RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8BPO_0011/A1/37:44No text annotation
homologous
HL_8C3A_001
NA
HL_8BPO_0021/A1/68:73No text annotation
homologous
HL_8C3A_002
NA
HL_8BPO_0031/A1/89:95No text annotation
homologous
HL_5TBW_003
NA
HL_8BPO_0841/A1/132:136No text annotation
HL_8BPO_0051/A1/204:211T-loop with 2 stacked bulged bases
homologous
HL_5TBW_005
NA
HL_8BPO_0061/A1/222:226No text annotation
homologous
HL_8C3A_006
NA
HL_8BPO_0071/A1/230:238T-loop with unstacked turn
homologous
HL_5TBW_007
NA
HL_8BPO_0081/A1/289:298No text annotation
homologous
HL_8C3A_008
NA
HL_8BPO_0091/A1/314:323Pseudoknot geometry
homologous
HL_8C3A_009
NA
HL_8BPO_0101/A1/368:373GNRA
homologous
HL_8C3A_010
NA
HL_8BPO_0111/A1/393:398GNRA
homologous
HL_8C3A_011
NA
HL_8BPO_0141/A1/962:970No text annotation
geometric
HL_5TBW_006
NA
HL_8BPO_0151/A1/1178:1183No text annotation
HL_8BPO_0161/A1/1317:1326T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_8BPO_0801/A1/1364:1373No text annotation
HL_8BPO_0181/A1/1389:1394GNRA
homologous
HL_8C3A_016
NA
HL_8BPO_0201/A1/1436:1448No text annotation
geometric
HL_2Y8W_001
HL_40612.1
HL_8BPO_0211/A1/1479:1486UNCG variation
geometric
HL_5J7L_200
NA
HL_8BPO_0221/A1/1561:1566GNRA
homologous
HL_8C3A_019
NA
HL_8BPO_0231/A1/1593:1602No text annotation
homologous
HL_8C3A_020
NA
HL_8BPO_0241/A1/1627:1635No text annotation
homologous
HL_8C3A_021
NA
HL_8BPO_0251/A1/1675:1680Externally structured
homologous
HL_8C3A_022
NA
HL_8BPO_0271/A1/1816:1823No text annotation
homologous
HL_5TBW_024
NA
HL_8BPO_0281/A1/1864:1870GNRA
homologous
HL_8C3A_025
NA
HL_8BPO_0291/A1/1886:1893No text annotation
homologous
HL_5TBW_026
NA
HL_8BPO_0321/A1/2317:2322GNRA
homologous
HL_8C3A_030
NA
HL_8BPO_0331/A1/2376:2384T-loop with 2 stacked bulged bases
homologous
HL_8C3A_031
NA
HL_8BPO_0341/A1/2420:2426Pseudoknot geometry with 3' bulge
homologous
HL_5TBW_032
NA
HL_8BPO_0351/A1/2458:2463GNRA variation
homologous
HL_8C3A_033
NA
HL_8BPO_0371/A1/2523:2532No text annotation
homologous
HL_5TBW_035
NA
HL_8BPO_0391/A1/2578:2583GNRA
homologous
HL_8C3A_036
NA
HL_8BPO_0401/A1/2624:2632No text annotation
homologous
HL_8C3A_037
NA
HL_8BPO_0411/A1/2664:2670No text annotation
homologous
HL_8C3A_038
NA
HL_8BPO_0421/A1/2705:2710No text annotation
geometric
HL_2Y9H_003
HL_75660.7
HL_8BPO_0431/A1/2738:2742No text annotation
homologous
HL_8C3A_040
NA
HL_8BPO_0441/A1/2792:2799No text annotation
homologous
HL_5TBW_041
NA
HL_8BPO_0451/A1/2810:2816GNRA
homologous
HL_5TBW_042
NA
HL_8BPO_0461/A1/2872:2877No text annotation
geometric
HL_7RQB_042
NA
HL_8BPO_0481/A1/3614:3618No text annotation
homologous
HL_8C3A_045
NA
HL_8BPO_0491/A1/3639:3649No text annotation
homologous
HL_8C3A_046
NA
HL_8BPO_0501/A1/3668:3674GNRA
homologous
HL_8C3A_047
NA
HL_8BPO_0511/A1/3724:3729GNRA
homologous
HL_5TBW_048
NA
HL_8BPO_0521/A1/3757:3767No text annotation
homologous
HL_5TBW_049
NA
HL_8BPO_0531/A1/3796:3804No text annotation
homologous
HL_8C3A_050
NA
HL_8BPO_0541/A1/3873:3882No text annotation
homologous
HL_8C3A_051
NA
HL_8BPO_0561/A1/4193:4201No text annotation
homologous
HL_8C3A_055
NA
HL_8BPO_0571/A1/4210:4222No text annotation
homologous
HL_8C3A_056
NA
HL_8BPO_0581/A1/4250:4258No text annotation
homologous
HL_8C3A_057
NA
HL_8BPO_0591/A1/4270:4277Pseudoknot geometry
homologous
HL_8C3A_058
NA
HL_8BPO_0601/A1/4301:4309No text annotation
homologous
HL_8C3A_059
NA
HL_8BPO_0611/A1/4321:4326GNRA
homologous
HL_8C3A_060
NA
HL_8BPO_0621/A1/4352:4362No text annotation
geometric
HL_2ZZM_002
HL_33487.1
HL_8BPO_0631/A1/4417:4425No text annotation
homologous
HL_8C3A_062
NA
HL_8BPO_0641/A1/4474:4481No text annotation
homologous
HL_5TBW_062
NA
HL_8BPO_0651/A1/4497:4503No text annotation
homologous
HL_8C3A_064
NA
HL_8BPO_0661/A1/4540:4545GNRA
homologous
HL_5TBW_064
NA
HL_8BPO_0671/A1/4603:4608GNRA
geometric
HL_5TBW_065
NA
HL_8BPO_0681/A1/4646:4651Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_8BPO_0691/A1/4688:4702No text annotation
homologous
HL_8C3A_068
NA
HL_8BPO_0711/A1/4906:4915No text annotation
geometric
HL_4WF9_011
HL_75660.7
HL_8BPO_0721/A1/4975:4983No text annotation
geometric
HL_5J7L_201
NA
HL_8BPO_0831/B1/32:45No text annotation
homologous
HL_8C3A_228
NA
HL_8BPO_0741/B1/36:41No text annotation
geometric
HL_5TBW_185
NA
HL_8BPO_0751/B1/86:91GNRA
homologous
HL_5TBW_186
NA
HL_8BPO_0761/C1/47:56No text annotation
geometric
HL_7RQB_001
NA
HL_8BPO_0781/C1/107:112No text annotation
homologous
HL_8P9A_188
HL_13184.2
HL_8BPO_0791/C1/121:129No text annotation

Problematic loops

#loop idProblemSequence
HL_8BPO_004No text annotation
HL_8BPO_012tRNA D-loop
HL_8BPO_013No text annotation
HL_8BPO_017No text annotation
HL_8BPO_019Externally structured
HL_8BPO_081No text annotation
HL_8BPO_026GNRA
HL_8BPO_030No text annotation
HL_8BPO_082GNRA wlth tandem sheared
HL_8BPO_031No text annotation
HL_8BPO_036No text annotation
HL_8BPO_038GNRA
HL_8BPO_047Externally structured
HL_8BPO_055Externally structured
HL_8BPO_070No text annotation
HL_8BPO_073Mini UNCG
HL_8BPO_077No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8BPO_0011/A1/6:7,
1/C1/149:151		Single bulged C
homologous
IL_8C3A_002
NA
IL_8BPO_0021/A1/12:14,
1/C1/143:144		Single bulged U
homologous
IL_8C3A_003
NA
IL_8BPO_0031/A1/16:18,
1/C1/139:141		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_01003.3
IL_8BPO_0041/A1/26:27,
1/A1/55:57		No text annotation
homologous
IL_8C3A_004
NA
IL_8BPO_0051/A1/30:37,
1/A1/44:52		9x8 Sarcin-Ricin; G-bulge
geometric
IL_4WF9_008
IL_93502.1
IL_8BPO_0061/A1/81:88,
1/A1/96:102		No text annotation
homologous
IL_8C3A_006
NA
IL_8BPO_0071/A1/118:121,
1/A1/152:153		Major groove intercalation
geometric
IL_1U9S_003
IL_71421.2
IL_8BPO_1761/A1/118:122,
1/A1/147:153		No text annotation
IL_8BPO_0081/A1/121:122,
1/A1/147:152		No text annotation
geometric
IL_5TBW_007
NA
IL_8BPO_0091/A1/125:126,
1/A1/142:144		Single bulged C
geometric
IL_1DQF_001
NA
IL_8BPO_0121/A1/168:173,
1/A1/263:267		No text annotation
IL_8BPO_0131/A1/180:189,
1/A1/252:256		No text annotation
geometric
IL_8CRE_101
NA
IL_8BPO_0141/A1/195:196,
1/A1/244:246		Single bulged C
geometric
IL_1DQF_001
NA
IL_8BPO_0151/A1/199:201,
1/A1/214:215		Single bulged U
homologous
IL_8C3A_013
NA
IL_8BPO_0161/A1/339:342,
1/C1/32:33		Minor groove platform, major groove intercalation
geometric
IL_1U9S_005
IL_55206.1
IL_8BPO_0171/A1/348:350,
1/C1/25:26		Single bulged A
homologous
IL_8C3A_014
NA
IL_8BPO_0181/A1/387:390,
1/A1/401:414		No text annotation
homologous
IL_5TBW_014
NA
IL_8BPO_0191/A1/415:421,
1/C1/13:19		Triple sheared with non-canonical cWW
homologous
IL_8C3A_016
NA
IL_8BPO_0201/A1/443:446,
1/A1/1300:1304		No text annotation
geometric
IL_4PHY_003
IL_49140.1
IL_8BPO_0211/A1/448:450,
1/A1/1297:1298		No text annotation
IL_8BPO_0221/A1/459:460,
1/A1/695:697		Single bulged C
geometric
IL_1S03_002
IL_05642.2
IL_8BPO_0231/A1/462:464,
1/A1/691:693		Isolated non-canonical cWW pair
geometric
IL_5TBW_127
NA
IL_8BPO_0241/A1/466:472,
1/A1/682:689		No text annotation
IL_8BPO_0251/A1/481:482,
1/A1/672:673		Single bulged C
geometric
IL_7KGA_004
IL_05642.2
IL_8BPO_0261/A1/482:485,
1/A1/671:672		Multiple bulged bases
geometric
IL_6JXM_001
IL_05670.1
IL_8BPO_0271/A1/487:488,
1/A1/665:669		Multiple bulged bases
geometric
IL_1R3E_002
IL_05670.1
IL_8BPO_0291/A1/491:493,
1/A1/661:662		No text annotation
IL_8BPO_0301/A1/497:499,
1/A1/656:657		Single bulged C
geometric
IL_3SNP_003
IL_05642.2
IL_8BPO_0311/A1/508:510,
1/A1/649:650		Single bulged A
geometric
IL_6WPI_001
IL_14190.2
IL_8BPO_0351/A1/709:710,
1/A1/1286:1288		Single bulged G
geometric
IL_4LFB_036
IL_28408.2
IL_8BPO_0361/A1/723:724,
1/A1/942:945		Multiple bulged bases
geometric
IL_7V9E_001
NA
IL_8BPO_0371/A1/727:731,
1/A1/938:939		No text annotation
IL_8BPO_0381/A1/732:735,
1/A1/928:937		No text annotation
IL_8BPO_0391/A1/737:739,
1/A1/923:926		No text annotation
geometric
IL_5J7L_341
NA
IL_8BPO_0401/A1/745:752,
1/A1/911:919		No text annotation
geometric
IL_5TBW_020
NA
IL_8BPO_0411/A1/1074:1076,
1/A1/1234:1236		Isolated non-canonical cWW pair
geometric
IL_4V88_467
NA
IL_8BPO_0421/A1/1077:1081,
1/A1/1218:1233		No text annotation
IL_8BPO_0431/A1/1082:1084,
1/A1/1213:1217		Isolated near basepair
geometric
IL_7A0S_030
IL_42997.5
IL_8BPO_0441/A1/1086:1087,
1/A1/1209:1211		No text annotation
IL_8BPO_0461/A1/1099:1169,
1/A1/1192:1196		No text annotation
IL_8BPO_0471/A1/1173:1175,
1/A1/1186:1188		Isolated cWH basepair
geometric
IL_3W3S_003
IL_10892.2
IL_8BPO_0481/A1/1357:1360,
1/A1/1379:1382		No text annotation
IL_8BPO_1781/A1/1357:1361,
1/A1/1376:1382		No text annotation
IL_8BPO_0491/A1/1360:1361,
1/A1/1376:1379		Major groove intercalation
geometric
IL_1U9S_003
IL_71421.2
IL_8BPO_0501/A1/1425:1429,
1/A1/1455:1460		Triple sheared related
geometric
IL_4V9F_018
IL_67427.1
IL_8BPO_0511/A1/1431:1434,
1/A1/1450:1453		Double sheared
geometric
IL_4LFB_060
IL_58355.2
IL_8BPO_0521/A1/1467:1468,
1/A1/1496:1498		Single bulged A
homologous
IL_8C3A_026
NA
IL_8BPO_0531/A1/1474:1476,
1/A1/1489:1490		Single stack bend
geometric
IL_7A0S_005
IL_15011.2
IL_8BPO_0541/A1/1520:1522,
1/A1/1655:1657		Isolated non-canonical cWW pair
geometric
IL_5TBW_027
NA
IL_8BPO_0551/A1/1522:1526,
1/A1/1648:1655		No text annotation
homologous
IL_8C3A_030
NA
IL_8BPO_0561/A1/1550:1551,
1/A1/1576:1578		Single bulged G
geometric
IL_4V9F_026
IL_28408.2
IL_8BPO_0571/A1/1551:1555,
1/A1/1572:1576		Triple sheared
homologous
IL_8C3A_033
NA
IL_8BPO_0581/A1/1586:1589,
1/A1/1605:1607		Major groove platform with extra cWW
homologous
IL_8C3A_034
NA
IL_8BPO_0591/A1/1590:1592,
1/A1/1603:1604		Single bulged U
homologous
IL_8C3A_035
NA
IL_8BPO_0601/A1/1624:1626,
1/A1/1636:1640		Multiple bulged bases
geometric
IL_5TBW_033
NA
IL_8BPO_0611/A1/1671:1673,
1/A1/1682:1684		Isolated non-canonical cWW pair
homologous
IL_8C3A_037
NA
IL_8BPO_0621/A1/1686:1688,
1/A1/1848:1851		No text annotation
IL_8BPO_0641/A1/1723:1725,
1/A1/1838:1839		Single bulged G
homologous
IL_8C3A_040
NA
IL_8BPO_0651/A1/1732:1737,
1/A1/1792:1797		5x5 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_7A0S_027
NA
IL_8BPO_0661/A1/1737:1738,
1/A1/1790:1792		Minor groove platform
geometric
IL_6DLR_003
IL_34520.3
IL_8BPO_0671/A1/1739:1744,
1/A1/1786:1789		C-loop with bulged stacked A's
homologous
IL_8C3A_043
NA
IL_8BPO_1871/A1/1746:1749,
1/A1/1781:1784		Tandem non-canonical cWW pairs
homologous
IL_8CRE_044
NA
IL_8BPO_0691/A1/1749:1751,
1/A1/1779:1781		Isolated non-canonical cWW pair
geometric
IL_5TBW_042
NA
IL_8BPO_0701/A1/1753:1756,
1/A1/1776:1777		No text annotation
IL_8BPO_0731/A1/1814:1816,
1/A1/1823:1824		Single bulged G
geometric
IL_4V88_442
NA
IL_8BPO_0741/A1/1858:1860,
1/A1/1874:1876		Isolated non-canonical cWW pair
homologous
IL_5TBW_046
NA
IL_8BPO_0761/A1/1905:1909,
1/A1/2067:2071		UAA/GAN
homologous
IL_8C3A_051
NA
IL_8BPO_0771/A1/1911:1918,
1/A1/2064:2065		SSU/LSU pseudoknot
geometric
IL_7RQB_037
NA
IL_8BPO_0781/A1/1918:1920,
1/A1/2063:2064		Single bulged G
geometric
IL_7D7V_002
IL_28408.2
IL_8BPO_0791/A1/1920:1922,
1/A1/2062:2063		No text annotation
IL_8BPO_0801/A1/1926:1933,
1/A1/2053:2058		No text annotation
homologous
IL_8C3A_054
NA
IL_8BPO_0811/A1/1933:1944,
1/A1/2038:2053		No text annotation
geometric
IL_5TBW_052
NA
IL_8BPO_0821/A1/1946:1948,
1/A1/2035:2036		Single bulged U
homologous
IL_5TBW_053
NA
IL_8BPO_0831/A1/1957:1967,
1/A1/2020:2026		No text annotation
IL_8BPO_1791/A1/1957:2006,
1/A1/2013:2026		No text annotation
IL_8BPO_0841/A1/1967:1972,
1/A1/1994:2020		No text annotation
IL_8BPO_0851/A1/2083:2085,
1/A1/2272:2273		Single bulged U
geometric
IL_6CZR_156
NA
IL_8BPO_0861/A1/2290:2292,
1/A1/2342:2345		No text annotation
homologous
IL_8C3A_061
NA
IL_8BPO_0871/A1/2299:2301,
1/A1/2334:2335		Single bulged A
homologous
IL_8C3A_062
NA
IL_8BPO_0881/A1/2302:2309,
1/A1/2329:2333		Kink-turn
homologous
IL_8C3A_063
NA
IL_8BPO_0891/A1/2312:2314,
1/A1/2325:2326		Single bulged A
homologous
IL_5TBW_060
NA
IL_8BPO_0901/A1/2358:2364,
1/A1/3858:3863		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_061
NA
IL_8BPO_0911/A1/2415:2419,
1/A1/2427:2429		C-loop
geometric
IL_7A0S_047
IL_06671.1
IL_8BPO_0921/A1/2446:2450,
1/A1/2509:2514		UAA/GAN
homologous
IL_8C3A_067
NA
IL_8BPO_0931/A1/2477:2479,
1/A1/2499:2500		Single stack bend
geometric
IL_5J7L_032
NA
IL_8BPO_0951/A1/2542:2547,
1/A1/2772:2774		Isolated non-canonical cWW pair
geometric
IL_4RUM_001
IL_76400.1
IL_8BPO_0961/A1/2549:2550,
1/A1/2768:2770		Single bulged U
geometric
IL_6JQ5_003
IL_97561.3
IL_8BPO_0971/A1/2589:2593,
1/A1/2752:2756		Triple sheared
homologous
IL_5TBW_067
NA
IL_8BPO_0981/A1/2613:2614,
1/A1/2724:2726		Single bulged A
geometric
IL_7A0S_012
IL_14190.2
IL_8BPO_0991/A1/2614:2615,
1/A1/2722:2724		Single stack bend
homologous
IL_8C3A_076
NA
IL_8BPO_1001/A1/2646:2648,
1/A1/2685:2688		Isolated tHS basepair with bulges
geometric
IL_4V9F_076
IL_87316.2
IL_8BPO_1011/A1/2651:2653,
1/A1/2681:2682		Single bulged G
geometric
IL_2IZN_001
IL_28408.2
IL_8BPO_1021/A1/2656:2662,
1/A1/2672:2678		Kink-turn
homologous
IL_5TBW_073
NA
IL_8BPO_1031/A1/2704:2705,
1/A1/2710:2712		No text annotation
IL_8BPO_1041/A1/2832:2838,
1/A1/3850:3853		No text annotation
homologous
IL_8C3A_080
NA
IL_8BPO_1051/A1/2844:2846,
1/A1/3842:3844		No text annotation
homologous
IL_8C3A_081
NA
IL_8BPO_1061/A1/2847:2850,
1/A1/3840:3841		Major groove platform; stack outside cWW
homologous
IL_8C3A_082
NA
IL_8BPO_1801/A1/2847:2855,
1/A1/3837:3841		No text annotation
homologous
IL_8C3A_484
NA
IL_8BPO_1071/A1/2850:2855,
1/A1/3837:3840		No text annotation
homologous
IL_8C3A_083
NA
IL_8BPO_1081/A1/2867:2872,
1/A1/2877:2883		No text annotation
homologous
IL_8C3A_084
NA
IL_8BPO_1091/A1/2889:2891,
1/A1/3610:3612		Isolated non-canonical cWW pair
homologous
IL_8C3A_085
NA
IL_8BPO_1101/A1/2896:2897,
1/A1/3602:3605		No text annotation
homologous
IL_8C3A_086
NA
IL_8BPO_1111/A1/3632:3633,
1/A1/3827:3829		Single bulged A
homologous
IL_5TBW_082
NA
IL_8BPO_1121/A1/3660:3665,
1/A1/3677:3684		No text annotation
homologous
IL_8C3A_088
NA
IL_8BPO_1131/A1/3700:3703,
1/A1/3749:3750		No text annotation
homologous
IL_8C3A_089
NA
IL_8BPO_1141/A1/3704:3705,
1/A1/3745:3748		Multiple bulged bases
homologous
IL_8C3A_090
NA
IL_8BPO_1151/A1/3708:3710,
1/A1/3741:3742		Single stack bend
homologous
IL_8C3A_091
NA
IL_8BPO_1811/A1/3708:3714,
1/A1/3739:3742		No text annotation
IL_8BPO_1161/A1/3710:3714,
1/A1/3739:3741		No text annotation
homologous
IL_8C3A_092
NA
IL_8BPO_1171/A1/3715:3721,
1/A1/3732:3738		No text annotation
homologous
IL_8C3A_093
NA
IL_8BPO_1181/A1/3780:3781,
1/A1/3811:3814		No text annotation
homologous
IL_8C3A_094
NA
IL_8BPO_1191/A1/3781:3792,
1/A1/3808:3811		No text annotation
geometric
IL_5TBW_090
NA
IL_8BPO_1201/A1/3895:3898,
1/A1/4563:4565		No text annotation
homologous
IL_8C3A_096
NA
IL_8BPO_1211/A1/3900:3902,
1/A1/4558:4561		No text annotation
homologous
IL_8C3A_097
NA
IL_8BPO_1221/A1/3913:3915,
1/A1/4388:4389		Single bulged U
homologous
IL_5TBW_093
NA
IL_8BPO_1231/A1/3916:3917,
1/A1/4384:4387		Minor groove platform
homologous
IL_5TBW_094
NA
IL_8BPO_1241/A1/3927:3929,
1/A1/4181:4184		No text annotation
homologous
IL_8C3A_100
NA
IL_8BPO_1271/A1/4082:4088,
1/A1/4161:4164		No text annotation
homologous
IL_8C3A_106
NA
IL_8BPO_1301/A1/4191:4192,
1/A1/4202:4204		Single bulged A
homologous
IL_8C3A_107
NA
IL_8BPO_1311/A1/4243:4245,
1/A1/4263:4267		Isolated tHS basepair with bulges
geometric
IL_5TBW_099
NA
IL_8BPO_1321/A1/4291:4293,
1/A1/4317:4318		Single bulged A
geometric
IL_5WWT_001
IL_14190.2
IL_8BPO_1331/A1/4295:4298,
1/A1/4312:4315		Tandem non-canonical cWW pairs
homologous
IL_5TBW_100
NA
IL_8BPO_1341/A1/4347:4350,
1/A1/4364:4365		Single stack bend
geometric
IL_5J7L_032
NA
IL_8BPO_1351/A1/4400:4403,
1/A1/4440:4444		No text annotation
homologous
IL_8C3A_111
NA
IL_8BPO_1361/A1/4403:4405,
1/A1/4439:4440		Major groove platform
homologous
IL_5TBW_104
NA
IL_8BPO_1371/A1/4405:4407,
1/A1/4435:4439		Major groove minor groove platform with extra cWW
geometric
IL_5TBW_105
NA
IL_8BPO_1381/A1/4412:4416,
1/A1/4426:4430		No text annotation
homologous
IL_8C3A_114
NA
IL_8BPO_1391/A1/4453:4454,
1/A1/4526:4528		Major groove platform
homologous
IL_5TBW_107
NA
IL_8BPO_1401/A1/4456:4458,
1/A1/4520:4524		Isolated non-canonical cWW with bulges
geometric
IL_5TBW_108
NA
IL_8BPO_1411/A1/4458:4459,
1/A1/4517:4520		No text annotation
homologous
IL_8C3A_117
NA
IL_8BPO_1421/A1/4466:4468,
1/A1/4489:4491		No text annotation
geometric
IL_4KR9_001
NA
IL_8BPO_1821/A1/4466:4470,
1/A1/4485:4491		No text annotation
IL_8BPO_1431/A1/4468:4470,
1/A1/4485:4489		No text annotation
IL_8BPO_1441/A1/4495:4497,
1/A1/4503:4505		Isolated non-canonical cWW pair
geometric
IL_5TBW_112
NA
IL_8BPO_1451/A1/4537:4538,
1/A1/4547:4549		Single bulged A
geometric
IL_7RQB_101
NA
IL_8BPO_1461/A1/4580:4582,
1/A1/4721:4723		No text annotation
geometric
IL_3ICQ_003
NA
IL_8BPO_1471/A1/4582:4585,
1/A1/4717:4721		Double sheared
homologous
IL_8C3A_123
NA
IL_8BPO_1481/A1/4590:4592,
1/A1/4618:4620		Isolated non-canonical cWW pair
homologous
IL_8C3A_124
NA
IL_8BPO_1491/A1/4596:4603,
1/A1/4608:4614		8x7 Sarcin-Ricin; G-bulge
homologous
IL_8C3A_125
NA
IL_8BPO_1501/A1/4624:4629,
1/A1/4669:4673		No text annotation
IL_8BPO_1511/A1/4632:4637,
1/A1/4662:4666		UAA/GAN related
homologous
IL_5TBW_118
NA
IL_8BPO_1521/A1/4638:4640,
1/A1/4659:4661		Isolated cWH basepair
geometric
IL_3R1C_012
IL_10892.2
IL_8BPO_1531/A1/4641:4642,
1/A1/4655:4658		Multiple bulged bases
homologous
IL_5TBW_119
NA
IL_8BPO_1541/A1/4680:4685,
1/A1/4705:4710		UAA/GAN with extra cWW
geometric
IL_5J7L_350
NA
IL_8BPO_1551/A1/4739:4746,
1/A1/4954:4960		No text annotation
IL_8BPO_1561/A1/4756:4766,
1/A1/4868:4877		No text annotation
homologous
IL_8P9A_352
IL_28855.1
IL_8BPO_1571/A1/4769:4773,
1/A1/4862:4865		No text annotation
geometric
IL_2O3Y_003
IL_34618.2
IL_8BPO_1581/A1/4885:4888,
1/A1/4931:4934		Tandem non-canonical cWW pairs
geometric
IL_4K27_002
IL_71194.2
IL_8BPO_1591/A1/4890:4896,
1/A1/4924:4929		No text annotation
IL_8BPO_1621/A1/4972:4975,
1/A1/4983:4986		Tandem non-canonical cWW pairs
geometric
IL_5TBW_129
NA
IL_8BPO_1631/A1/4992:4994,
1/A1/5057:5059		Isolated non-canonical cWW pair
geometric
IL_3IVK_002
IL_01003.3
IL_8BPO_1641/A1/4996:4997,
1/A1/5053:5055		Single bulged C
geometric
IL_1KUQ_002
IL_05642.2
IL_8BPO_1651/A1/5000:5002,
1/A1/5045:5050		Isolated non-canonical cWW pair
homologous
IL_5TBW_132
NA
IL_8BPO_1661/A1/5003:5009,
1/A1/5039:5044		No text annotation
IL_8BPO_1841/A1/5012:5014,
1/A1/5035:5036		Single bulged U
homologous
IL_8C3A_140
NA
IL_8BPO_1851/A1/5014:5017,
1/A1/5032:5035		Double sheared; A in syn
homologous
IL_8C3A_141
NA
IL_8BPO_1681/B1/15:16,
1/B1/62:64		Single bulged A
homologous
IL_5TBW_372
NA
IL_8BPO_1691/B1/21:27,
1/B1/52:57		Minor groove platform related
homologous
IL_5TBW_373
NA
IL_8BPO_1701/B1/28:29,
1/B1/48:51		Major groove minor groove platform; mini C-loop
homologous
IL_7RQB_113
NA
IL_8BPO_1711/B1/32:36,
1/B1/41:45		Symmetric double minor groove platform
homologous
IL_7RQB_114
NA
IL_8BPO_1721/B1/71:78,
1/B1/98:104		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_377
NA
IL_8BPO_1731/B1/79:81,
1/B1/95:97		Isolated non-canonical cWW pair
geometric
IL_4V88_470
NA
IL_8BPO_1741/B1/82:85,
1/B1/92:94		Isolated non-canonical cWW pair
homologous
IL_5TBW_378
NA
IL_8BPO_1751/C1/64:66,
1/C1/92:95		Isolated non-canonical cWW pair
homologous
IL_5TBW_145
NA

Problematic loops

#loop idProblemSequence
IL_8BPO_010Isolated non-canonical cWW pair
IL_8BPO_011Tandem non-canonical cWW pairs
IL_8BPO_028Isolated non-canonical cWW pair
IL_8BPO_032Isolated non-canonical cWW with bulges
IL_8BPO_033Isolated non-canonical cWW pair
IL_8BPO_034Tandem non-canonical cWW pairs
IL_8BPO_045No text annotation
IL_8BPO_186No text annotation
IL_8BPO_177No text annotation
IL_8BPO_063No text annotation
IL_8BPO_068No text annotation
IL_8BPO_071Tandem non-canonical cWW pairs
IL_8BPO_072Tandem non-canonical cWW pairs
IL_8BPO_075No text annotation
IL_8BPO_094Isolated non-canonical cWW pair
IL_8BPO_125Isolated non-canonical cWW pair
IL_8BPO_126Tandem non-canonical cWW pairs
IL_8BPO_128No text annotation
IL_8BPO_188No text annotation
IL_8BPO_129Isolated non-canonical cWW pair
IL_8BPO_183No text annotation
IL_8BPO_160Isolated non-canonical cWW pair
IL_8BPO_161No text annotation
IL_8BPO_167No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8BPO_0011/A1/112:116,
1/A1/155:160,
1/A1/275:278		No text annotation
J3_8BPO_0131/A1/196:199,
1/A1/215:228,
1/A1/240:244		No text annotation
J3_8BPO_0141/A1/351:367,
1/A1/374:379,
1/C1/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_8BPO_0151/A1/380:387,
1/A1/414:415,
1/C1/19:20		No text annotation
geometric
J3_5J7L_036
NA
J3_8BPO_0161/A1/380:390,
1/A1/401:415,
1/C1/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_8BPO_0171/A1/451:455,
1/A1/701:705,
1/A1/1292:1296		No text annotation
J3_8BPO_0021/A1/980:984,
1/A1/1070:1074,
1/A1/1236:1275		No text annotation
J3_8BPO_0031/A1/1531:1537,
1/A1/1622:1624,
1/A1/1640:1643		No text annotation
homologous
J3_8C3A_003
NA
J3_8BPO_0041/A1/1545:1548,
1/A1/1580:1584,
1/A1/1609:1614		No text annotation
homologous
J3_5TBW_005
NA
J3_8BPO_0181/A1/1726:1727,
1/A1/1802:1806,
1/A1/1832:1837		No text annotation
homologous
J3_8P9A_051
J3_84137.1
J3_8BPO_0191/A1/1957:1972,
1/A1/1994:2006,
1/A1/2013:2026		No text annotation
J3_8BPO_0051/A1/2393:2399,
1/A1/2805:2807,
1/A1/2819:2822		No text annotation
homologous
J3_8C3A_006
NA
J3_8BPO_0061/A1/2402:2405,
1/A1/2785:2791,
1/A1/2800:2802		No text annotation
homologous
J3_8C3A_007
NA
J3_8BPO_0201/A1/2440:2445,
1/A1/2515:2519,
1/A1/2536:2537		No text annotation
homologous
J3_8P9A_055
J3_94309.1
J3_8BPO_0211/A1/2451:2456,
1/A1/2465:2476,
1/A1/2501:2508		No text annotation
J3_8BPO_0071/A1/2551:2555,
1/A1/2572:2575,
1/A1/2757:2767		No text annotation
J3_8BPO_0221/A1/2575:2576,
1/A1/2585:2589,
1/A1/2756:2757		No text annotation
homologous
J3_8C3A_054
NA
J3_8BPO_0231/A1/2598:2602,
1/A1/2737:2738,
1/A1/2742:2747		No text annotation
homologous
J3_8P9A_058
J3_08594.1
J3_8BPO_0081/A1/3937:3939,
1/A1/4074:4078,
1/A1/4168:4173		No text annotation
J3_8BPO_0091/A1/4091:4094,
1/A1/4114:4129,
1/A1/4155:4158		No text annotation
homologous
J3_8C3A_009
NA
J3_8BPO_0241/A1/4228:4230,
1/A1/4331:4342,
1/A1/4370:4375		No text annotation
homologous
J3_8C3A_056
NA
J3_8BPO_0101/A1/4241:4243,
1/A1/4267:4269,
1/A1/4278:4283		No text annotation
homologous
J3_8C3A_010
NA
J3_8BPO_0111/A1/4463:4466,
1/A1/4491:4493,
1/A1/4507:4513		No text annotation
homologous
J3_5TBW_014
NA
J3_8BPO_0251/A1/4749:4754,
1/A1/4879:4883,
1/A1/4936:4951		No text annotation
J3_8BPO_0121/A1/4970:4972,
1/A1/4986:4991,
1/A1/5060:5063		No text annotation
J3_8BPO_0261/B1/9:14,
1/B1/65:66,
1/B1/109:110		No text annotation
homologous
J3_8P9A_066
J3_26985.1
J3_8BPO_0271/C1/44:45,
1/C1/58:64,
1/C1/95:99		No text annotation
homologous
J3_8C3A_060
NA
J4_8BPO_0011/A1/111:112,
1/A1/278:283,
1/A1/304:310,
1/A1/327:330		No text annotation
homologous
J4_8P9A_012
J4_94698.1
J4_8BPO_0021/A1/196:199,
1/A1/215:222,
1/A1/226:228,
1/A1/240:244		No text annotation
J4_8BPO_0031/A1/2365:2371,
1/A1/2389:2391,
1/A1/2824:2829,
1/A1/3856:3857		No text annotation
J4_8BPO_0041/A1/2406:2410,
1/A1/2434:2439,
1/A1/2538:2539,
1/A1/2777:2784		No text annotation
homologous
J4_8C3A_004
NA
J4_8BPO_0051/A1/2618:2619,
1/A1/2637:2642,
1/A1/2692:2698,
1/A1/2718:2719		No text annotation
J4_8BPO_0061/A1/3634:3638,
1/A1/3650:3654,
1/A1/3690:3694,
1/A1/3821:3826		No text annotation
homologous
J4_8P9A_017
J4_78485.1
J4_8BPO_0071/A1/3696:3698,
1/A1/3752:3753,
1/A1/3771:3780,
1/A1/3814:3819		No text annotation
homologous
J4_8C3A_007
NA
J4_8BPO_0081/A1/4231:4235,
1/A1/4289:4291,
1/A1/4318:4319,
1/A1/4328:4330		No text annotation
J4_8BPO_0091/A1/4231:4235,
1/A1/4289:4293,
1/A1/4317:4319,
1/A1/4328:4330		No text annotation
homologous
J4_8C3A_008
NA
J4_8BPO_0101/A1/4587:4590,
1/A1/4620:4621,
1/A1/4676:4678,
1/A1/4712:4715		No text annotation
J5_8BPO_0011/A1/19:21,
1/C1/35:42,
1/C1/101:106,
1/C1/113:114,
1/C1/136:138		No text annotation
homologous
J5_8P9A_010
J5_27223.1
J5_8BPO_0021/A1/712:713,
1/A1/955:961,
1/A1/971:984,
1/A1/1070:1074,
1/A1/1236:1284		No text annotation
J5_8BPO_0031/A1/1335:1340,
1/A1/1516:1519,
1/A1/1658:1661,
1/A1/2288:2290,
1/A1/2345:2351		No text annotation
homologous
J5_8C3A_002
NA
J5_8BPO_0041/A1/2855:2863,
1/A1/2887:2888,
1/A1/3613:3614,
1/A1/3618:3626,
1/A1/3835:3837		No text annotation
homologous
J5_8C3A_004
NA
J5_8BPO_0051/A1/3903:3910,
1/A1/4392:4400,
1/A1/4444:4453,
1/A1/4528:4534,
1/A1/4552:4557		No text annotation
J5_8BPO_0061/A1/3920:3923,
1/A1/4188:4191,
1/A1/4204:4205,
1/A1/4227:4228,
1/A1/4375:4381		No text annotation
homologous
J5_8C3A_006
NA
J6_8BPO_0011/A1/21:26,
1/A1/57:67,
1/A1/74:78,
1/A1/105:109,
1/A1/332:339,
1/C1/33:35		No text annotation
J6_8BPO_0021/A1/1352:1355,
1/A1/1384:1388,
1/A1/1395:1399,
1/A1/1418:1421,
1/A1/1464:1466,
1/A1/1499:1504		No text annotation
J6_8BPO_0031/A1/3920:3923,
1/A1/4188:4191,
1/A1/4204:4205,
1/A1/4227:4230,
1/A1/4331:4342,
1/A1/4370:4381		No text annotation
J7_8BPO_0011/A1/1666:1671,
1/A1/1684:1685,
1/A1/1852:1855,
1/A1/1879:1884,
1/A1/1895:1899,
1/A1/2077:2078,
1/A1/2278:2283		No text annotation

Problematic loops

No problematic loops


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