RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8BRM_0011/LD/48:57No text annotation
geometric
HL_7RQB_001
NA
HL_8BRM_0021/LD/74:81No text annotation
geometric
HL_2ZNI_001
HL_75660.6
HL_8BRM_0031/LD/108:112No text annotation
geometric
HL_2Y9H_003
HL_75660.6
HL_8BRM_0041/LD/115:120No text annotation
geometric
HL_2ZNI_001
HL_75660.6
HL_8BRM_1051/LE/32:46No text annotation
homologous
HL_8P9A_183
HL_01182.1
HL_8BRM_0051/LE/36:42No text annotation
homologous
HL_7RQB_070
NA
HL_8BRM_0061/LE/87:92GNRA
homologous
HL_5TBW_186
NA
HL_8BRM_0071/Lt/37:44No text annotation
homologous
HL_8C3A_001
NA
HL_8BRM_0081/Lt/68:73No text annotation
homologous
HL_8C3A_002
NA
HL_8BRM_0091/Lt/88:94No text annotation
homologous
HL_8C3A_003
NA
HL_8BRM_0101/Lt/120:124No text annotation
homologous
HL_8C3A_004
NA
HL_8BRM_0111/Lt/161:168T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_8BRM_0121/Lt/175:179No text annotation
homologous
HL_8C3A_006
NA
HL_8BRM_0131/Lt/183:191T-loop with unstacked turn
homologous
HL_5TBW_007
NA
HL_8BRM_0141/Lt/232:241T-loop related
homologous
HL_8P9A_120
HL_63894.1
HL_8BRM_0151/Lt/255:264Pseudoknot geometry
homologous
HL_5TBW_009
NA
HL_8BRM_0161/Lt/309:314GNRA
homologous
HL_8C3A_010
NA
HL_8BRM_0171/Lt/334:339GNRA
homologous
HL_5TBW_011
NA
HL_8BRM_0181/Lt/375:378No text annotation
geometric
HL_6U8D_003
HL_32346.5
HL_8BRM_0191/Lt/388:397T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_8BRM_0201/Lt/434:439No text annotation
HL_8BRM_0211/Lt/451:456GNRA
homologous
HL_8C3A_016
NA
HL_8BRM_0221/Lt/462:469No text annotation
geometric
HL_4LFB_002
HL_46665.1
HL_8BRM_0231/Lt/482:487Externally structured
geometric
HL_5TBW_022
NA
HL_8BRM_0241/Lt/561:566GNRA
homologous
HL_5TBW_019
NA
HL_8BRM_0251/Lt/593:602No text annotation
homologous
HL_5TBW_020
NA
HL_8BRM_0261/Lt/627:635No text annotation
homologous
HL_8C3A_021
NA
HL_8BRM_0271/Lt/675:680Externally structured
homologous
HL_5TBW_022
NA
HL_8BRM_0291/Lt/788:795No text annotation
homologous
HL_5TBW_024
NA
HL_8BRM_0301/Lt/835:843tRNA anticodon loop
geometric
HL_3RG5_006
HL_45359.1
HL_8BRM_0311/Lt/858:865No text annotation
homologous
HL_8C3A_026
NA
HL_8BRM_0331/Lt/1043:1048No text annotation
geometric
HL_7RQB_042
NA
HL_8BRM_0341/Lt/1091:1096GNRA
homologous
HL_8C3A_030
NA
HL_8BRM_0351/Lt/1149:1155No text annotation
geometric
HL_7RQB_004
NA
HL_8BRM_0361/Lt/1189:1197No text annotation
geometric
HL_7A0S_041
NA
HL_8BRM_0371/Lt/1228:1233GNRA variation
homologous
HL_8C3A_033
NA
HL_8BRM_0381/Lt/1245:1248Mini UNCG
geometric
HL_7A0S_039
HL_90436.1
HL_8BRM_0391/Lt/1272:1281No text annotation
homologous
HL_8C3A_035
NA
HL_8BRM_0401/Lt/1301:1306GNRA
homologous
HL_5TBW_036
NA
HL_8BRM_0411/Lt/1345:1355No text annotation
geometric
HL_5ID6_001
HL_69752.3
HL_8BRM_0421/Lt/1384:1390No text annotation
homologous
HL_8C3A_038
NA
HL_8BRM_0431/Lt/1435:1439No text annotation
homologous
HL_8C3A_040
NA
HL_8BRM_0441/Lt/1476:1483No text annotation
homologous
HL_8C3A_041
NA
HL_8BRM_0451/Lt/1494:1500GNRA
homologous
HL_8C3A_042
NA
HL_8BRM_0461/Lt/1555:1560No text annotation
geometric
HL_7RQB_042
NA
HL_8BRM_0481/Lt/1599:1603No text annotation
geometric
HL_7RQB_009
NA
HL_8BRM_0491/Lt/1624:1634No text annotation
homologous
HL_5TBW_046
NA
HL_8BRM_0501/Lt/1652:1659No text annotation
geometric
HL_6D12_001
NA
HL_8BRM_0511/Lt/1708:1713GNRA
geometric
HL_4V88_210
NA
HL_8BRM_0521/Lt/1741:1751No text annotation
homologous
HL_5TBW_049
NA
HL_8BRM_0531/Lt/1780:1788No text annotation
homologous
HL_8C3A_050
NA
HL_8BRM_0541/Lt/1857:1866No text annotation
homologous
HL_8C3A_051
NA
HL_8BRM_0561/Lt/2005:2012tRNA D-loop
geometric
HL_3AKZ_010
HL_65478.1
HL_8BRM_0571/Lt/2040:2048No text annotation
homologous
HL_8C3A_055
NA
HL_8BRM_0581/Lt/2057:2069No text annotation
HL_8BRM_0591/Lt/2097:2105No text annotation
homologous
HL_8C3A_057
NA
HL_8BRM_0601/Lt/2117:2124Pseudoknot geometry
homologous
HL_5TBW_057
NA
HL_8BRM_0611/Lt/2147:2157tRNA anticodon loop
geometric
HL_2AKE_002
HL_11974.1
HL_8BRM_0621/Lt/2168:2173GNRA
homologous
HL_8C3A_060
NA
HL_8BRM_0631/Lt/2199:2207Pseudoknot geometry
homologous
HL_8C3A_061
NA
HL_8BRM_0641/Lt/2263:2271No text annotation
homologous
HL_5TBW_061
NA
HL_8BRM_0651/Lt/2320:2327No text annotation
homologous
HL_8C3A_063
NA
HL_8BRM_0661/Lt/2343:2349No text annotation
homologous
HL_5TBW_063
NA
HL_8BRM_0671/Lt/2385:2390GNRA
homologous
HL_5TBW_064
NA
HL_8BRM_0681/Lt/2443:2448GNRA
homologous
HL_8C3A_066
NA
HL_8BRM_0691/Lt/2485:2490Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_8BRM_0701/Lt/2526:2540No text annotation
homologous
HL_8C3A_068
NA
HL_8BRM_0711/Lt/2572:2601No text annotation
HL_8BRM_0721/Lt/2616:2624No text annotation
geometric
HL_7RQB_068
NA
HL_8BRM_0731/Lt/2654:2658Mini UNCG
geometric
HL_7A0S_039
HL_90436.1
HL_8BRM_0741/St/7:17No text annotation
homologous
HL_4V88_186
NA
HL_8BRM_0751/St/61:73No text annotation
HL_8BRM_0761/St/138:143GNRA
geometric
HL_5J7L_003
NA
HL_8BRM_0771/St/182:188No text annotation
geometric
HL_4V9F_011
HL_75660.6
HL_8BRM_0781/St/243:251GNRA related
homologous
HL_4V88_193
NA
HL_8BRM_0791/St/281:286No text annotation
homologous
HL_4V88_194
NA
HL_8BRM_0801/St/306:317No text annotation
homologous
HL_4V88_195
NA
HL_8BRM_0811/St/327:332UNCG
homologous
HL_4V88_196
NA
HL_8BRM_0821/St/364:368No text annotation
HL_8BRM_0841/St/405:415No text annotation
geometric
HL_5TBW_015
NA
HL_8BRM_0851/St/449:454GNRA variation
homologous
HL_4V88_200
NA
HL_8BRM_0861/St/543:551No text annotation
homologous
HL_4V88_203
NA
HL_8BRM_0881/St/653:664No text annotation
HL_8BRM_0891/St/691:696GNRA
homologous
HL_4V88_207
NA
HL_8BRM_0901/St/751:761No text annotation
homologous
HL_4V88_208
NA
HL_8BRM_0911/St/806:809No text annotation
geometric
HL_6U8D_003
HL_32346.5
HL_8BRM_0921/St/827:832GNRA
homologous
HL_4V88_210
NA
HL_8BRM_0931/St/865:870GNRA
homologous
HL_4V88_211
NA
HL_8BRM_0941/St/932:941No text annotation
homologous
HL_4V88_212
NA
HL_8BRM_0961/St/1038:1043GNRA
homologous
HL_4V88_214
NA
HL_8BRM_0971/St/1051:1058No text annotation
homologous
HL_4V88_215
NA
HL_8BRM_0991/St/1104:1109UNCG variation
geometric
HL_2CZJ_007
NA
HL_8BRM_1001/St/1199:1204GNRA
homologous
HL_4V88_218
NA
HL_8BRM_1011/St/1241:1248T-loop with 2 stacked bulged bases
geometric
HL_5DH6_002
HL_13999.1
HL_8BRM_1021/St/1282:1290No text annotation
homologous
HL_4V88_220
NA
HL_8BRM_1031/St/1366:1378No text annotation
HL_8BRM_1041/St/1433:1438GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_8BRM_106No text annotation
HL_8BRM_028No text annotation
HL_8BRM_032No text annotation
HL_8BRM_047No text annotation
HL_8BRM_055No text annotation
HL_8BRM_107Anticodon loop related
HL_8BRM_108No text annotation
HL_8BRM_109No text annotation
HL_8BRM_083Mini UNCG
HL_8BRM_087No text annotation
HL_8BRM_095Anticodon loop related
HL_8BRM_098No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8BRM_0011/LD/7:10,
1/Lt/364:366		No text annotation
geometric
IL_6CZR_136
NA
IL_8BRM_0021/LD/14:20,
1/Lt/354:360		Triple sheared with non-canonical cWW
geometric
IL_5TBW_015
NA
IL_8BRM_0031/LD/26:27,
1/Lt/288:290		Single bulged A
geometric
IL_5TBW_013
NA
IL_8BRM_0041/LD/32:34,
1/Lt/280:283		Minor groove platform with extra cWW
geometric
IL_7RQB_031
NA
IL_8BRM_0051/LD/70:74,
1/LD/81:91		No text annotation
IL_8BRM_0061/LD/134:136,
1/Lt/7:8		No text annotation
IL_8BRM_0071/LE/15:16,
1/LE/63:65		Single bulged A
homologous
IL_5TBW_372
NA
IL_8BRM_0081/LE/21:27,
1/LE/53:58		No text annotation
IL_8BRM_0101/LE/32:36,
1/LE/42:46		Symmetric double minor groove platform
geometric
IL_5TBW_376
NA
IL_8BRM_0111/LE/72:79,
1/LE/99:105		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_377
NA
IL_8BRM_0121/LE/84:86,
1/LE/93:94		Single bulged U
homologous
IL_4V9F_107
IL_97561.1
IL_8BRM_0131/Lt/26:27,
1/Lt/55:57		No text annotation
homologous
IL_8C3A_004
NA
IL_8BRM_0141/Lt/31:37,
1/Lt/44:51		8x7 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_006
IL_62167.1
IL_8BRM_0151/Lt/81:87,
1/Lt/95:101		No text annotation
IL_8BRM_0161/Lt/116:120,
1/Lt/124:130		No text annotation
IL_8BRM_0171/Lt/328:332,
1/Lt/341:353		No text annotation
geometric
IL_4V9F_014
IL_31504.1
IL_8BRM_0181/Lt/427:432,
1/Lt/441:445		No text annotation
IL_8BRM_0191/Lt/475:476,
1/Lt/493:495		Single stack bend
geometric
IL_5J7L_269
NA
IL_8BRM_0201/Lt/520:522,
1/Lt/655:657		Isolated non-canonical cWW pair
homologous
IL_8C3A_029
NA
IL_8BRM_1781/Lt/520:526,
1/Lt/648:657		No text annotation
IL_8BRM_0211/Lt/522:526,
1/Lt/648:655		tHW-tHW cross-strand stack
geometric
IL_5TBW_028
NA
IL_8BRM_0221/Lt/550:551,
1/Lt/576:578		Single bulged G
homologous
IL_8C3A_032
NA
IL_8BRM_0231/Lt/551:555,
1/Lt/572:576		Triple sheared
geometric
IL_5J7L_263
NA
IL_8BRM_0241/Lt/586:589,
1/Lt/605:607		Major groove platform with extra cWW
homologous
IL_8C3A_034
NA
IL_8BRM_0251/Lt/590:592,
1/Lt/603:604		Single bulged U
homologous
IL_5TBW_032
NA
IL_8BRM_0261/Lt/624:626,
1/Lt/636:640		No text annotation
homologous
IL_8C3A_036
NA
IL_8BRM_0271/Lt/686:687,
1/Lt/821:823		No text annotation
homologous
IL_8C3A_038
NA
IL_8BRM_1791/Lt/694:696,
1/Lt/813:814		No text annotation
IL_8BRM_0291/Lt/698:700,
1/Lt/810:811		Single bulged G
homologous
IL_8C3A_040
NA
IL_8BRM_0301/Lt/708:712,
1/Lt/765:769		5x5 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_4V9F_033
IL_38862.5
IL_8BRM_0311/Lt/712:713,
1/Lt/763:765		Minor groove platform
homologous
IL_8C3A_042
NA
IL_8BRM_0321/Lt/714:718,
1/Lt/759:762		C-loop
homologous
IL_5TBW_040
NA
IL_8BRM_0331/Lt/719:723,
1/Lt/754:758		No text annotation
homologous
IL_8C3A_044
NA
IL_8BRM_0351/Lt/786:788,
1/Lt/795:796		Single bulged A
homologous
IL_5TBW_045
NA
IL_8BRM_1801/Lt/830:832,
1/Lt/846:848		Isolated non-canonical cWW pair
homologous
IL_8P9A_274
IL_01003.1
IL_8BRM_0371/Lt/877:881,
1/Lt/1028:1032		UAA/GAN
homologous
IL_8C3A_051
NA
IL_8BRM_0381/Lt/883:890,
1/Lt/1025:1026		SSU/LSU pseudoknot
homologous
IL_8C3A_052
NA
IL_8BRM_0391/Lt/896:905,
1/Lt/999:1019		No text annotation
IL_8BRM_0401/Lt/907:909,
1/Lt/996:997		Single bulged U
homologous
IL_5TBW_053
NA
IL_8BRM_0411/Lt/1063:1065,
1/Lt/1116:1119		Isolated cWS basepair
homologous
IL_5TBW_057
NA
IL_8BRM_0421/Lt/1072:1076,
1/Lt/1108:1109		Single bulged A
homologous
IL_8C3A_062
NA
IL_8BRM_0431/Lt/1077:1084,
1/Lt/1103:1107		Kink-turn
homologous
IL_5TBW_059
NA
IL_8BRM_0441/Lt/1088:1090,
1/Lt/1097:1099		Isolated non-canonical cWW pair
homologous
IL_8C3A_064
NA
IL_8BRM_0451/Lt/1132:1138,
1/Lt/1842:1847		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_061
NA
IL_8BRM_0461/Lt/1176:1179,
1/Lt/1470:1471		Major groove platform; stack outside cWW
geometric
IL_4V9F_050
IL_74641.1
IL_8BRM_0471/Lt/1185:1189,
1/Lt/1197:1199		C-loop
geometric
IL_4V9F_051
IL_63596.12
IL_8BRM_0481/Lt/1216:1220,
1/Lt/1258:1263		UAA/GAN
homologous
IL_8C3A_067
NA
IL_8BRM_0491/Lt/1220:1221,
1/Lt/1256:1258		Single bulged U
geometric
IL_3WBM_001
NA
IL_8BRM_0501/Lt/1237:1242,
1/Lt/1251:1253		No text annotation
IL_8BRM_0511/Lt/1326:1329,
1/Lt/1429:1432		Tandem non-canonical cWW pairs
geometric
IL_4V88_430
NA
IL_8BRM_0521/Lt/1335:1336,
1/Lt/1421:1423		Single stack bend
homologous
IL_8C3A_076
NA
IL_8BRM_0531/Lt/1369:1373,
1/Lt/1403:1407		No text annotation
IL_8BRM_0541/Lt/1378:1383,
1/Lt/1391:1398		Kink-turn
geometric
IL_3U4M_004
IL_90775.1
IL_8BRM_0551/Lt/1515:1520,
1/Lt/1835:1837		No text annotation
geometric
IL_5J7L_304
NA
IL_8BRM_0561/Lt/1527:1529,
1/Lt/1826:1828		No text annotation
homologous
IL_8C3A_081
NA
IL_8BRM_0571/Lt/1530:1533,
1/Lt/1824:1825		Major groove platform; stack outside cWW
homologous
IL_8C3A_082
NA
IL_8BRM_1821/Lt/1530:1538,
1/Lt/1821:1825		No text annotation
homologous
IL_8C3A_484
NA
IL_8BRM_0581/Lt/1533:1538,
1/Lt/1821:1824		No text annotation
homologous
IL_8C3A_083
NA
IL_8BRM_0591/Lt/1550:1555,
1/Lt/1560:1566		No text annotation
homologous
IL_8C3A_084
NA
IL_8BRM_0601/Lt/1572:1574,
1/Lt/1595:1597		Isolated non-canonical cWW pair
homologous
IL_8C3A_085
NA
IL_8BRM_0611/Lt/1579:1580,
1/Lt/1587:1590		No text annotation
homologous
IL_8C3A_086
NA
IL_8BRM_0621/Lt/1617:1618,
1/Lt/1811:1813		Single bulged A
homologous
IL_5TBW_082
NA
IL_8BRM_0631/Lt/1645:1650,
1/Lt/1661:1668		Kink-turn related
homologous
IL_5TBW_083
NA
IL_8BRM_0641/Lt/1684:1687,
1/Lt/1733:1734		Major groove intercalation
homologous
IL_5TBW_084
NA
IL_8BRM_0651/Lt/1688:1689,
1/Lt/1729:1732		Major groove intercalation
homologous
IL_5TBW_085
NA
IL_8BRM_0661/Lt/1692:1694,
1/Lt/1725:1726		Single bulged C
geometric
IL_6XKO_001
IL_05642.1
IL_8BRM_0671/Lt/1694:1698,
1/Lt/1723:1725		8-nt loop receptor
geometric
IL_5T83_002
NA
IL_8BRM_0681/Lt/1699:1704,
1/Lt/1717:1722		No text annotation
geometric
IL_4QLM_002
IL_74322.1
IL_8BRM_0691/Lt/1706:1708,
1/Lt/1713:1715		Isolated non-canonical cWW pair
geometric
IL_5CCB_001
IL_01003.1
IL_8BRM_0701/Lt/1764:1765,
1/Lt/1795:1798		Bulged stacked bases
geometric
IL_5TBW_089
NA
IL_8BRM_0711/Lt/1765:1776,
1/Lt/1792:1795		No text annotation
homologous
IL_5TBW_090
NA
IL_8BRM_0721/Lt/1879:1882,
1/Lt/2408:2410		No text annotation
homologous
IL_8C3A_096
NA
IL_8BRM_0731/Lt/1884:1886,
1/Lt/2403:2406		No text annotation
homologous
IL_8C3A_097
NA
IL_8BRM_0741/Lt/1896:1899,
1/Lt/2234:2236		Isolated non-canonical cWW pair
geometric
IL_4P3T_001
NA
IL_8BRM_0751/Lt/1900:1901,
1/Lt/2230:2233		Minor groove platform
homologous
IL_5TBW_094
NA
IL_8BRM_0761/Lt/1911:1913,
1/Lt/2028:2031		No text annotation
homologous
IL_8C3A_100
NA
IL_8BRM_0771/Lt/1930:1933,
1/Lt/1987:1991		No text annotation
IL_8BRM_0781/Lt/2038:2039,
1/Lt/2049:2051		No text annotation
IL_8BRM_0791/Lt/2090:2092,
1/Lt/2110:2114		No text annotation
homologous
IL_8C3A_108
NA
IL_8BRM_0801/Lt/2092:2094,
1/Lt/2108:2110		Isolated non-canonical cWW pair
geometric
IL_4JGN_002
IL_01003.1
IL_8BRM_0811/Lt/2193:2195,
1/Lt/2211:2212		Single stack bend
geometric
IL_5TBW_070
NA
IL_8BRM_0821/Lt/2246:2247,
1/Lt/2288:2290		Major groove platform
homologous
IL_5TBW_102
NA
IL_8BRM_1831/Lt/2246:2249,
1/Lt/2286:2290		No text annotation
homologous
IL_8C3A_111
NA
IL_8BRM_0831/Lt/2247:2249,
1/Lt/2286:2288		No text annotation
geometric
IL_4KR9_002
NA
IL_8BRM_1841/Lt/2249:2251,
1/Lt/2285:2286		No text annotation
homologous
IL_8P9A_331
IL_46637.1
IL_8BRM_1851/Lt/2251:2253,
1/Lt/2281:2285		Major groove minor groove platform with extra cWW
homologous
IL_8C3A_113
NA
IL_8BRM_0851/Lt/2258:2262,
1/Lt/2272:2276		No text annotation
homologous
IL_8C3A_114
NA
IL_8BRM_0861/Lt/2299:2300,
1/Lt/2371:2373		Major groove platform
homologous
IL_5TBW_107
NA
IL_8BRM_0871/Lt/2302:2304,
1/Lt/2365:2369		No text annotation
homologous
IL_8C3A_116
NA
IL_8BRM_0881/Lt/2304:2305,
1/Lt/2362:2365		Multiple bulged bases
geometric
IL_4V9F_088
IL_44609.1
IL_8BRM_0891/Lt/2314:2315,
1/Lt/2332:2335		Major groove platform with intercalation
homologous
IL_8C3A_119
NA
IL_8BRM_0901/Lt/2341:2343,
1/Lt/2349:2351		Isolated non-canonical cWW pair
geometric
IL_5TBW_112
NA
IL_8BRM_0911/Lt/2382:2383,
1/Lt/2392:2394		Single bulged A
homologous
IL_5TBW_113
NA
IL_8BRM_0921/Lt/2422:2425,
1/Lt/2555:2558		Double sheared
homologous
IL_8C3A_123
NA
IL_8BRM_0931/Lt/2437:2443,
1/Lt/2448:2453		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_4V9F_092
IL_02666.1
IL_8BRM_0941/Lt/2465:2469,
1/Lt/2508:2510		Major groove minor groove platform with tHH
homologous
IL_8C3A_126
NA
IL_8BRM_0951/Lt/2469:2471,
1/Lt/2506:2508		Isolated non-canonical cWW pair
geometric
IL_6IA2_005
NA
IL_8BRM_0961/Lt/2472:2476,
1/Lt/2501:2505		No text annotation
geometric
IL_7RQB_105
NA
IL_8BRM_0971/Lt/2480:2481,
1/Lt/2494:2497		Multiple bulged bases
homologous
IL_5TBW_119
NA
IL_8BRM_0981/Lt/2518:2523,
1/Lt/2543:2548		UAA/GAN with extra cWW
geometric
IL_7RQB_107
NA
IL_8BRM_1861/Lt/2563:2567,
1/Lt/2606:2609		No text annotation
IL_8BRM_0991/Lt/2631:2632,
1/Lt/2679:2681		No text annotation
IL_8BRM_1001/Lt/2636:2637,
1/Lt/2673:2675		No text annotation
geometric
IL_9DE7_001
IL_05642.1
IL_8BRM_1011/Lt/2640:2645,
1/Lt/2666:2670		No text annotation
geometric
IL_5TBW_133
NA
IL_8BRM_1021/Lt/2648:2650,
1/Lt/2662:2663		No text annotation
IL_8BRM_1031/Lt/2650:2653,
1/Lt/2659:2662		Double sheared
geometric
IL_4V9F_100
IL_58355.1
IL_8BRM_1041/St/37:40,
1/St/379:383		Double sheared
geometric
IL_4WF9_016
IL_58355.1
IL_8BRM_1051/St/41:47,
1/St/344:346		No text annotation
homologous
IL_8C3A_395
NA
IL_8BRM_1061/St/49:51,
1/St/341:342		Minor groove platform
homologous
IL_4V88_388
NA
IL_8BRM_1071/St/58:60,
1/St/74:75		Major groove platform
geometric
IL_4V9F_082
IL_48076.7
IL_8BRM_1081/St/96:99,
1/St/217:220		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_8BRM_1091/St/100:103,
1/St/215:216		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_8BRM_1101/St/104:108,
1/St/211:214		Minor groove platform related
geometric
IL_5J7L_010
NA
IL_8BRM_1871/St/111:122,
1/St/203:208		No text annotation
IL_8BRM_1111/St/127:133,
1/St/148:155		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_8BRM_1121/St/160:165,
1/St/197:201		No text annotation
IL_8BRM_1881/St/160:169,
1/St/194:201		No text annotation
IL_8BRM_1131/St/165:169,
1/St/194:197		No text annotation
IL_8BRM_1141/St/172:182,
1/St/188:191		No text annotation
IL_8BRM_1151/St/226:231,
1/St/261:268		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_8BRM_1931/St/233:236,
1/St/258:259		No text annotation
homologous
IL_8P9A_392
IL_01372.1
IL_8BRM_1171/St/276:278,
1/St/289:294		No text annotation
homologous
IL_4V88_404
NA
IL_8BRM_1181/St/324:326,
1/St/333:335		Isolated near basepair
homologous
IL_4V88_406
NA
IL_8BRM_1191/St/352:354,
1/St/376:377		Single bulged U
homologous
IL_4V88_407
NA
IL_8BRM_1201/St/356:360,
1/St/373:374		C-loop
geometric
IL_5J7L_018
NA
IL_8BRM_1211/St/360:361,
1/St/371:373		Single bulged G
geometric
IL_5J7L_019
NA
IL_8BRM_1221/St/430:442,
1/St/463:468		No text annotation
IL_8BRM_1231/St/442:448,
1/St/455:463		Kink-turn related
homologous
IL_4V88_415
NA
IL_8BRM_1241/St/496:502,
1/St/848:849		No text annotation
homologous
IL_4V88_416
NA
IL_8BRM_1251/St/507:511,
1/St/722:726		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_8BRM_1261/St/523:525,
1/St/579:581		Isolated non-canonical cWW pair
geometric
IL_4KNQ_001
NA
IL_8BRM_1271/St/525:526,
1/St/576:579		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_8BRM_1281/St/530:538,
1/St/565:572		No text annotation
IL_8BRM_1291/St/539:542,
1/St/552:564		No text annotation
IL_8BRM_1301/St/587:588,
1/St/606:608		No text annotation
IL_8BRM_1891/St/587:589,
1/St/604:608		No text annotation
IL_8BRM_1311/St/588:589,
1/St/604:606		Stack outside cWW
geometric
IL_1U9S_008
NA
IL_8BRM_1321/St/619:620,
1/St/716:719		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_8BRM_1331/St/622:623,
1/St/712:714		Single bulged C
geometric
IL_1S03_006
IL_05642.1
IL_8BRM_1341/St/626:628,
1/St/707:709		Isolated non-canonical cWW pair
geometric
IL_3HHN_004
IL_01003.1
IL_8BRM_1351/St/628:632,
1/St/704:707		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_8BRM_1361/St/639:643,
1/St/677:681		Triple non-canonical cWW pairs
geometric
IL_4LFB_065
IL_71154.1
IL_8BRM_1371/St/646:648,
1/St/672:674		Isolated non-canonical cWW pair
geometric
IL_4NGF_002
IL_01003.1
IL_8BRM_1381/St/649:653,
1/St/664:671		Kink-turn
geometric
IL_6UFM_001
NA
IL_8BRM_1391/St/739:744,
1/St/768:770		Other IL
homologous
IL_4V88_435
NA
IL_8BRM_1401/St/744:748,
1/St/764:768		tSH-tHW-tHS
geometric
IL_6CZR_135
NA
IL_8BRM_1411/St/749:751,
1/St/761:763		Isolated cWH basepair
geometric
IL_4KQ0_003
NA
IL_8BRM_1421/St/788:790,
1/St/839:845		No text annotation
homologous
IL_4V88_437
NA
IL_8BRM_1431/St/803:805,
1/St/811:813		Isolated non-canonical cWW pair
geometric
IL_3GM7_004
IL_01003.1
IL_8BRM_1441/St/805:806,
1/St/809:811		Single bulged U
geometric
IL_4V9F_029
IL_97561.1
IL_8BRM_1451/St/855:862,
1/St/873:878		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_8BRM_1461/St/890:891,
1/St/1318:1320		Single bulged A
homologous
IL_4V88_441
NA
IL_8BRM_1471/St/893:895,
1/St/1315:1316		Single bulged G
homologous
IL_4V88_442
NA
IL_8BRM_1481/St/901:904,
1/St/1305:1309		C-loop
homologous
IL_4V88_443
NA
IL_8BRM_1491/St/917:919,
1/St/1170:1172		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_8BRM_1501/St/921:923,
1/St/1165:1168		Decoding loop related
geometric
IL_3C3Z_002
IL_29925.1
IL_8BRM_1551/St/1010:1012,
1/St/1146:1147		Single bulged U
homologous
IL_4V88_449
NA
IL_8BRM_1561/St/1014:1018,
1/St/1142:1144		Isolated cWS basepair
homologous
IL_4V88_450
NA
IL_8BRM_1921/St/1014:1020,
1/St/1136:1144		No text annotation
homologous
IL_8P9A_439
IL_99893.1
IL_8BRM_1571/St/1018:1020,
1/St/1136:1142		Minor groove platform with extra cWW
geometric
IL_4V88_451
NA
IL_8BRM_1581/St/1022:1023,
1/St/1132:1134		Single bulged A
homologous
IL_4V88_452
NA
IL_8BRM_1591/St/1031:1033,
1/St/1066:1068		Isolated cWH basepair
geometric
IL_4J50_001
IL_10892.1
IL_8BRM_1601/St/1048:1050,
1/St/1059:1060		Single bulged U
geometric
IL_5TBW_131
NA
IL_8BRM_1611/St/1097:1100,
1/St/1113:1119		No text annotation
geometric
IL_4LFB_050
IL_32376.1
IL_8BRM_1621/St/1186:1192,
1/St/1213:1217		No text annotation
IL_8BRM_1631/St/1192:1194,
1/St/1209:1213		No text annotation
IL_8BRM_1651/St/1230:1235,
1/St/1254:1259		No text annotation
homologous
IL_4V88_462
NA
IL_8BRM_1661/St/1236:1238,
1/St/1251:1253		Isolated cWH basepair
geometric
IL_4KQ0_002
NA
IL_8BRM_1671/St/1279:1281,
1/St/1291:1293		Isolated non-canonical cWW pair
geometric
IL_4V88_444
NA
IL_8BRM_1681/St/1324:1326,
1/St/1419:1422		No text annotation
geometric
IL_4V88_463
NA
IL_8BRM_1691/St/1326:1329,
1/St/1415:1419		No text annotation
homologous
IL_4V88_464
NA
IL_8BRM_1701/St/1330:1332,
1/St/1412:1414		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_8BRM_1711/St/1332:1335,
1/St/1408:1412		No text annotation
IL_8BRM_1721/St/1338:1340,
1/St/1403:1405		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_8BRM_1731/St/1341:1344,
1/St/1399:1402		Double sheared
geometric
IL_4V88_468
NA
IL_8BRM_1741/St/1344:1346,
1/St/1398:1399		Single bulged U
homologous
IL_4V88_469
NA
IL_8BRM_1751/St/1353:1355,
1/St/1389:1391		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_8BRM_1761/St/1357:1360,
1/St/1384:1387		Double sheared
homologous
IL_4V88_471
NA
IL_8BRM_1771/St/1362:1364,
1/St/1380:1382		Isolated non-canonical cWW pair
geometric
IL_1UN6_005
IL_01003.1

Problematic loops

#loop idProblemSequence
IL_8BRM_009Major groove minor groove platform; mini C-loop
IL_8BRM_028No text annotation
IL_8BRM_034No text annotation
IL_8BRM_036Tandem non-canonical cWW pairs
IL_8BRM_181Isolated non-canonical cWW with bulges
IL_8BRM_084No text annotation
IL_8BRM_116No text annotation
IL_8BRM_151Isolated non-canonical cWW pair
IL_8BRM_152No text annotation
IL_8BRM_190No text annotation
IL_8BRM_153No text annotation
IL_8BRM_154No text annotation
IL_8BRM_191Other IL
IL_8BRM_164Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8BRM_0011/LD/20:21,
1/Lt/321:328,
1/Lt/353:354		No text annotation
geometric
J3_4WF9_010
J3_68715.1
J3_8BRM_0281/LD/20:21,
1/Lt/321:332,
1/Lt/341:354		No text annotation
geometric
J3_4V9F_012
J3_24879.1
J3_8BRM_0291/LD/22:25,
1/Lt/291:308,
1/Lt/315:320		No text annotation
geometric
J3_5J7L_067
NA
J3_8BRM_0021/LD/45:46,
1/LD/59:65,
1/LD/96:100		No text annotation
geometric
J3_5TBW_071
NA
J3_8BRM_0381/LE/9:14,
1/LE/66:67,
1/LE/110:111		No text annotation
homologous
J3_8P9A_066
J3_26985.1
J3_8BRM_0311/Lt/151:158,
1/Lt/171:181,
1/Lt/193:198		No text annotation
J3_8BRM_0041/Lt/531:537,
1/Lt/622:624,
1/Lt/640:643		No text annotation
homologous
J3_8C3A_003
NA
J3_8BRM_0051/Lt/545:548,
1/Lt/580:584,
1/Lt/609:614		No text annotation
homologous
J3_5TBW_005
NA
J3_8BRM_0061/Lt/701:702,
1/Lt/775:777,
1/Lt/805:809		No text annotation
J3_8BRM_0071/Lt/1163:1169,
1/Lt/1489:1491,
1/Lt/1503:1506		No text annotation
homologous
J3_8C3A_006
NA
J3_8BRM_0081/Lt/1172:1175,
1/Lt/1472:1475,
1/Lt/1484:1486		No text annotation
J3_8BRM_0091/Lt/1210:1215,
1/Lt/1264:1268,
1/Lt/1285:1286		No text annotation
homologous
J3_5TBW_010
NA
J3_8BRM_0101/Lt/1222:1226,
1/Lt/1235:1237,
1/Lt/1253:1255		No text annotation
J3_8BRM_0321/Lt/1222:1226,
1/Lt/1235:1242,
1/Lt/1251:1255		No text annotation
J3_8BRM_0111/Lt/1295:1299,
1/Lt/1308:1312,
1/Lt/1452:1457		No text annotation
J3_8BRM_0331/Lt/1320:1324,
1/Lt/1434:1435,
1/Lt/1439:1444		No text annotation
homologous
J3_8P9A_058
J3_08594.1
J3_8BRM_0121/Lt/1920:1923,
1/Lt/1998:2002,
1/Lt/2015:2021		No text annotation
geometric
J3_4V9F_007
J3_86017.1
J3_8BRM_0341/Lt/2075:2077,
1/Lt/2178:2189,
1/Lt/2216:2221		No text annotation
homologous
J3_8C3A_056
NA
J3_8BRM_0131/Lt/2088:2090,
1/Lt/2114:2116,
1/Lt/2125:2130		No text annotation
homologous
J3_8C3A_010
NA
J3_8BRM_0141/Lt/2309:2312,
1/Lt/2337:2339,
1/Lt/2353:2358		No text annotation
J3_8BRM_0151/Lt/2611:2613,
1/Lt/2627:2630,
1/Lt/2682:2688		No text annotation
J3_8BRM_0161/St/40:41,
1/St/346:352,
1/St/377:379		No text annotation
homologous
J3_8P9A_068
J3_58657.1
J3_8BRM_0171/St/122:126,
1/St/156:160,
1/St/201:203		No text annotation
J3_8BRM_0181/St/635:638,
1/St/682:690,
1/St/697:701		No text annotation
homologous
J3_4V88_033
NA
J3_8BRM_0191/St/791:794,
1/St/822:826,
1/St/833:838		No text annotation
J3_8BRM_0201/St/905:908,
1/St/1269:1275,
1/St/1297:1304		No text annotation
homologous
J3_4V88_035
NA
J3_8BRM_0211/St/912:915,
1/St/1174:1176,
1/St/1262:1265		No text annotation
homologous
J3_8C3A_039
NA
J3_8BRM_0351/St/924:931,
1/St/942:952,
1/St/1160:1164		No text annotation
homologous
J3_8C3A_040
NA
J3_8BRM_0231/St/958:963,
1/St/1005:1009,
1/St/1148:1154		No text annotation
homologous
J3_4V88_038
NA
J3_8BRM_0241/St/1025:1030,
1/St/1069:1074,
1/St/1125:1130		No text annotation
homologous
J3_4V88_039
NA
J3_8BRM_0251/St/1035:1036,
1/St/1045:1048,
1/St/1060:1064		No text annotation
geometric
J3_8C3A_085
NA
J3_8BRM_0361/St/1035:1036,
1/St/1045:1050,
1/St/1059:1064		No text annotation
J3_8BRM_0261/St/1077:1080,
1/St/1094:1097,
1/St/1119:1122		No text annotation
J3_8BRM_0371/St/1077:1080,
1/St/1094:1100,
1/St/1113:1122		No text annotation
J3_8BRM_0271/St/1176:1180,
1/St/1223:1230,
1/St/1259:1262		No text annotation
homologous
J3_8C3A_044
NA
J4_8BRM_0011/Lt/110:111,
1/Lt/221:226,
1/Lt/247:251,
1/Lt/268:271		No text annotation
J4_8BRM_0021/Lt/151:158,
1/Lt/171:175,
1/Lt/179:181,
1/Lt/193:198		No text annotation
J4_8BRM_0031/Lt/1139:1145,
1/Lt/1159:1162,
1/Lt/1507:1512,
1/Lt/1840:1841		No text annotation
J4_8BRM_0141/Lt/1176:1180,
1/Lt/1204:1209,
1/Lt/1287:1288,
1/Lt/1464:1471		No text annotation
homologous
J4_8CRE_004
NA
J4_8BRM_0051/Lt/1179:1180,
1/Lt/1204:1209,
1/Lt/1287:1288,
1/Lt/1464:1470		No text annotation
J4_8BRM_0061/Lt/1619:1623,
1/Lt/1635:1639,
1/Lt/1674:1678,
1/Lt/1805:1810		No text annotation
homologous
J4_8C3A_006
NA
J4_8BRM_0071/Lt/1680:1682,
1/Lt/1736:1737,
1/Lt/1755:1764,
1/Lt/1798:1803		No text annotation
homologous
J4_8C3A_007
NA
J4_8BRM_0081/Lt/2078:2082,
1/Lt/2136:2140,
1/Lt/2164:2166,
1/Lt/2175:2177		No text annotation
homologous
J4_8P9A_019
J4_59590.1
J4_8BRM_0091/Lt/2427:2430,
1/Lt/2460:2461,
1/Lt/2514:2516,
1/Lt/2550:2553		No text annotation
J4_8BRM_0101/St/86:94,
1/St/222:224,
1/St/270:274,
1/St/296:297		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J4_8BRM_0111/St/502:504,
1/St/729:734,
1/St/775:786,
1/St/847:848		No text annotation
homologous
J4_8C3A_022
NA
J4_8BRM_0121/St/513:521,
1/St/583:586,
1/St/609:619,
1/St/719:720		No text annotation
J4_8BRM_0131/St/513:521,
1/St/583:586,
1/St/609:620,
1/St/716:720		No text annotation
J5_8BRM_0011/LD/36:43,
1/LD/102:107,
1/LD/113:114,
1/LD/121:123,
1/Lt/19:21		No text annotation
J5_8BRM_0021/Lt/406:411,
1/Lt/516:519,
1/Lt/658:661,
1/Lt/1062:1063,
1/Lt/1119:1125		No text annotation
homologous
J5_8C3A_002
NA
J5_8BRM_0031/Lt/423:426,
1/Lt/446:450,
1/Lt/457:462,
1/Lt/469:470,
1/Lt/500:504		No text annotation
J5_8BRM_0041/Lt/1538:1546,
1/Lt/1570:1571,
1/Lt/1598:1599,
1/Lt/1603:1611,
1/Lt/1819:1821		No text annotation
homologous
J5_8C3A_004
NA
J5_8BRM_0051/Lt/1887:1894,
1/Lt/2238:2246,
1/Lt/2290:2299,
1/Lt/2373:2379,
1/Lt/2397:2402		No text annotation
J5_8BRM_0061/Lt/1904:1907,
1/Lt/2035:2038,
1/Lt/2051:2052,
1/Lt/2074:2075,
1/Lt/2221:2227		No text annotation
homologous
J5_8P9A_015
J5_96125.1
J5_8BRM_0071/St/30:33,
1/St/387:391,
1/St/394:400,
1/St/420:426,
1/St/472:475		No text annotation
J5_8BRM_0081/St/53:56,
1/St/77:84,
1/St/299:301,
1/St/322:324,
1/St/335:339		No text annotation
homologous
J5_8C3A_020
NA
J6_8BRM_0011/LD/34:36,
1/Lt/21:26,
1/Lt/57:67,
1/Lt/74:78,
1/Lt/104:108,
1/Lt/273:280		No text annotation
J6_8BRM_0021/Lt/1904:1907,
1/Lt/2035:2038,
1/Lt/2051:2052,
1/Lt/2074:2077,
1/Lt/2178:2189,
1/Lt/2216:2227		No text annotation
J7_8BRM_0011/Lt/666:671,
1/Lt/684:685,
1/Lt/824:827,
1/Lt/851:856,
1/Lt/867:871,
1/Lt/1038:1039,
1/Lt/1052:1057		No text annotation

Problematic loops

#loop idProblemSequence
J3_8BRM_030No text annotation
J3_8BRM_003No text annotation
J3_8BRM_022No text annotation
J4_8BRM_004No text annotation

Coloring options:
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