RNA 3D Hub //

7A0S Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7A0S_0011/X/58:67Pseudoknot with intercalation
HL_17803.1
HL_7A0S_0021/X/85:95No text annotation
HL_31940.1
HL_7A0S_0031/X/121:126No text annotation
HL_82710.3
HL_7A0S_0041/X/133:138No text annotation
HL_93535.2
HL_7A0S_0051/X/146:151GNRA
HL_34789.1
HL_7A0S_0061/X/171:178No text annotation
HL_48677.1
HL_7A0S_0071/X/202:207No text annotation
HL_51020.1
HL_7A0S_0081/X/223:229No text annotation
HL_76371.1
HL_7A0S_0751/X/253:266No text annotation
HL_50765.1
HL_7A0S_0091/X/254:265No text annotation
HL_39533.1
HL_7A0S_0101/X/316:323T-loop with 1 bulged base
HL_13999.1
HL_7A0S_0111/X/330:334No text annotation
HL_75660.6
HL_7A0S_0121/X/338:346T-loop with unstacked turn
HL_27670.3
HL_7A0S_0131/X/395:405No text annotation
HL_91503.8
HL_7A0S_0141/X/423:430Pseudoknot geometry
HL_30680.4
HL_7A0S_0151/X/473:478GNRA
HL_34789.1
HL_7A0S_0161/X/498:503GNRA
HL_34789.1
HL_7A0S_0171/X/553:558Mini UNCG with extended bulge
HL_90436.1
HL_7A0S_0181/X/575:584T-loop with 2 stacked bulged bases
HL_33597.1
HL_7A0S_0191/X/622:627No text annotation
HL_13184.1
HL_7A0S_0201/X/640:645GNRA
HL_34789.1
HL_7A0S_0211/X/651:658No text annotation
HL_73884.1
HL_7A0S_0221/X/757:766No text annotation
HL_50204.1
HL_7A0S_0231/X/792:798UNCG variation
HL_51020.1
HL_7A0S_0241/X/839:844No text annotation
HL_27530.1
HL_7A0S_0261/X/966:973GNRA
HL_34789.1
HL_7A0S_0271/X/989:996No text annotation
HL_47171.1
HL_7A0S_0281/X/1074:1087No text annotation
HL_63355.1
HL_7A0S_0291/X/1103:1110GNRA related
HL_91620.1
HL_7A0S_0311/X/1235:1240GNRA
HL_34789.1
HL_7A0S_0321/X/1294:1302T-loop with 2 stacked bulged bases
HL_33597.1
HL_7A0S_0331/X/1337:1343Pseudoknot geometry with 3' bulge
HL_49081.1
HL_7A0S_0341/X/1376:1381GNRA variation
HL_34789.1
HL_7A0S_0351/X/1402:1411No text annotation
HL_77449.1
HL_7A0S_0361/X/1466:1476Pseudoknot
HL_00824.1
HL_7A0S_0721/X/1503:1517No text annotation
HL_60848.1
HL_7A0S_0371/X/1508:1514No text annotation
HL_39243.1
HL_7A0S_0391/X/1581:1584Mini UNCG
HL_90436.1
HL_7A0S_0401/X/1628:1635No text annotation
HL_28592.1
HL_7A0S_0731/X/1647:1652Pseudoknot geometry with 3' bulge
HL_49081.1
HL_7A0S_0421/X/1708:1713UNCG
HL_61337.1
HL_7A0S_0441/X/1743:1747No text annotation
HL_80709.4
HL_7A0S_0451/X/1767:1779No text annotation
HL_50951.1
HL_7A0S_0461/X/1797:1803GNRA
HL_93535.2
HL_7A0S_0471/X/1856:1861GNRA
HL_34789.1
HL_7A0S_0481/X/1932:1940No text annotation
HL_61418.1
HL_7A0S_0491/X/2010:2019No text annotation
HL_78372.1
HL_7A0S_0511/X/2188:2196No text annotation
HL_38046.1
HL_7A0S_0521/X/2227:2235No text annotation
HL_11974.1
HL_7A0S_0531/X/2243:2255No text annotation
HL_02042.1
HL_7A0S_0761/X/2283:2291No text annotation
HL_02452.1
HL_7A0S_0551/X/2303:2310Pseudoknot geometry
HL_52651.1
HL_7A0S_0561/X/2334:2341GNRA with extra cWW
HL_45359.1
HL_7A0S_0571/X/2353:2358GNRA
HL_34789.1
HL_7A0S_0581/X/2383:2392No text annotation
HL_51853.1
HL_7A0S_0591/X/2450:2458No text annotation
HL_52011.1
HL_7A0S_0601/X/2507:2514GNRA variation
HL_46665.1
HL_7A0S_0611/X/2530:2536No text annotation
HL_48677.1
HL_7A0S_0621/X/2573:2578GNRA
HL_34789.1
HL_7A0S_0631/X/2637:2642GNRA
HL_34789.1
HL_7A0S_0641/X/2680:2685Ribsomal LSU H95
HL_12125.1
HL_7A0S_0651/X/2725:2739No text annotation
HL_53269.1
HL_7A0S_0671/X/2794:2802No text annotation
HL_37889.1
HL_7A0S_0681/X/2831:2836GNRA
HL_34789.1
HL_7A0S_0691/Y/40:46No text annotation
HL_59381.1
HL_7A0S_0701/Y/88:93GNRA
HL_34789.1

Problematic loops

#loop idProblemSequence
HL_7A0S_071No text annotation
HL_7A0S_025No text annotation
HL_7A0S_030No text annotation
HL_7A0S_038No text annotation
HL_7A0S_041No text annotation
HL_7A0S_043No text annotation
HL_7A0S_050No text annotation
HL_7A0S_054No text annotation
HL_7A0S_074No text annotation
HL_7A0S_066No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7A0S_0011/X/24:30,
1/X/520:526		Triple sheared with non-canonical cWW
IL_22311.1
IL_7A0S_0021/X/36:37,
1/X/454:456		Single bulged A
IL_14190.1
IL_7A0S_0031/X/42:43,
1/X/447:449		Minor groove platform
IL_34520.1
IL_7A0S_0041/X/80:84,
1/X/96:103		Kink-turn
IL_94910.1
IL_7A0S_0051/X/160:161,
1/X/189:191		Single stack bend
IL_15011.1
IL_7A0S_0061/X/165:171,
1/X/178:185		8x7 Sarcin-Ricin; G-bulge
IL_62167.1
IL_7A0S_0071/X/215:222,
1/X/230:236		8x7 Sarcin-Ricin; G-bulge
IL_62167.1
IL_7A0S_0081/X/303:306,
1/X/354:359		No text annotation
IL_05192.6
IL_7A0S_0091/X/492:495,
1/X/506:519		No text annotation
IL_44923.1
IL_7A0S_0101/X/552:553,
1/X/558:560		Single bulged C
IL_05642.1
IL_7A0S_0111/X/573:575,
1/X/584:586		Isolated non-canonical cWW pair
IL_71625.1
IL_7A0S_0121/X/600:602,
1/X/678:679		Single bulged A
IL_14190.1
IL_7A0S_0131/X/616:620,
1/X/629:633		AAA cross-strand stack
IL_66798.3
IL_7A0S_0141/X/685:687,
1/X/819:821		Isolated non-canonical cWW pair
IL_01003.1
IL_7A0S_0151/X/687:691,
1/X/812:819		tHW-tHW cross-strand stack
IL_73855.1
IL_7A0S_0161/X/710:711,
1/X/776:778		Single bulged A
IL_14190.1
IL_7A0S_0171/X/715:716,
1/X/741:743		Single bulged G
IL_28408.1
IL_7A0S_0181/X/716:721,
1/X/736:741		Triple sheared with non-canonical cWW
IL_57885.1
IL_7A0S_0191/X/751:754,
1/X/769:771		Major groove platform with extra cWW
IL_36931.1
IL_7A0S_0201/X/754:756,
1/X/767:769		Isolated non-canonical cWW pair
IL_01003.1
IL_7A0S_0211/X/788:790,
1/X/800:804		Multiple bulged bases
IL_89509.1
IL_7A0S_0221/X/850:851,
1/X/951:953		Single stack bend
IL_15011.1
IL_7A0S_0231/X/857:860,
1/X/944:945		Major groove platform; stack outside cWW
IL_74641.1
IL_7A0S_0241/X/860:861,
1/X/942:944		90 degree turn
IL_79144.1
IL_7A0S_0251/X/863:864,
1/X/938:940		Single bulged C
IL_05642.1
IL_7A0S_0261/X/864:866,
1/X/936:938		Isolated non-canonical cWW pair
IL_01003.1
IL_7A0S_1111/X/871:875,
1/X/927:931		5x5 Sarcin-Ricin with intercalated A; G-bulge
IL_38862.5
IL_7A0S_0281/X/875:876,
1/X/925:927		Minor groove platform
IL_34520.1
IL_7A0S_0291/X/877:881,
1/X/921:924		C-loop
IL_16301.1
IL_7A0S_0301/X/883:885,
1/X/917:919		Isolated near basepair
IL_42997.4
IL_7A0S_0311/X/963:965,
1/X/974:976		Isolated non-canonical cWW pair
IL_01003.1
IL_7A0S_0321/X/1005:1007,
1/X/1170:1171		Single bulged C
IL_05642.1
IL_7A0S_0331/X/1009:1013,
1/X/1164:1168		UAA/GAN
IL_08938.1
IL_7A0S_0341/X/1015:1022,
1/X/1161:1162		SSU/LSU pseudoknot
IL_11411.1
IL_7A0S_0351/X/1022:1024,
1/X/1160:1161		Single bulged U
IL_97561.1
IL_7A0S_0361/X/1029:1035,
1/X/1150:1155		Kink-turn related
IL_57188.6
IL_7A0S_0371/X/1035:1041,
1/X/1135:1150		No text annotation
IL_50715.4
IL_7A0S_0381/X/1042:1045,
1/X/1132:1134		Isolated non-canonical cWW pair
IL_30229.1
IL_7A0S_0391/X/1070:1074,
1/X/1087:1091		No text annotation
IL_16218.3
IL_7A0S_0401/X/1175:1178,
1/X/1196:1199		Tandem non-canonical cWW pairs
IL_71194.1
IL_7A0S_0411/X/1210:1212,
1/X/1260:1263		Isolated cWS basepair
IL_42997.4
IL_7A0S_0421/X/1218:1220,
1/X/1252:1254		Isolated non-canonical cWW pair
IL_01003.1
IL_7A0S_0431/X/1221:1228,
1/X/1247:1251		Kink-turn
IL_90775.1
IL_7A0S_0441/X/1232:1234,
1/X/1241:1243		Intercalated cWW
IL_61702.1
IL_7A0S_0451/X/1275:1282,
1/X/1994:2000		8x7 Sarcin-Ricin; G-bulge
IL_62167.1
IL_7A0S_0461/X/1323:1326,
1/X/1619:1620		Major groove platform; stack outside cWW
IL_74641.1
IL_7A0S_0471/X/1332:1336,
1/X/1344:1346		C-loop
IL_06671.1
IL_7A0S_0481/X/1364:1368,
1/X/1389:1393		UAA/GAN
IL_89021.3
IL_7A0S_0491/X/1370:1374,
1/X/1383:1387		tSH-tHW-tHS
IL_05821.1
IL_7A0S_0501/X/1426:1430,
1/X/1598:1605		Kink-turn
IL_69229.4
IL_7A0S_0511/X/1431:1435,
1/X/1593:1597		UAA/GAN
IL_08938.1
IL_7A0S_1081/X/1431:1436,
1/X/1592:1597		UAA/GAN with extra cWW
IL_91079.1
IL_7A0S_0521/X/1447:1449,
1/X/1573:1576		No text annotation
IL_38565.1
IL_7A0S_0531/X/1451:1454,
1/X/1567:1571		tSH-tHW
IL_74317.1
IL_7A0S_0541/X/1463:1465,
1/X/1477:1478		Single stack bend
IL_15011.1
IL_7A0S_0551/X/1488:1490,
1/X/1534:1535		Single bulged C
IL_05642.1
IL_7A0S_0561/X/1491:1495,
1/X/1529:1533		Double sheared with near cWW
IL_87767.1
IL_7A0S_0581/X/1503:1508,
1/X/1514:1517		No text annotation
IL_36661.1
IL_7A0S_0591/X/1668:1673,
1/X/1987:1989		No text annotation
IL_12566.5
IL_7A0S_0601/X/1680:1682,
1/X/1978:1980		Isolated tWW turn
IL_10432.1
IL_7A0S_0611/X/1683:1686,
1/X/1976:1977		Major groove platform; stack outside cWW
IL_74641.1
IL_7A0S_1091/X/1683:1691,
1/X/1973:1977		No text annotation
IL_80252.1
IL_7A0S_0621/X/1686:1691,
1/X/1973:1976		Intercalated tWH
IL_28217.1
IL_7A0S_0631/X/1703:1708,
1/X/1713:1719		tSH-tSH-tHH-tHS
IL_20700.1
IL_7A0S_0641/X/1761:1762,
1/X/1963:1965		Single bulged A
IL_14190.1
IL_7A0S_0651/X/1789:1795,
1/X/1805:1813		Kink-turn related
IL_17069.6
IL_7A0S_0661/X/1829:1832,
1/X/1885:1886		Minor groove platform, major groove intercalation
IL_73108.1
IL_7A0S_0671/X/1833:1834,
1/X/1881:1884		Major groove intercalation
IL_78536.1
IL_7A0S_0681/X/1838:1841,
1/X/1876:1877		Major groove minor groove platform; mini C-loop
IL_73108.1
IL_7A0S_0691/X/1843:1847,
1/X/1870:1874		UAA/GAN with extra stack
IL_89021.3
IL_7A0S_0701/X/1848:1852,
1/X/1865:1869		Triple sheared
IL_15190.1
IL_7A0S_0711/X/1916:1917,
1/X/1947:1950		Bulged stacked bases
IL_24886.1
IL_7A0S_0721/X/1917:1928,
1/X/1944:1947		No text annotation
IL_04332.3
IL_7A0S_0731/X/2033:2035,
1/X/2596:2597		Major groove platform
IL_48076.7
IL_7A0S_0741/X/2037:2040,
1/X/2590:2594		No text annotation
IL_70335.1
IL_7A0S_0751/X/2050:2052,
1/X/2421:2422		Single bulged U
IL_97561.1
IL_7A0S_0761/X/2053:2054,
1/X/2417:2420		Minor groove platform
IL_34520.1
IL_7A0S_0771/X/2064:2066,
1/X/2215:2218		Isolated tHS basepair with bulges
IL_87316.1
IL_7A0S_0781/X/2068:2070,
1/X/2211:2213		Isolated non-canonical cWW pair
IL_71625.1
IL_7A0S_0791/X/2186:2187,
1/X/2197:2199		Single bulged U
IL_97561.1
IL_7A0S_0801/X/2276:2278,
1/X/2296:2300		Isolated tHS basepair with bulges
IL_14250.1
IL_7A0S_0811/X/2329:2332,
1/X/2343:2346		Double sheared
IL_58355.1
IL_7A0S_0821/X/2380:2382,
1/X/2393:2394		Major groove platform
IL_48076.7
IL_7A0S_0831/X/2432:2433,
1/X/2477:2479		Single stack bend
IL_15011.1
IL_7A0S_0841/X/2433:2434,
1/X/2475:2477		Major groove platform
IL_48076.7
IL_7A0S_0851/X/2436:2438,
1/X/2472:2473		Major groove platform
IL_48076.7
IL_7A0S_0861/X/2438:2440,
1/X/2468:2472		Major groove minor groove platform with extra cWW
IL_36931.1
IL_7A0S_0871/X/2445:2449,
1/X/2459:2463		Double sheared with non-canonical cWW
IL_87767.1
IL_7A0S_0881/X/2486:2487,
1/X/2559:2561		Major groove platform
IL_46637.1
IL_7A0S_0891/X/2489:2491,
1/X/2553:2557		Isolated non-canonical cWW with bulges
IL_68118.1
IL_7A0S_0901/X/2491:2492,
1/X/2550:2553		Multiple bulged bases
IL_44609.1
IL_7A0S_0911/X/2501:2502,
1/X/2519:2522		Major groove platform with intercalation
IL_94991.1
IL_7A0S_0921/X/2570:2572,
1/X/2579:2582		Other IL
IL_10892.1
IL_7A0S_0931/X/2615:2619,
1/X/2754:2762		tSH-tHS-tHW
IL_04638.4
IL_7A0S_0941/X/2631:2637,
1/X/2642:2647		Sarcin-Ricin target in LSU H95; G-bulge
IL_16458.5
IL_7A0S_0951/X/2659:2663,
1/X/2705:2707		C-loop
IL_63596.12
IL_7A0S_0961/X/2666:2670,
1/X/2698:2702		UAA/GAN related, with intercalation
IL_82016.1
IL_7A0S_0971/X/2674:2675,
1/X/2690:2694		Multiple bulged bases
IL_44609.1
IL_7A0S_0981/X/2717:2722,
1/X/2742:2747		UAA/GAN with extra cWW
IL_91079.1
IL_7A0S_0991/X/2813:2814,
1/X/2853:2855		Major groove intercalation
IL_28408.1
IL_7A0S_1001/X/2818:2820,
1/X/2846:2849		Decoding loop related
IL_05502.1
IL_7A0S_1011/X/2822:2827,
1/X/2840:2844		No text annotation
IL_48489.1
IL_7A0S_1121/Y/19:21,
1/Y/66:69		Isolated non-canonical cWW with bulges
IL_68118.1
IL_7A0S_1031/Y/25:30,
1/Y/58:62		No text annotation
IL_18472.5
IL_7A0S_1041/Y/32:35,
1/Y/51:56		No text annotation
IL_05192.6
IL_7A0S_1131/Y/36:40,
1/Y/46:50		No text annotation
IL_58103.12
IL_7A0S_1061/Y/73:81,
1/Y/100:108		Bacterial 5S Loop E
IL_71138.1
IL_7A0S_1071/Y/82:84,
1/Y/97:99		Isolated non-canonical cWW pair
IL_71625.1

Problematic loops

#loop idProblemSequence
IL_7A0S_0275x5 Sarcin-Ricin with intercalated A; G-bulge
IL_7A0S_057No text annotation
IL_7A0S_102Major groove platform with intercalation
IL_7A0S_110No text annotation
IL_7A0S_105No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7A0S_0011/X/30:31,
1/X/485:492,
1/X/519:520		No text annotation
J3_68715.1
J3_7A0S_0151/X/30:31,
1/X/485:495,
1/X/506:520		No text annotation
J3_17917.1
J3_7A0S_0161/X/32:35,
1/X/457:472,
1/X/479:484		No text annotation
J3_07616.1
J3_7A0S_0021/X/55:56,
1/X/69:75,
1/X/108:112		No text annotation
J3_01004.1
J3_7A0S_0031/X/246:250,
1/X/269:276,
1/X/382:383		No text annotation
J3_97971.2
J3_7A0S_0041/X/696:702,
1/X/786:788,
1/X/804:807		No text annotation
J3_46658.1
J3_7A0S_0051/X/711:713,
1/X/745:749,
1/X/773:776		No text annotation
J3_69816.1
J3_7A0S_0221/X/1054:1070,
1/X/1091:1102,
1/X/1111:1123		No text annotation
J3_13378.1
J3_7A0S_0061/X/1311:1316,
1/X/1641:1643,
1/X/1656:1659		No text annotation
J3_32852.7
J3_7A0S_0071/X/1319:1322,
1/X/1621:1627,
1/X/1636:1638		No text annotation
J3_47341.1
J3_7A0S_0181/X/1357:1363,
1/X/1394:1398,
1/X/1415:1416		No text annotation
J3_94309.1
J3_7A0S_0191/X/1438:1443,
1/X/1580:1581,
1/X/1584:1590		No text annotation
J3_34864.3
J3_7A0S_0091/X/2074:2076,
1/X/2179:2183,
1/X/2202:2207		No text annotation
J3_17460.1
J3_7A0S_0201/X/2261:2263,
1/X/2363:2374,
1/X/2400:2406		No text annotation
J3_04772.1
J3_7A0S_0101/X/2274:2276,
1/X/2300:2302,
1/X/2311:2316		No text annotation
J3_05327.1
J3_7A0S_0111/X/2496:2499,
1/X/2524:2526,
1/X/2540:2546		No text annotation
J3_32601.6
J3_7A0S_0121/X/2769:2771,
1/X/2781:2786,
1/X/2864:2868		No text annotation
J3_20574.1
J3_7A0S_0131/X/2789:2790,
1/X/2806:2811,
1/X/2857:2861		No text annotation
J3_76911.2
J3_7A0S_0211/Y/12:18,
1/Y/70:71,
1/Y/110:113		No text annotation
J3_47324.1
J4_7A0S_0011/X/245:246,
1/X/383:388,
1/X/412:419,
1/X/434:437		No text annotation
J4_94698.1
J4_7A0S_0021/X/308:312,
1/X/327:330,
1/X/334:336,
1/X/348:352		No text annotation
J4_16174.1
J4_7A0S_0031/X/611:614,
1/X/635:639,
1/X/646:650,
1/X/659:669		No text annotation
J4_98739.1
J4_7A0S_0041/X/1283:1289,
1/X/1307:1308,
1/X/1662:1665,
1/X/1992:1993		No text annotation
J4_64571.6
J4_7A0S_0051/X/1323:1327,
1/X/1351:1356,
1/X/1417:1418,
1/X/1613:1620		No text annotation
J4_77353.1
J4_7A0S_0061/X/1326:1327,
1/X/1351:1356,
1/X/1417:1418,
1/X/1613:1619		No text annotation
J4_48150.1
J4_7A0S_0071/X/1458:1460,
1/X/1481:1482,
1/X/1541:1545,
1/X/1558:1563		No text annotation
J4_91813.1
J4_7A0S_0081/X/1763:1767,
1/X/1779:1783,
1/X/1819:1822,
1/X/1958:1962		No text annotation
J4_61477.6
J4_7A0S_0091/X/2264:2268,
1/X/2322:2326,
1/X/2349:2351,
1/X/2360:2362		No text annotation
J4_98139.1
J4_7A0S_0101/X/2622:2625,
1/X/2653:2655,
1/X/2711:2716,
1/X/2748:2751		No text annotation
J4_54165.1
J5_7A0S_0011/X/46:53,
1/X/114:119,
1/X/128:129,
1/X/142:143,
1/X/154:155		No text annotation
J5_75459.1
J5_7A0S_0021/X/245:250,
1/X/269:276,
1/X/382:388,
1/X/412:419,
1/X/434:437		No text annotation
J5_31814.5
J5_7A0S_0031/X/541:543,
1/X/569:573,
1/X/586:588,
1/X/1274:1275,
1/X/2000:2001		No text annotation
J5_43153.6
J5_7A0S_0041/X/593:598,
1/X/681:684,
1/X/822:825,
1/X/1209:1210,
1/X/1263:1269		No text annotation
J5_74302.6
J5_7A0S_0051/X/1691:1699,
1/X/1723:1724,
1/X/1742:1743,
1/X/1747:1755,
1/X/1971:1973		No text annotation
J5_99177.1
J5_7A0S_0061/X/2040:2047,
1/X/2425:2432,
1/X/2479:2486,
1/X/2561:2567,
1/X/2585:2590		No text annotation
J5_15259.1
J5_7A0S_0071/X/2057:2060,
1/X/2222:2225,
1/X/2237:2238,
1/X/2260:2261,
1/X/2406:2414		No text annotation
J5_39529.2
J6_7A0S_0011/X/44:45,
1/X/156:160,
1/X/191:201,
1/X/208:212,
1/X/239:244,
1/X/438:446		No text annotation
J6_46180.1
J6_7A0S_0021/X/2057:2060,
1/X/2222:2225,
1/X/2237:2238,
1/X/2260:2263,
1/X/2363:2374,
1/X/2400:2414		No text annotation
J6_64525.2
J7_7A0S_0011/X/8:15,
1/X/535:541,
1/X/2001:2006,
1/X/2023:2026,
1/X/2604:2609,
1/X/2768:2769,
1/X/2868:2869		No text annotation
J7_30280.5
J7_7A0S_0021/X/830:835,
1/X/848:849,
1/X/954:957,
1/X/982:987,
1/X/998:1002,
1/X/1174:1175,
1/X/1199:1204		No text annotation
J7_21233.6

Problematic loops

#loop idProblemSequence
J3_7A0S_017No text annotation
J3_7A0S_008No text annotation
J3_7A0S_014No text annotation

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