RNA 3D Hub //

7OPE Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7OPE_0061/A/122:127No text annotation
homologous
HL_4WF9_003
HL_75660.7
HL_7OPE_0081/A/159:169No text annotation
homologous
HL_5J7L_138
NA
HL_7OPE_0091/A/197:204No text annotation
geometric
HL_5J7L_139
NA
HL_7OPE_0151/A/371:379T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_7OPE_0161/A/429:439No text annotation
homologous
HL_5J7L_145
NA
HL_7OPE_0171/A/457:464Pseudoknot geometry
homologous
HL_4WF9_014
HL_30680.5
HL_7OPE_0191/A/534:539GNRA
homologous
HL_7RQB_016
NA
HL_7OPE_0201/A/588:595No text annotation
homologous
HL_4WF9_017
HL_50318.1
HL_7OPE_0211/A/610:619T-loop with 2 stacked bulged bases
homologous
HL_4WF9_018
HL_33597.3
HL_7OPE_0221/A/656:662GNRA
geometric
HL_5J7L_026
NA
HL_7OPE_0261/A/791:800No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_7OPE_0281/A/873:878No text annotation
homologous
HL_5J7L_157
NA
HL_7OPE_0301/A/1024:1031No text annotation
homologous
HL_5J7L_160
NA
HL_7OPE_0331/A/1262:1267GNRA
homologous
HL_4WF9_031
HL_34789.4
HL_7OPE_0341/A/1320:1328No text annotation
homologous
HL_7RQB_033
NA
HL_7OPE_0381/A/1497:1508No text annotation
geometric
HL_1WZ2_007
HL_75660.7
HL_7OPE_0391/A/1538:1544Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_7OPE_0411/A/1657:1664No text annotation
homologous
HL_7RQB_040
NA
HL_7OPE_0421/A/1675:1681GNRA
homologous
HL_5J7L_174
NA
HL_7OPE_0431/A/1736:1741No text annotation
homologous
HL_7RQB_042
NA
HL_7OPE_0461/A/1806:1816No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_7OPE_0511/A/2056:2065No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_7OPE_0531/A/2238:2244No text annotation
homologous
HL_5J7L_185
NA
HL_7OPE_0541/A/2277:2285No text annotation
homologous
HL_4WF9_049
HL_11974.2
HL_7OPE_0551/A/2293:2305No text annotation
homologous
HL_7RQB_054
NA
HL_7OPE_0751/A/2332:2342No text annotation
HL_7OPE_0601/A/2433:2442No text annotation
homologous
HL_7RQB_059
NA
HL_7OPE_0691/A/2844:2852No text annotation
homologous
HL_5J7L_201
NA
HL_7OPE_0731/B/32:46No text annotation
homologous
HL_4V9F_074
HL_97756.3
HL_7OPE_0711/B/36:42No text annotation
geometric
HL_5TBW_006
NA
HL_7OPE_0721/B/84:88Mini UNCG
homologous
HL_5J7L_204
NA

Problematic loops

#loop idProblemSequence
HL_7OPE_001tRNA D-loop
HL_7OPE_002No text annotation
HL_7OPE_003T-loop with 2 stacked bulged bases
HL_7OPE_004No text annotation
HL_7OPE_005Pseudoknot geometry
HL_7OPE_007GNRA wlth tandem sheared
HL_7OPE_010No text annotation
HL_7OPE_011No text annotation
HL_7OPE_012No text annotation
HL_7OPE_074No text annotation
HL_7OPE_013T-loop with 2 stacked bulged bases
HL_7OPE_014No text annotation
HL_7OPE_018GNRA
HL_7OPE_023GNRA
HL_7OPE_024No text annotation
HL_7OPE_025GNRA wlth tandem sheared
HL_7OPE_027UNCG variation
HL_7OPE_029GNRA
HL_7OPE_031No text annotation
HL_7OPE_032GNRA wlth tandem sheared
HL_7OPE_035Pseudoknot geometry with 3' bulge
HL_7OPE_036GNRA
HL_7OPE_037No text annotation
HL_7OPE_040No text annotation
HL_7OPE_044No text annotation
HL_7OPE_045No text annotation
HL_7OPE_047GNRA
HL_7OPE_048GNRA
HL_7OPE_049No text annotation
HL_7OPE_050No text annotation
HL_7OPE_052No text annotation
HL_7OPE_056No text annotation
HL_7OPE_057Pseudoknot geometry
HL_7OPE_058GNRA with extra cWW
HL_7OPE_059GNRA
HL_7OPE_061No text annotation
HL_7OPE_062GNRA variation
HL_7OPE_063No text annotation
HL_7OPE_064GNRA
HL_7OPE_065GNRA
HL_7OPE_066Ribsomal LSU H95
HL_7OPE_067No text annotation
HL_7OPE_068GNRA
HL_7OPE_070GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7OPE_0021/A/36:37,
1/A/489:491		Single bulged A
homologous
IL_7RQB_002
NA
IL_7OPE_1151/A/56:76,
1/A/109:113		No text annotation
geometric
IL_5TBW_144
NA
IL_7OPE_0071/A/191:197,
1/A/204:211		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_006
NA
IL_7OPE_0111/A/319:327,
1/A/400:401		No text annotation
IL_7OPE_0121/A/336:338,
1/A/387:391		No text annotation
homologous
IL_5J7L_254
NA
IL_7OPE_0131/A/344:346,
1/A/359:360		No text annotation
IL_7OPE_0141/A/528:531,
1/A/542:555		No text annotation
homologous
IL_5J7L_255
NA
IL_7OPE_0201/A/721:725,
1/A/846:853		tHW-tHW cross-strand stack
geometric
IL_7RQB_018
NA
IL_7OPE_0251/A/822:824,
1/A/834:838		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_7OPE_0271/A/891:895,
1/A/977:980		No text annotation
homologous
IL_4WF9_029
IL_01742.1
IL_7OPE_0281/A/899:900,
1/A/971:973		Single stack bend
geometric
IL_7A0S_054
IL_15011.2
IL_7OPE_0311/A/911:915,
1/A/956:959		C-loop
homologous
IL_7RQB_029
NA
IL_7OPE_0341/A/998:1000,
1/A/1009:1011		Isolated non-canonical cWW pair
homologous
IL_7A0S_031
IL_01003.3
IL_7OPE_0361/A/1044:1048,
1/A/1199:1203		UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_7OPE_0371/A/1050:1057,
1/A/1196:1197		SSU/LSU pseudoknot
homologous
IL_5J7L_278
NA
IL_7OPE_0381/A/1057:1059,
1/A/1195:1196		Single bulged U
geometric
IL_5J7L_279
NA
IL_7OPE_0391/A/1064:1070,
1/A/1186:1190		Kink-turn related
geometric
IL_4WF9_039
IL_57188.6
IL_7OPE_0401/A/1070:1076,
1/A/1170:1186		No text annotation
geometric
IL_4WF9_040
IL_50715.4
IL_7OPE_0421/A/1089:1097,
1/A/1154:1158		Kink-turn
homologous
IL_5J7L_284
NA
IL_7OPE_0471/A/1248:1255,
1/A/1274:1278		Kink-turn
homologous
IL_7RQB_047
NA
IL_7OPE_0501/A/1349:1352,
1/A/1648:1649		Major groove platform; stack outside cWW
homologous
IL_7RQB_050
NA
IL_7OPE_0511/A/1358:1362,
1/A/1370:1372		Major groove minor groove platform with tHH
homologous
IL_4WF9_050
IL_06671.1
IL_7OPE_0571/A/1478:1481,
1/A/1605:1609		No text annotation
IL_7OPE_0581/A/1483:1486,
1/A/1599:1603		tSH-tHW
homologous
IL_7RQB_057
NA
IL_7OPE_0631/A/1535:1537,
1/A/1545:1546		Single bulged A
homologous
IL_5J7L_302
NA
IL_7OPE_0671/A/1711:1714,
1/A/2022:2023		Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA
IL_7OPE_1171/A/1711:1719,
1/A/2019:2023		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_7OPE_0681/A/1714:1719,
1/A/2019:2022		Intercalated tWH
homologous
IL_4WF9_065
IL_28217.1
IL_7OPE_0801/A/1963:1974,
1/A/1990:1993		No text annotation
homologous
IL_4WF9_077
IL_84014.1
IL_7OPE_0821/A/2083:2085,
1/A/2641:2644		No text annotation
homologous
IL_4WF9_079
IL_80025.1
IL_7OPE_0851/A/2110:2112,
1/A/2265:2268		Isolated tHS basepair with bulges
homologous
IL_7RQB_082
NA
IL_7OPE_0901/A/2482:2483,
1/A/2527:2529		Single stack bend
geometric
IL_7RQB_091
NA
IL_7OPE_0931/A/2488:2490,
1/A/2518:2522		Major groove minor groove platform with extra cWW
homologous
IL_4WF9_092
IL_36931.2
IL_7OPE_0941/A/2495:2499,
1/A/2509:2513		Double sheared with non-canonical cWW
homologous
IL_4WF9_093
IL_87767.2
IL_7OPE_0961/A/2539:2541,
1/A/2603:2607		Isolated non-canonical cWW with bulges
homologous
IL_7RQB_097
NA
IL_7OPE_0971/A/2541:2542,
1/A/2600:2603		Multiple bulged bases
geometric
IL_7RQB_098
NA
IL_7OPE_0981/A/2551:2552,
1/A/2569:2572		Major groove platform with intercalation
homologous
IL_5J7L_342
NA
IL_7OPE_0991/A/2620:2621,
1/A/2630:2632		Single bulged A
homologous
IL_7RQB_101
NA
IL_7OPE_1001/A/2665:2669,
1/A/2803:2811		tSH-tHS-tHW
homologous
IL_7RQB_102
NA
IL_7OPE_1031/A/2716:2720,
1/A/2747:2751		UAA/GAN related, with intercalation
homologous
IL_4WF9_102
IL_82016.1
IL_7OPE_1041/A/2724:2725,
1/A/2740:2743		Multiple bulged bases
homologous
IL_5J7L_349
NA
IL_7OPE_1081/A/2872:2877,
1/A/2890:2894		tHS double platform
homologous
IL_4WF9_108
IL_48489.1
IL_7OPE_1091/B/15:16,
1/B/63:65		Major groove intercalation
homologous
IL_7RQB_111
NA
IL_7OPE_1131/B/69:77,
1/B/95:103		Bacterial 5S Loop E
homologous
IL_7RQB_115
NA

Problematic loops

#loop idProblemSequence
IL_7OPE_001Triple sheared with non-canonical cWW
IL_7OPE_003Minor groove platform
IL_7OPE_004Kink-turn
IL_7OPE_005Single bulged A
IL_7OPE_006Single stack bend
IL_7OPE_0088x7 Sarcin-Ricin; G-bulge
IL_7OPE_009Major groove minor groove platform; mini C-loop
IL_7OPE_010No text annotation
IL_7OPE_015Double sheared
IL_7OPE_016Isolated non-canonical cWW pair
IL_7OPE_017Isolated non-canonical cWW pair
IL_7OPE_018AAA cross-strand stack
IL_7OPE_019No text annotation
IL_7OPE_021Single bulged A
IL_7OPE_022Single bulged G
IL_7OPE_023Triple sheared
IL_7OPE_024Major groove platform
IL_7OPE_026Single stack bend
IL_7OPE_0297x7 Sarcin-Ricin with intercalated A; G-bulge
IL_7OPE_030Minor groove platform
IL_7OPE_032Double sheared with non-canonical cWW
IL_7OPE_118No text annotation
IL_7OPE_116Isolated non-canonical cWW with bulges
IL_7OPE_033Tandem non-canonical cWW pairs
IL_7OPE_035Single bulged C
IL_7OPE_041Isolated non-canonical cWW pair
IL_7OPE_043No text annotation
IL_7OPE_044No text annotation
IL_7OPE_045Isolated cWS basepair
IL_7OPE_046Isolated cWH basepair
IL_7OPE_048Intercalated cWW
IL_7OPE_0498x7 Sarcin-Ricin; G-bulge
IL_7OPE_052UAA/GAN
IL_7OPE_053tSH-tHW-tHS
IL_7OPE_054Minor groove platform
IL_7OPE_055No text annotation
IL_7OPE_056Other IL
IL_7OPE_059Major groove platform
IL_7OPE_060No text annotation
IL_7OPE_061Double sheared
IL_7OPE_062No text annotation
IL_7OPE_064UAA/GAN variation
IL_7OPE_065No text annotation
IL_7OPE_066Isolated tWW turn
IL_7OPE_069tSH-tSH-tHH-tHS
IL_7OPE_070tSH-tHW-tWW
IL_7OPE_071Single bulged A
IL_7OPE_072Kink-turn related
IL_7OPE_073Minor groove platform, major groove intercalation
IL_7OPE_074Major groove intercalation
IL_7OPE_075Major groove minor groove platform; mini C-loop
IL_7OPE_076UAA/GAN with extra stack
IL_7OPE_077Triple sheared
IL_7OPE_078UAA/GAN related
IL_7OPE_079Bulged stacked bases
IL_7OPE_081Major groove platform
IL_7OPE_083Single bulged U
IL_7OPE_084Minor groove platform
IL_7OPE_086Isolated non-canonical cWW pair
IL_7OPE_087Single bulged U
IL_7OPE_088Double sheared
IL_7OPE_089Single bulged U
IL_7OPE_091Major groove platform
IL_7OPE_092Major groove platform
IL_7OPE_095Major groove platform
IL_7OPE_101Sarcin-Ricin target in LSU H95; G-bulge
IL_7OPE_102C-loop
IL_7OPE_105UAA/GAN with extra cWW
IL_7OPE_106Major groove intercalation
IL_7OPE_107No text annotation
IL_7OPE_110No text annotation
IL_7OPE_111Major groove minor groove platform; mini C-loop
IL_7OPE_112Symmetric double minor groove platform
IL_7OPE_114Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7OPE_0151/A/30:31,
1/A/521:531,
1/A/542:556		No text annotation
homologous
J3_4WF9_011
J3_17917.1
J3_7OPE_0161/A/32:35,
1/A/492:508,
1/A/515:520		No text annotation
homologous
J3_9DFE_003
J3_07616.1
J3_7OPE_0021/A/56:67,
1/A/74:76,
1/A/109:113		No text annotation
homologous
J3_4WF9_001
J3_47707.1
J3_7OPE_0031/A/272:276,
1/A/295:302,
1/A/416:417		No text annotation
homologous
J3_7RQB_003
NA
J3_7OPE_0041/A/730:736,
1/A/820:822,
1/A/838:841		No text annotation
homologous
J3_5J7L_038
NA
J3_7OPE_0071/A/1337:1342,
1/A/1670:1672,
1/A/1684:1687		No text annotation
homologous
J3_7A0S_006
J3_32852.7
J3_7OPE_0081/A/1344:1348,
1/A/1650:1656,
1/A/1665:1668		No text annotation
homologous
J3_4WF9_005
J3_68164.1
J3_7OPE_0091/A/1383:1389,
1/A/1420:1424,
1/A/1441:1442		No text annotation
homologous
J3_7RQB_009
NA
J3_7OPE_0191/A/2311:2313,
1/A/2413:2424,
1/A/2450:2456		No text annotation
homologous
J3_5J7L_070
NA
J4_7OPE_0041/A/645:648,
1/A/670:674,
1/A/681:684,
1/A/696:703		No text annotation
homologous
J4_5J7L_020
NA
J4_7OPE_0051/A/1310:1315,
1/A/1333:1334,
1/A/1690:1693,
1/A/2038:2039		No text annotation
homologous
J4_4WF9_004
J4_64571.6
J4_7OPE_0061/A/1349:1353,
1/A/1377:1382,
1/A/1443:1444,
1/A/1642:1649		No text annotation
homologous
J4_4WF9_005
J4_77353.1
J4_7OPE_0111/A/2314:2318,
1/A/2372:2376,
1/A/2399:2401,
1/A/2410:2412		No text annotation
homologous
J4_9DFE_009
J4_98139.1
J5_7OPE_0011/A/47:54,
1/A/115:120,
1/A/129:130,
1/A/149:151,
1/A/178:180		No text annotation
homologous
J5_5J7L_013
NA
J5_7OPE_0021/A/271:276,
1/A/295:302,
1/A/416:422,
1/A/446:453,
1/A/468:471		No text annotation
J5_7OPE_0041/A/628:633,
1/A/715:718,
1/A/856:859,
1/A/1236:1237,
1/A/1290:1296		No text annotation
homologous
J5_4WF9_004
J5_74302.6
J5_7OPE_0061/A/2086:2093,
1/A/2475:2482,
1/A/2529:2536,
1/A/2611:2617,
1/A/2635:2640		No text annotation
J6_7OPE_0011/A/45:46,
1/A/181:186,
1/A/217:227,
1/A/234:238,
1/A/265:269,
1/A/473:480		No text annotation
J6_7OPE_0021/A/2103:2106,
1/A/2272:2275,
1/A/2287:2288,
1/A/2310:2313,
1/A/2413:2424,
1/A/2450:2464		No text annotation
J7_7OPE_0011/A/864:869,
1/A/882:883,
1/A/989:992,
1/A/1017:1022,
1/A/1033:1037,
1/A/1209:1210,
1/A/1226:1231		No text annotation
J8_7OPE_0011/A/8:15,
1/A/571:577,
1/A/2047:2052,
1/A/2069:2072,
1/A/2654:2659,
1/A/2817:2820,
1/A/2831:2836,
1/A/2914:2919		No text annotation

Problematic loops

#loop idProblemSequence
J3_7OPE_001No text annotation
J3_7OPE_017No text annotation
J3_7OPE_005No text annotation
J3_7OPE_006No text annotation
J3_7OPE_018No text annotation
J3_7OPE_010No text annotation
J3_7OPE_011No text annotation
J3_7OPE_012No text annotation
J3_7OPE_013No text annotation
J3_7OPE_014No text annotation
J4_7OPE_001tRNA junction
J4_7OPE_002No text annotation
J4_7OPE_003No text annotation
J4_7OPE_007No text annotation
J4_7OPE_008No text annotation
J4_7OPE_009No text annotation
J4_7OPE_010No text annotation
J4_7OPE_012No text annotation
J5_7OPE_003No text annotation
J5_7OPE_005No text annotation
J5_7OPE_007No text annotation

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