RNA 3D Hub //

5OPT Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5OPT_0011/E/7:17No text annotation
homologous
HL_4V88_186
NA
HL_5OPT_0041/E/158:164GNRA
geometric
HL_5TBW_017
NA
HL_5OPT_0071/E/291:298T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_5OPT_0081/E/322:331No text annotation
HL_5OPT_0091/E/378:386GNRA related
homologous
HL_4V88_193
NA
HL_5OPT_0101/E/415:420No text annotation
geometric
HL_1WZ2_007
HL_75660.7
HL_5OPT_0111/E/440:451No text annotation
homologous
HL_4V88_195
NA
HL_5OPT_0131/E/497:508No text annotation
homologous
HL_4V88_197
NA
HL_5OPT_0151/E/569:582No text annotation
HL_5OPT_0161/E/623:628GNRA variation
homologous
HL_4V88_200
NA
HL_5OPT_0451/E/802:834No text annotation
HL_5OPT_0191/E/816:828No text annotation
HL_5OPT_0201/E/870:878No text annotation
homologous
HL_4V88_203
NA
HL_5OPT_0241/E/1235:1244No text annotation
homologous
HL_4V88_206
NA
HL_5OPT_0251/E/1272:1277GNRA
homologous
HL_4V88_207
NA
HL_5OPT_0261/E/1332:1342No text annotation
homologous
HL_4V88_208
NA
HL_5OPT_0281/E/1550:1555GNRA
homologous
HL_4V88_210
NA
HL_5OPT_0291/E/1589:1594GNRA
homologous
HL_4V88_211
NA
HL_5OPT_0301/E/1656:1665No text annotation
homologous
HL_4V88_212
NA
HL_5OPT_0321/E/1764:1769GNRA
homologous
HL_4V88_214
NA
HL_5OPT_0431/E/1776:1785No text annotation
HL_5OPT_0331/E/1777:1784No text annotation
homologous
HL_4V88_215
NA
HL_5OPT_0381/E/2127:2137No text annotation
geometric
HL_5J7L_029
NA
HL_5OPT_0401/E/2296:2301GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_5OPT_002Mini UNCG
HL_5OPT_003No text annotation
HL_5OPT_005UNCG
HL_5OPT_006No text annotation
HL_5OPT_012UNCG
HL_5OPT_014UNCG
HL_5OPT_041No text annotation
HL_5OPT_017No text annotation
HL_5OPT_018No text annotation
HL_5OPT_042No text annotation
HL_5OPT_021No text annotation
HL_5OPT_022No text annotation
HL_5OPT_023No text annotation
HL_5OPT_027No text annotation
HL_5OPT_031No text annotation
HL_5OPT_034No text annotation
HL_5OPT_035Mini UNCG
HL_5OPT_036No text annotation
HL_5OPT_044No text annotation
HL_5OPT_037No text annotation
HL_5OPT_039Mini UNCG

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5OPT_0011/E/24:26,
1/E/654:655		Single bulged C
homologous
IL_4V88_384
NA
IL_5OPT_0021/E/37:41,
1/E/518:523		Triple sheared related
geometric
IL_4V88_386
NA
IL_5OPT_0031/E/42:48,
1/E/478:480		No text annotation
geometric
IL_4V88_387
NA
IL_5OPT_0041/E/50:52,
1/E/475:476		Minor groove platform
homologous
IL_4V88_388
NA
IL_5OPT_0051/E/58:63,
1/E/84:86		No text annotation
homologous
IL_4V88_389
NA
IL_5OPT_0061/E/64:69,
1/E/79:83		No text annotation
homologous
IL_8C3A_398
NA
IL_5OPT_0071/E/106:109,
1/E/350:353		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_5OPT_0081/E/110:113,
1/E/348:349		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_5OPT_0091/E/114:118,
1/E/344:347		No text annotation
geometric
IL_4LFB_008
IL_60988.2
IL_5OPT_0101/E/119:121,
1/E/341:343		Isolated non-canonical cWW pair
geometric
IL_4M4O_001
IL_01003.3
IL_5OPT_0111/E/147:153,
1/E/169:176		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_5OPT_0121/E/192:194,
1/E/231:232		Single bulged U
geometric
IL_5TBW_093
NA
IL_5OPT_0141/E/239:240,
1/E/307:311		Multiple bulged bases
geometric
IL_5J7L_005
NA
IL_5OPT_0151/E/359:364,
1/E/396:403		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_5OPT_0161/E/366:371,
1/E/393:394		No text annotation
geometric
IL_5Y58_001
IL_37738.1
IL_5OPT_0171/E/375:377,
1/E/387:389		Isolated non-canonical cWW pair
geometric
IL_4V9F_017
IL_01003.3
IL_5OPT_0181/E/410:412,
1/E/423:428		No text annotation
homologous
IL_4V88_404
NA
IL_5OPT_0191/E/436:438,
1/E/453:455		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_5OPT_0201/E/486:488,
1/E/515:516		Single bulged U
homologous
IL_4V88_407
NA
IL_5OPT_0211/E/490:494,
1/E/512:513		C-loop
geometric
IL_5J7L_018
NA
IL_5OPT_0221/E/494:495,
1/E/510:512		Single bulged G
geometric
IL_5J7L_019
NA
IL_5OPT_0241/E/564:566,
1/E/590:597		No text annotation
homologous
IL_8C3A_420
NA
IL_5OPT_0251/E/566:567,
1/E/584:590		Multiple bulged bases
geometric
IL_1R3E_001
IL_05670.1
IL_5OPT_0261/E/604:611,
1/E/641:642		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_5OPT_0271/E/611:613,
1/E/640:641		Single bulged U
geometric
IL_6MWN_006
IL_97561.3
IL_5OPT_0281/E/616:622,
1/E/629:637		Kink-turn related
homologous
IL_4V88_415
NA
IL_5OPT_0291/E/670:676,
1/E/1572:1573		No text annotation
homologous
IL_4V88_416
NA
IL_5OPT_0301/E/681:685,
1/E/1303:1307		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_5OPT_0381/E/852:853,
1/E/908:911		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_5OPT_0391/E/857:865,
1/E/897:904		No text annotation
homologous
IL_4V88_425
NA
IL_5OPT_0431/E/1199:1201,
1/E/1296:1300		No text annotation
geometric
IL_5J7L_332
NA
IL_5OPT_0941/E/1202:1203,
1/E/1293:1295		Single bulged C
geometric
IL_7A0S_032
IL_05642.2
IL_5OPT_0881/E/1205:1208,
1/E/1289:1291		Isolated non-canonical cWW pair
homologous
IL_8P9A_418
IL_01003.3
IL_5OPT_0461/E/1209:1213,
1/E/1285:1288		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_5OPT_0471/E/1220:1224,
1/E/1258:1262		No text annotation
geometric
IL_5TBW_121
NA
IL_5OPT_0481/E/1230:1234,
1/E/1245:1252		Kink-turn
homologous
IL_4V88_434
NA
IL_5OPT_0491/E/1320:1325,
1/E/1349:1351		Other IL
geometric
IL_4V88_435
NA
IL_5OPT_0501/E/1325:1329,
1/E/1345:1349		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_5OPT_0511/E/1369:1371,
1/E/1563:1569		No text annotation
homologous
IL_4V88_437
NA
IL_5OPT_0891/E/1378:1379,
1/E/1539:1541		Single stack bend
geometric
IL_5J7L_044
NA
IL_5OPT_0531/E/1383:1385,
1/E/1533:1535		Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_01003.3
IL_5OPT_0541/E/1579:1586,
1/E/1597:1602		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_5OPT_0551/E/1614:1615,
1/E/2164:2166		Single bulged A
homologous
IL_4V88_441
NA
IL_5OPT_0561/E/1617:1619,
1/E/2161:2162		Single bulged G
homologous
IL_4V88_442
NA
IL_5OPT_0571/E/1625:1628,
1/E/2151:2155		C-loop
homologous
IL_4V88_443
NA
IL_5OPT_0611/E/1740:1746,
1/E/1945:1953		No text annotation
homologous
IL_8P9A_439
IL_99893.1
IL_5OPT_0631/E/1758:1760,
1/E/1791:1793		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_5OPT_0701/E/2170:2172,
1/E/2282:2285		No text annotation
homologous
IL_4V88_463
NA
IL_5OPT_0711/E/2172:2175,
1/E/2278:2282		No text annotation
geometric
IL_4V88_464
NA
IL_5OPT_0721/E/2176:2178,
1/E/2275:2277		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_5OPT_0731/E/2178:2180,
1/E/2272:2275		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_5OPT_0741/E/2187:2190,
1/E/2262:2265		Double sheared
homologous
IL_4V88_468
NA
IL_5OPT_0761/E/2195:2197,
1/E/2255:2257		Isolated non-canonical cWW pair
geometric
IL_3SZX_002
IL_01003.3
IL_5OPT_0771/E/2197:2199,
1/E/2253:2255		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_5OPT_0781/E/2202:2205,
1/E/2247:2250		Double sheared
homologous
IL_4V88_471
NA
IL_5OPT_0791/E/2209:2211,
1/E/2241:2243		Isolated non-canonical cWW pair
geometric
IL_2O3V_001
IL_71625.3
IL_5OPT_0801/E/2211:2215,
1/E/2237:2241		Triple sheared
geometric
IL_7RQB_075
NA

Problematic loops

#loop idProblemSequence
IL_5OPT_013No text annotation
IL_5OPT_082Tandem non-canonical cWW pairs
IL_5OPT_023Isolated non-canonical cWW pair
IL_5OPT_031Isolated non-canonical cWW pair
IL_5OPT_092No text annotation
IL_5OPT_083Triple non-canonical cWW pairs
IL_5OPT_032Isolated non-canonical cWW pair
IL_5OPT_033No text annotation
IL_5OPT_034No text annotation
IL_5OPT_035No text annotation
IL_5OPT_084No text annotation
IL_5OPT_036No text annotation
IL_5OPT_085Multiple bulged bases
IL_5OPT_037No text annotation
IL_5OPT_086Tandem non-canonical cWW pairs
IL_5OPT_040No text annotation
IL_5OPT_041No text annotation
IL_5OPT_087Tandem non-canonical cWW pairs with near WC pairs
IL_5OPT_093No text annotation
IL_5OPT_042Tandem non-canonical cWW pairs
IL_5OPT_044Isolated cWH basepair
IL_5OPT_045Tandem non-canonical cWW pairs
IL_5OPT_052No text annotation
IL_5OPT_058Tandem non-canonical cWW pairs
IL_5OPT_059Major groove intercalation
IL_5OPT_090No text annotation
IL_5OPT_060Single bulged U
IL_5OPT_062Single bulged A
IL_5OPT_064No text annotation
IL_5OPT_091No text annotation
IL_5OPT_065Minor groove platform
IL_5OPT_066Tandem non-canonical cWW pairs
IL_5OPT_067No text annotation
IL_5OPT_068No text annotation
IL_5OPT_069No text annotation
IL_5OPT_075Isolated near basepair
IL_5OPT_081No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5OPT_0011/E/41:42,
1/E/480:486,
1/E/516:518		No text annotation
homologous
J3_8P9A_068
J3_58657.1
J3_5OPT_0121/E/247:263,
1/E/274:291,
1/E/298:300		No text annotation
J3_5OPT_0021/E/687:690,
1/E/1194:1199,
1/E/1300:1301		No text annotation
J3_5OPT_0131/E/687:690,
1/E/1194:1201,
1/E/1296:1301		No text annotation
J3_5OPT_0031/E/866:869,
1/E/879:881,
1/E/890:896		No text annotation
homologous
J3_4V88_032
NA
J3_5OPT_0041/E/922:925,
1/E/971:979,
1/E/1188:1190		No text annotation
J3_5OPT_0051/E/1218:1219,
1/E/1263:1271,
1/E/1278:1280		No text annotation
geometric
J3_1G1X_004
NA
J3_5OPT_0061/E/1372:1378,
1/E/1541:1549,
1/E/1556:1562		No text annotation
J3_5OPT_0071/E/1629:1634,
1/E/2113:2121,
1/E/2143:2150		No text annotation
J3_5OPT_0151/E/1646:1655,
1/E/1666:1677,
1/E/1970:1978		No text annotation
J3_5OPT_0101/E/1751:1756,
1/E/1795:1801,
1/E/1933:1939		No text annotation
geometric
J3_4LFB_007
J3_01343.1
J3_5OPT_0111/E/1761:1762,
1/E/1771:1776,
1/E/1785:1790		No text annotation
J4_5OPT_0011/E/96:104,
1/E/355:357,
1/E/405:408,
1/E/430:431		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J4_5OPT_0021/E/670:678,
1/E/1310:1315,
1/E/1356:1367,
1/E/1571:1573		No text annotation
J4_5OPT_0031/E/1636:1642,
1/E/1982:2024,
1/E/2043:2073,
1/E/2105:2111		No text annotation
J5_5OPT_0011/E/31:35,
1/E/525:530,
1/E/560:564,
1/E/597:600,
1/E/646:649		No text annotation
J5_5OPT_0021/E/31:35,
1/E/525:530,
1/E/560:566,
1/E/590:600,
1/E/646:649		No text annotation
J5_5OPT_0031/E/54:57,
1/E/87:94,
1/E/433:435,
1/E/456:458,
1/E/469:473		No text annotation
homologous
J5_8C3A_020
NA
J6_5OPT_0011/E/122:128,
1/E/142:146,
1/E/177:188,
1/E/236:238,
1/E/312:317,
1/E/336:340		No text annotation
J7_5OPT_0021/E/690:695,
1/E/760:761,
1/E/780:787,
1/E/844:850,
1/E/913:925,
1/E/971:979,
1/E/1188:1194		No text annotation

Problematic loops

#loop idProblemSequence
J3_5OPT_014No text annotation
J3_5OPT_008No text annotation
J3_5OPT_009No text annotation
J3_5OPT_016No text annotation
J7_5OPT_001No text annotation

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