL_9Y49_1271/A6/3895:3898,
1/A6/4563:4565		No text annotation
homologous
IL_9PN5_088
IL_75527.4
IL_9Y49_1281/A6/3900:3902,
1/A6/4558:4561		No text annotation
homologous
IL_8GLP_129
IL_80025.3
IL_9Y49_1291/A6/3913:3915,
1/A6/4388:4389		Single bulged U
homologous
IL_8GLP_130
IL_97561.7
IL_9Y49_1301/A6/3916:3917,
1/A6/4384:4387		Minor groove platform
homologous
IL_8GLP_131
IL_98469.1
IL_9Y49_1311/A6/3927:3929,
1/A6/4181:4184		No text annotation
homologous
IL_8GLP_133
IL_87316.4
IL_9Y49_1351/A6/4082:4088,
1/A6/4161:4164		No text annotation
homologous
IL_9H3G_109
IL_52092.3
IL_9Y49_1381/A6/4191:4192,
1/A6/4202:4204		AG tHS outside loop
homologous
IL_8GLP_137
IL_14190.4
IL_9Y49_1391/A6/4243:4245,
1/A6/4263:4267		No text annotation
homologous
IL_9PN5_095
IL_14250.3
IL_9Y49_1401/A6/4295:4298,
1/A6/4312:4315		Tandem non-canonical cWW pairs
homologous
IL_9AXU_094
IL_15225.4
IL_9Y49_1421/A6/4400:4403,
1/A6/4440:4444		No text annotation
homologous
IL_9PN5_098
IL_60246.1
IL_9Y49_1431/A6/4403:4405,
1/A6/4439:4440		No text annotation
homologous
IL_9H3G_118
IL_46637.4
IL_9Y49_1441/A6/4405:4407,
1/A6/4435:4439		No text annotation
homologous
IL_9PN5_100
IL_36931.4
IL_9Y49_1451/A6/4412:4416,
1/A6/4426:4430		No text annotation
homologous
IL_9PN5_101
IL_87767.4
IL_9Y49_1461/A6/4453:4454,
1/A6/4526:4528		No text annotation
homologous
IL_8GLP_146
IL_46637.4
IL_9Y49_1471/A6/4456:4458,
1/A6/4520:4524		No text annotation
homologous
IL_9PN5_103
IL_30722.1
IL_9Y49_1481/A6/4458:4459,
1/A6/4517:4520		No text annotation
homologous
IL_8GLP_148
IL_44609.4
IL_9Y49_1491/A6/4466:4468,
1/A6/4489:4491		Isolated non-canonical cWW pair
geometric
IL_8OI5_110
IL_01003.6
IL_9Y49_1501/A6/4466:4470,
1/A6/4485:4491		No text annotation
geometric
IL_8GLP_315
IL_56912.1
IL_9Y49_1511/A6/4468:4470,
1/A6/4485:4489		No text annotation
homologous
IL_8GLP_150
IL_09353.2
IL_9Y49_1521/A6/4495:4497,
1/A6/4503:4505		Isolated non-canonical cWW pair
homologous
IL_9H3G_125
IL_01003.6
IL_9Y49_1531/A6/4537:4538,
1/A6/4547:4549		Single bulged A
homologous
IL_8GLP_154
IL_14190.4
IL_9Y49_1541/A6/4580:4582,
1/A6/4721:4723		Isolated cWH basepair
homologous
IL_8GLP_157
IL_10892.4
IL_9Y49_1551/A6/4582:4585,
1/A6/4717:4721		Double sheared
homologous
IL_9PN5_110
IL_58355.4
IL_9Y49_1561/A6/4590:4592,
1/A6/4618:4620		Isolated non-canonical cWW pair
homologous
IL_9PN5_111
IL_71625.5
IL_9Y49_1571/A6/4596:4603,
1/A6/4608:4614		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_8GLP_159
IL_34443.1
IL_9Y49_1581/A6/4624:4629,
1/A6/4669:4673		No text annotation
homologous
IL_8GLP_317
IL_31690.1
IL_9Y49_1591/A6/4632:4637,
1/A6/4662:4666		No text annotation
homologous
IL_9AXU_111
IL_43276.1
IL_9Y49_1601/A6/4638:4640,
1/A6/4659:4661		Isolated cWH basepair
homologous
IL_8GLP_162
IL_10892.4
IL_9Y49_1611/A6/4641:4642,
1/A6/4655:4658		No text annotation
homologous
IL_9H3G_132
IL_44609.4
IL_9Y49_1621/A6/4681:4685,
1/A6/4705:4709		UAA/GAN
homologous
IL_9H3G_133
IL_08938.3
IL_9Y49_1651/A6/4754:4765,
1/A6/4869:4878		No text annotation
IL_9Y49_1701/A6/4972:4975,
1/A6/4983:4986		Tandem non-canonical cWW pairs
homologous
IL_9PN5_125
IL_71194.4
IL_9Y49_1731/A6/5000:5002,
1/A6/5045:5050		No text annotation
homologous
IL_9H3G_143
IL_00086.3
IL_9Y49_1811/A7/72:78,
1/A7/98:103		7x6 Sarcin-Ricin; G-bulge
homologous
IL_4V9F_106
IL_02666.3
IL_9Y49_1821/A7/79:81,
1/A7/95:97		Isolated non-canonical cWW pair
homologous
IL_7A0S_107
IL_01334.1
IL_9Y49_1831/A7/82:85,
1/A7/92:94		Isolated non-canonical cWW pair
geometric
IL_8QYX_171
IL_01003.6
IL_9Y49_1841/A8/64:66,
1/A8/92:95		No text annotation
homologous
IL_8GLP_187
IL_30722.1
IL_9Y49_1851/B2/23:25,
1/B2/649:651		Isolated non-canonical cWW pair
geometric
IL_4M4O_001
IL_01003.6
IL_9Y49_1861/B2/34:36,
1/B2/519:521		Isolated non-canonical cWW pair
homologous
IL_9PN5_143
IL_01003.6
IL_9Y49_1871/B2/37:40,
1/B2/514:518		Double sheared
geometric
IL_8GLP_190
IL_58355.4
IL_9Y49_1881/B2/41:47,
1/B2/479:481		No text annotation
homologous
IL_9PN5_145
IL_88082.4
IL_9Y49_1921/B2/108:116,
1/B2/347:353		No text annotation
IL_9Y49_2011/B2/359:364,
1/B2/396:403		Kink-turn with non-sequential stacking
homologous
IL_9PN5_159
IL_46174.6
IL_9Y49_2031/B2/411:413,
1/B2/424:429		No text annotation
homologous
IL_9PN5_161
IL_93336.3
IL_9Y49_2041/B2/437:439,
1/B2/454:456		Isolated cWH basepair
homologous
IL_9PN5_162
IL_10892.4
IL_9Y49_2061/B2/491:495,
1/B2/508:509		No text annotation
homologous
IL_9PN5_165
IL_26900.3
IL_9Y49_2071/B2/495:496,
1/B2/506:508		Single bulged G
homologous
IL_9H3G_180
IL_28408.4
IL_9Y49_2111/B2/599:608,
1/B2/635:637		No text annotation
IL_9Y49_2121/B2/611:617,
1/B2/624:632		Kink-turn related
homologous
IL_9PN5_173
IL_52042.3
IL_9Y49_2131/B2/663:665,
1/B2/1162:1164		Isolated non-canonical cWW pair
homologous
IL_9H3G_188
IL_01003.6
IL_9Y49_2141/B2/673:675,
1/B2/1030:1032		Isolated non-canonical cWW pair
homologous
IL_9H3G_190
IL_01003.6
IL_9Y49_2151/B2/676:680,
1/B2/1025:1029		No text annotation
homologous
IL_9H3G_191
IL_05821.3
IL_9Y49_2231/B2/807:815,
1/B2/849:856		No text annotation
homologous
IL_9H3G_194
IL_59049.4
IL_9Y49_2261/B2/922:923,
1/B2/1019:1022		Major groove platform; stack outside cWW
geometric
IL_3D0U_004
IL_74641.4
IL_9Y49_2281/B2/928:931,
1/B2/1010:1013		Tandem non-canonical cWW pairs
homologous
IL_9PN5_184
IL_15225.4
IL_9Y49_2291/B2/931:935,
1/B2/1007:1010		Tandem non-canonical cWW pairs
homologous
IL_9PN5_185
IL_15225.4
IL_9Y49_2301/B2/942:945,
1/B2/981:984		Tandem non-canonical cWW pairs
homologous
IL_9PN5_186
IL_15225.4
IL_9Y49_2311/B2/952:956,
1/B2/967:974		Kink-turn
homologous
IL_9H3G_202
IL_71972.2
IL_9Y49_2321/B2/1042:1047,
1/B2/1071:1073		No text annotation
homologous
IL_9H3G_203
IL_31690.1
IL_9Y49_2331/B2/1047:1051,
1/B2/1067:1071		No text annotation
homologous
IL_9H3G_204
IL_05821.3
IL_9Y49_2341/B2/1091:1093,
1/B2/1152:1158		No text annotation
homologous
IL_9H3G_205
IL_82706.4
IL_9Y49_2381/B2/1168:1175,
1/B2/1186:1191		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_9PN5_194
IL_84044.3
IL_9Y49_2391/B2/1203:1204,
1/B2/1694:1696		Single bulged A
homologous
IL_9PN5_195
IL_14190.4
IL_9Y49_2401/B2/1206:1208,
1/B2/1691:1692		Single bulged G
homologous
IL_9H3G_211
IL_28408.4
IL_9Y49_2491/B2/1329:1335,
1/B2/1492:1500		No text annotation
IL_9Y49_2501/B2/1333:1335,
1/B2/1492:1498		No text annotation
homologous
IL_9H3G_221
IL_09439.2
IL_9Y49_2511/B2/1337:1338,
1/B2/1488:1490		Single bulged A
homologous
IL_9H3G_222
IL_14190.4
IL_9Y49_2521/B2/1347:1349,
1/B2/1380:1382		Isolated cWH basepair
homologous
IL_9H3G_223
IL_10892.4
IL_9Y49_2531/B2/1363:1365,
1/B2/1374:1375		Minor groove platform
homologous
IL_9PN5_211
IL_41261.1
IL_9Y49_2661/B2/1700:1702,
1/B2/1833:1836		No text annotation
homologous
IL_9PN5_220
IL_18228.3
IL_9Y49_2671/B2/1702:1705,
1/B2/1829:1833		No text annotation
homologous
IL_9PN5_221
IL_25873.4
IL_9Y49_2681/B2/1706:1708,
1/B2/1826:1828		Isolated non-canonical cWW pair
homologous
IL_9H3G_235
IL_01003.6
IL_9Y49_2691/B2/1708:1711,
1/B2/1822:1826		No text annotation
homologous
IL_9PN5_223
IL_37443.2
IL_9Y49_2701/B2/1713:1716,
1/B2/1817:1820		Tandem non-canonical cWW pairs
geometric
IL_8B0X_103
IL_15225.4
IL_9Y49_2711/B2/1717:1720,
1/B2/1813:1816		Double sheared
homologous
IL_9PN5_225
IL_58355.4
IL_9Y49_2721/B2/1720:1722,
1/B2/1812:1813		Single bulged U
homologous
IL_9PN5_226
IL_97561.7
IL_9Y49_2741/B2/1733:1736,
1/B2/1798:1801		Double sheared
homologous
IL_9H3G_241
IL_58355.4
IL_9Y49_2751/B2/1739:1742,
1/B2/1792:1795		Tandem non-canonical cWW pairs
homologous
IL_9PN5_230
IL_71194.4

Problematic loops

#loop idProblemSequence
IL_9Y49_001Single bulged C
IL_9Y49_007No text annotation
IL_9Y49_010Isolated non-canonical cWW pair
IL_9Y49_011No text annotation
IL_9Y49_012Single stack bend
IL_9Y49_013No text annotation
IL_9Y49_021No text annotation
IL_9Y49_022Isolated non-canonical cWW pair
IL_9Y49_023No text annotation
IL_9Y49_024No text annotation
IL_9Y49_025No text annotation
IL_9Y49_026No text annotation
IL_9Y49_027No text annotation
IL_9Y49_028No text annotation
IL_9Y49_029No text annotation
IL_9Y49_030Major groove platform
IL_9Y49_031Single bulged A
IL_9Y49_032No text annotation
IL_9Y49_033Isolated non-canonical cWW contact
IL_9Y49_034Isolated non-canonical cWW pair
IL_9Y49_035Single stack bend
IL_9Y49_037No text annotation
IL_9Y49_038No text annotation
IL_9Y49_039Isolated non-canonical cWW pair
IL_9Y49_040No text annotation
IL_9Y49_041No text annotation
IL_9Y49_042No text annotation
IL_9Y49_043No text annotation
IL_9Y49_044Single stack bend
IL_9Y49_045No text annotation
IL_9Y49_046Single bulged C
IL_9Y49_047Single stack bend
IL_9Y49_048Single stack bend
IL_9Y49_049No text annotation
IL_9Y49_050Single stack bend
IL_9Y49_051Isolated non-canonical cWW pair
IL_9Y49_052No text annotation
IL_9Y49_056Double sheared
IL_9Y49_074No text annotation
IL_9Y49_075No text annotation
IL_9Y49_078No text annotation
IL_9Y49_086Kink-turn
IL_9Y49_087No text annotation
IL_9Y49_088Major groove platform with extra cWW
IL_9Y49_097Minor groove platform
IL_9Y49_098No text annotation
IL_9Y49_099Single stack bend
IL_9Y49_100Isolated non-canonical cWW pair
IL_9Y49_101No text annotation
IL_9Y49_105No text annotation
IL_9Y49_107No text annotation
IL_9Y49_108Single bulged G
IL_9Y49_115Isolated non-canonical cWW pair
IL_9Y49_116No text annotation
IL_9Y49_117No text annotation
IL_9Y49_132No text annotation
IL_9Y49_133No text annotation
IL_9Y49_134No text annotation
IL_9Y49_136No text annotation
IL_9Y49_137Isolated non-canonical cWW pair
IL_9Y49_141No text annotation
IL_9Y49_163Single stack bend
IL_9Y49_164Tandem non-canonical cWW pairs
IL_9Y49_166No text annotation
IL_9Y49_167Tandem non-canonical cWW pairs
IL_9Y49_168No text annotation
IL_9Y49_169No text annotation
IL_9Y49_171Isolated non-canonical cWW pair
IL_9Y49_172Single bulged C
IL_9Y49_174No text annotation
IL_9Y49_175Single bulged C
IL_9Y49_176Double sheared; A in syn
IL_9Y49_177Single bulged C
IL_9Y49_178No text annotation
IL_9Y49_179Major groove minor groove platform; mini C-loop
IL_9Y49_180Symmetric double minor groove platform
IL_9Y49_189Minor groove platform
IL_9Y49_190No text annotation
IL_9Y49_191No text annotation
IL_9Y49_193No text annotation
IL_9Y49_194No text annotation
IL_9Y49_195Isolated cWH basepair
IL_9Y49_196No text annotation
IL_9Y49_197No text annotation
IL_9Y49_198Single stack bend with SAM intercalation
IL_9Y49_199Single bulged A
IL_9Y49_200No text annotation
IL_9Y49_202No text annotation
IL_9Y49_205Isolated non-canonical cWW pair
IL_9Y49_208No text annotation
IL_9Y49_209No text annotation
IL_9Y49_210Double sheared
IL_9Y49_216Isolated non-canonical cWW pair
IL_9Y49_217Isolated non-canonical cWW pair
IL_9Y49_218Isolated non-canonical cWW pair
IL_9Y49_219No text annotation
IL_9Y49_220Minor groove platform
IL_9Y49_221No text annotation
IL_9Y49_222Isolated non-canonical cWW pair
IL_9Y49_224Single stack bend
IL_9Y49_225No text annotation
IL_9Y49_227Single bulged U
IL_9Y49_235Tandem non-canonical cWW pairs
IL_9Y49_236Isolated non-canonical cWW pair
IL_9Y49_237Single bulged U
IL_9Y49_241No text annotation
IL_9Y49_242Isolated non-canonical cWW pair
IL_9Y49_243Minor groove platform
IL_9Y49_244Isolated non-canonical cWW pair
IL_9Y49_245No text annotation
IL_9Y49_246No text annotation
IL_9Y49_247Single bulged U
IL_9Y49_248No text annotation
IL_9Y49_254No text annotation
IL_9Y49_255No text annotation
IL_9Y49_256Isolated non-canonical cWW pair
IL_9Y49_257No text annotation
IL_9Y49_258No text annotation
IL_9Y49_259No text annotation
IL_9Y49_260No text annotation
IL_9Y49_261Isolated non-canonical cWW pair
IL_9Y49_262No text annotation
IL_9Y49_263No text annotation
IL_9Y49_264Isolated non-canonical cWW pair
IL_9Y49_265No text annotation
IL_9Y49_273No text annotation
IL_9Y49_276Triple sheared
IL_9Y49_277No text annotation
IL_9Y49_278Single stack bend

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_9Y49_0011/A5/112:116,
1/A5/155:161,
1/A5/274:278		No text annotation
homologous
J3_8GLP_001
NA
J3_9Y49_0021/A5/351:367,
1/A5/374:379,
1/A8/21:24		No text annotation
homologous
J3_8GLP_024
J3_07616.3
J3_9Y49_0031/A5/380:387,
1/A5/414:415,
1/A8/19:20		No text annotation
geometric
J3_8GLP_025
J3_68715.3
J3_9Y49_0041/A5/380:390,
1/A5/401:415,
1/A8/19:20		No text annotation
homologous
J3_9PN5_006
J3_17917.3
J3_9Y49_0061/A5/711:713,
1/A5/955:973,
1/A5/1280:1285		No text annotation
J3_9Y49_0091/A5/1531:1537,
1/A5/1622:1624,
1/A5/1640:1643		No text annotation
homologous
J3_9H3G_012
J3_46658.3
J3_9Y49_0101/A5/1545:1548,
1/A5/1580:1584,
1/A5/1609:1614		No text annotation
J3_9Y49_0111/A5/1726:1727,
1/A5/1802:1806,
1/A5/1832:1836		No text annotation
homologous
J3_8GLP_029
NA
J3_9Y49_0131/A6/2393:2399,
1/A6/2805:2807,
1/A6/2819:2822		No text annotation
homologous
J3_9PN5_012
J3_05025.3
J3_9Y49_0141/A6/2402:2405,
1/A6/2785:2791,
1/A6/2800:2802		No text annotation
homologous
J3_8GLP_005
J3_76012.3
J3_9Y49_0151/A6/2440:2445,
1/A6/2515:2519,
1/A6/2536:2537		No text annotation
homologous
J3_9AXU_015
J3_94309.3
J3_9Y49_0161/A6/2451:2456,
1/A6/2465:2476,
1/A6/2501:2508		No text annotation
homologous
J3_8GLP_031
J3_53783.2
J3_9Y49_0191/A6/2598:2602,
1/A6/2737:2738,
1/A6/2742:2747		No text annotation
homologous
J3_9AXU_018
J3_08594.3
J3_9Y49_0201/A6/3937:3939,
1/A6/4074:4078,
1/A6/4168:4173		No text annotation
homologous
J3_8GLP_007
J3_17460.1
J3_9Y49_0221/A6/4228:4230,
1/A6/4331:4342,
1/A6/4370:4375		No text annotation
homologous
J3_8GLP_034
J3_04772.3
J3_9Y49_0231/A6/4241:4243,
1/A6/4267:4269,
1/A6/4278:4283		No text annotation
homologous
J3_9H3G_023
J3_05327.3
J3_9Y49_0241/A6/4463:4466,
1/A6/4491:4493,
1/A6/4507:4513		No text annotation
homologous
J3_9H3G_024
J3_44047.3
J3_9Y49_0251/A6/4748:4754,
1/A6/4878:4885,
1/A6/4934:4952		No text annotation
J3_9Y49_0281/A8/44:45,
1/A8/58:64,
1/A8/95:99		No text annotation
homologous
J3_8GLP_039
J3_01004.3
J3_9Y49_0291/B2/40:41,
1/B2/481:489,
1/B2/511:514		No text annotation
J3_9Y49_0311/B2/682:684,
1/B2/918:922,
1/B2/1022:1023		No text annotation
geometric
J3_9PN5_030
J3_01633.3
J3_9Y49_0321/B2/682:684,
1/B2/918:923,
1/B2/1019:1023		No text annotation
homologous
J3_9PN5_031
J3_17385.7
J3_9Y49_0331/B2/816:819,
1/B2/829:832,
1/B2/842:848		No text annotation
J3_9Y49_0341/B2/938:941,
1/B2/985:993,
1/B2/1000:1004		No text annotation
homologous
J3_9H3G_033
NA
J3_9Y49_0351/B2/1094:1096,
1/B2/1136:1140,
1/B2/1147:1151		No text annotation
homologous
J3_9H3G_034
NA
J3_9Y49_0361/B2/1218:1221,
1/B2/1645:1651,
1/B2/1673:1680		No text annotation
homologous
J3_9PN5_035
J3_85722.3
J3_9Y49_0381/B2/1237:1244,
1/B2/1255:1266,
1/B2/1516:1520		No text annotation
homologous
J3_9PN5_037
J3_88451.3
J3_9Y49_0401/B2/1339:1345,
1/B2/1384:1389,
1/B2/1481:1487		No text annotation
geometric
J3_8CRE_082
J3_04315.1
J3_9Y49_0411/B2/1350:1351,
1/B2/1360:1363,
1/B2/1375:1379		No text annotation
homologous
J3_9PN5_040
J3_76043.6
J4_9Y49_0011/A5/111:112,
1/A5/278:283,
1/A5/304:310,
1/A5/327:330		No text annotation
homologous
J4_8GLP_001
J4_94698.3
J4_9Y49_0021/A5/196:199,
1/A5/215:222,
1/A5/226:228,
1/A5/240:244		No text annotation
homologous
J4_8GLP_002
NA
J4_9Y49_0031/A6/2365:2371,
1/A6/2389:2391,
1/A6/2824:2829,
1/A6/3856:3857		No text annotation
homologous
J4_8GLP_004
NA
J4_9Y49_0041/A6/2406:2410,
1/A6/2434:2439,
1/A6/2538:2539,
1/A6/2777:2784		No text annotation
homologous
J4_9PN5_004
J4_17758.1
J4_9Y49_0051/A6/2618:2619,
1/A6/2637:2642,
1/A6/2692:2698,
1/A6/2718:2719		No text annotation
homologous
J4_8GLP_008
NA
J4_9Y49_0061/A6/3634:3638,
1/A6/3650:3654,
1/A6/3690:3694,
1/A6/3821:3826		No text annotation
homologous
J4_9AXU_007
J4_78485.3
J4_9Y49_0071/A6/3696:3698,
1/A6/3752:3753,
1/A6/3771:3780,
1/A6/3814:3819		No text annotation
homologous
J4_9H3G_008
J4_42306.3
J4_9Y49_0081/A6/4231:4235,
1/A6/4289:4293,
1/A6/4317:4319,
1/A6/4328:4330		No text annotation
homologous
J4_9PN5_008
J4_59590.3
J4_9Y49_0091/A6/4587:4590,
1/A6/4620:4621,
1/A6/4676:4678,
1/A6/4712:4715		No text annotation
homologous
J4_8GLP_013
J4_69783.1
J4_9Y49_0101/B2/98:106,
1/B2/355:357,
1/B2/405:409,
1/B2/431:432		No text annotation
homologous
J4_9H3G_013
J4_15241.4
J4_9Y49_0111/B2/665:673,
1/B2/1032:1037,
1/B2/1078:1089,
1/B2/1160:1162		No text annotation
J4_9Y49_0121/tR/7:10,
1/tR/26:28,
1/tR/44:50,
1/tR/66:67		tRNA junction
homologous
J4_1QU2_001
J4_95067.2
J5_9Y49_0011/A5/19:21,
1/A8/35:42,
1/A8/101:106,
1/A8/113:114,
1/A8/136:138		No text annotation
homologous
J5_8GLP_001
J5_27223.3
J5_9Y49_0021/A5/1335:1340,
1/A5/1516:1519,
1/A5/1658:1661,
1/A6/2288:2290,
1/A6/2345:2351		No text annotation
homologous
J5_9AXU_002
J5_08384.3
J5_9Y49_0031/A6/2855:2863,
1/A6/2887:2888,
1/A6/3613:3614,
1/A6/3618:3626,
1/A6/3835:3837		No text annotation
homologous
J5_8GLP_003
J5_99177.3
J5_9Y49_0041/A6/3903:3910,
1/A6/4392:4400,
1/A6/4444:4453,
1/A6/4528:4534,
1/A6/4552:4557		No text annotation
J5_9Y49_0051/A6/3920:3923,
1/A6/4188:4191,
1/A6/4204:4205,
1/A6/4227:4228,
1/A6/4375:4381		No text annotation
homologous
J5_9H3G_006
J5_96125.3
J5_9Y49_0071/B2/53:56,
1/B2/89:96,
1/B2/434:436,
1/B2/457:459,
1/B2/470:474		No text annotation
homologous
J5_9H3G_009
J5_58574.3
J5_9Y49_0101/B2/685:691,
1/B2/739:744,
1/B2/797:800,
1/B2/865:873,
1/B2/912:917		No text annotation
J6_9Y49_0011/A5/21:26,
1/A5/57:67,
1/A5/74:78,
1/A5/105:109,
1/A5/332:342,
1/A8/32:35		No text annotation
J6_9Y49_0021/A5/1352:1355,
1/A5/1384:1388,
1/A5/1395:1399,
1/A5/1418:1421,
1/A5/1464:1466,
1/A5/1499:1504		No text annotation
homologous
J6_8GLP_002
NA
J6_9Y49_0031/A6/3920:3923,
1/A6/4188:4191,
1/A6/4204:4205,
1/A6/4227:4230,
1/A6/4331:4342,
1/A6/4370:4381		No text annotation
J7_9Y49_0011/A5/1666:1671,
1/A5/1684:1685,
1/A5/1852:1855,
1/A5/1879:1884,
1/A5/1895:1899,
1/A5/2077:2078,
1/A6/2278:2283		No text annotation

Problematic loops

#loop idProblemSequence
J3_9Y49_005No text annotation
J3_9Y49_007No text annotation
J3_9Y49_008No text annotation
J3_9Y49_012No text annotation
J3_9Y49_017No text annotation
J3_9Y49_018No text annotation
J3_9Y49_021No text annotation
J3_9Y49_026No text annotation
J3_9Y49_027No text annotation
J3_9Y49_030No text annotation
J3_9Y49_037No text annotation
J3_9Y49_039No text annotation
J3_9Y49_042No text annotation
J3_9Y49_043No text annotation
J3_9Y49_044No text annotation
J5_9Y49_006No text annotation
J5_9Y49_008No text annotation
J5_9Y49_009No text annotation

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