RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5JCS_0011/x/90:96No text annotation
homologous
HL_8C3A_003
NA
HL_5JCS_0021/x/132:136No text annotation
homologous
HL_5TBW_004
NA
HL_5JCS_0621/x/193:202No text annotation
HL_5JCS_0041/x/216:225No text annotation
HL_5JCS_0051/x/277:288No text annotation
HL_5JCS_0061/x/300:315No text annotation
HL_5JCS_0631/x/379:390No text annotation
HL_5JCS_0071/x/381:389Anticodon loop related
geometric
HL_5T83_002
HL_06059.7
HL_5JCS_0081/x/531:561No text annotation
HL_5JCS_0091/x/599:604GNRA
homologous
HL_8P9A_125
HL_37824.8
HL_5JCS_0101/x/686:694No text annotation
homologous
HL_8C3A_015
NA
HL_5JCS_0651/x/730:740No text annotation
HL_5JCS_0111/x/732:737GNRA
geometric
HL_1G1X_003
HL_37824.8
HL_5JCS_0121/x/758:773No text annotation
HL_5JCS_0131/x/844:849GNRA
homologous
HL_8C3A_019
NA
HL_5JCS_0141/x/876:885No text annotation
geometric
HL_6DTD_001
HL_48417.6
HL_5JCS_0151/x/910:918No text annotation
homologous
HL_8C3A_021
NA
HL_5JCS_0161/x/958:963No text annotation
HL_5JCS_0171/x/1020:1033No text annotation
HL_5JCS_0671/x/1073:1085No text annotation
HL_5JCS_0811/x/1118:1140No text annotation
HL_5JCS_0191/x/1125:1133No text annotation
HL_5JCS_0201/x/1147:1156No text annotation
HL_5JCS_0211/x/1232:1256No text annotation
HL_5JCS_0221/x/1267:1274No text annotation
HL_5JCS_0231/x/1342:1362No text annotation
HL_5JCS_0241/x/1403:1408GNRA
homologous
HL_5TBW_030
NA
HL_5JCS_0251/x/1461:1471No text annotation
geometric
HL_4WF9_011
HL_75660.5
HL_5JCS_0261/x/1500:1516No text annotation
HL_5JCS_0271/x/1544:1549GNRA variation
homologous
HL_8C3A_033
NA
HL_5JCS_0281/x/1564:1576No text annotation
HL_5JCS_0291/x/1597:1610No text annotation
HL_5JCS_0301/x/1679:1689tRNA D-loop
geometric
HL_6UFG_006
HL_23115.1
HL_5JCS_0311/x/1719:1725No text annotation
homologous
HL_5TBW_038
NA
HL_5JCS_0321/x/1861:1869GNRA wlth extra near cWW
geometric
HL_5J7L_012
HL_81538.2
HL_5JCS_0331/x/1923:1928UNCG
homologous
HL_5TBW_043
NA
HL_5JCS_0711/x/2008:2013No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_5JCS_0351/x/2065:2071No text annotation
geometric
HL_8C3A_039
NA
HL_5JCS_0361/x/2134:2146No text annotation
HL_5JCS_0371/x/2163:2171GNRA wlth tandem sheared
geometric
HL_4WF9_004
HL_81538.2
HL_5JCS_0721/x/2203:2239No text annotation
HL_5JCS_0381/x/2217:2229No text annotation
HL_5JCS_0391/x/2253:2263No text annotation
geometric
HL_5TBW_012
NA
HL_5JCS_0401/x/2292:2300No text annotation
homologous
HL_8C3A_050
NA
HL_5JCS_0411/x/2567:2574No text annotation
HL_5JCS_0421/x/2672:2682No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_5JCS_0741/x/2724:2732No text annotation
HL_5JCS_0821/x/2744:2749GNRA
homologous
HL_8CRE_058
HL_37824.8
HL_5JCS_0761/x/2767:2791No text annotation
geometric
HL_5TBW_226
NA
HL_5JCS_0451/x/2770:2788No text annotation
HL_5JCS_0461/x/2831:2857No text annotation
HL_5JCS_0471/x/2895:2906No text annotation
HL_5JCS_0481/x/2918:2928No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_5JCS_0491/x/2963:2968GNRA
homologous
HL_5TBW_064
NA
HL_5JCS_0501/x/3025:3030GNRA
homologous
HL_5TBW_065
NA
HL_5JCS_0771/x/3054:3088No text annotation
HL_5JCS_0511/x/3065:3076No text annotation
HL_5JCS_0521/x/3102:3133No text annotation
HL_5JCS_0531/x/3193:3199No text annotation
geometric
HL_5J7L_018
HL_37344.1
HL_5JCS_0541/x/3240:3247No text annotation
geometric
HL_4WF9_011
HL_75660.5
HL_5JCS_0831/x/3323:3384No text annotation
HL_5JCS_0551/x/3338:3366No text annotation
HL_5JCS_0561/y/47:56Pseudoknot geometry
geometric
HL_4GXY_003
HL_65794.5
HL_5JCS_0571/y/69:89No text annotation
homologous
HL_8P9A_187
HL_51921.1
HL_5JCS_0581/y/108:114No text annotation
homologous
HL_8C3A_076
NA
HL_5JCS_0591/y/123:130No text annotation
geometric
HL_2B3J_001
HL_80922.2
HL_5JCS_0601/z/32:45No text annotation
geometric
HL_5TBW_238
NA
HL_5JCS_0611/z/88:93GNRA
homologous
HL_5TBW_186
NA

Problematic loops

#loop idProblemSequence
HL_5JCS_003No text annotation
HL_5JCS_064No text annotation
HL_5JCS_066No text annotation
HL_5JCS_018No text annotation
HL_5JCS_068No text annotation
HL_5JCS_069No text annotation
HL_5JCS_070No text annotation
HL_5JCS_034No text annotation
HL_5JCS_073No text annotation
HL_5JCS_043No text annotation
HL_5JCS_044No text annotation
HL_5JCS_075GNRA with extra cWW
HL_5JCS_078No text annotation
HL_5JCS_079No text annotation
HL_5JCS_080No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5JCS_0011/x/379:381,
1/x/389:390		Single stack bend with SAM intercalation
geometric
IL_2QWY_008
IL_90729.1
IL_5JCS_0021/x/429:431,
1/x/628:630		Isolated non-canonical cWW pair
homologous
IL_5TBW_016
NA
IL_5JCS_0791/x/435:508,
1/x/583:624		No text annotation
IL_5JCS_0031/x/512:516,
1/x/574:579		No text annotation
IL_5JCS_0801/x/512:526,
1/x/566:579		No text annotation
IL_5JCS_0041/x/516:525,
1/x/568:574		No text annotation
IL_5JCS_0051/x/525:526,
1/x/566:568		Single stack bend
geometric
IL_5J7L_032
IL_26793.1
IL_5JCS_0551/x/668:670,
1/x/792:794		Isolated non-canonical cWW pair
homologous
IL_8C3A_023
NA
IL_5JCS_0811/x/723:730,
1/x/740:747		No text annotation
IL_5JCS_0071/x/724:730,
1/x/740:746		No text annotation
IL_5JCS_0081/x/730:732,
1/x/737:740		No text annotation
geometric
IL_4V9F_053
IL_09990.4
IL_5JCS_0091/x/755:757,
1/x/774:777		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
IL_57744.1
IL_5JCS_0821/x/803:809,
1/x/931:940		No text annotation
IL_5JCS_0831/x/813:821,
1/x/904:927		No text annotation
IL_5JCS_0841/x/832:840,
1/x/853:862		No text annotation
IL_5JCS_0111/x/868:873,
1/x/887:891		No text annotation
IL_5JCS_0601/x/873:875,
1/x/886:887		Single bulged U
homologous
IL_8C3A_035
NA
IL_5JCS_0851/x/977:1071,
1/x/1087:1104		No text annotation
IL_5JCS_0131/x/1117:1125,
1/x/1133:1141		No text annotation
IL_5JCS_0621/x/1162:1180,
1/x/1325:1337		No text annotation
IL_5JCS_0631/x/1180:1186,
1/x/1320:1325		No text annotation
geometric
IL_5TBW_476
NA
IL_5JCS_0641/x/1186:1266,
1/x/1275:1320		No text annotation
IL_5JCS_0141/x/1376:1381,
1/x/1425:1431		No text annotation
IL_5JCS_0861/x/1385:1387,
1/x/1420:1421		Single bulged A
homologous
IL_8CRE_062
IL_31462.7
IL_5JCS_0871/x/1387:1395,
1/x/1415:1420		Kink-turn
geometric
IL_6HCT_001
IL_64900.1
IL_5JCS_0171/x/1398:1400,
1/x/1411:1412		Single bulged A
homologous
IL_5TBW_060
NA
IL_5JCS_0651/x/1537:1563,
1/x/1577:1584		No text annotation
IL_5JCS_0181/x/1616:1621,
1/x/1824:1828		No text annotation
IL_5JCS_0881/x/1653:1659,
1/x/1790:1802		No text annotation
IL_5JCS_0191/x/1661:1665,
1/x/1784:1788		No text annotation
geometric
IL_5TBW_121
NA
IL_5JCS_0891/x/1661:1671,
1/x/1776:1788		No text annotation
IL_5JCS_0201/x/1665:1671,
1/x/1776:1784		No text annotation
IL_5JCS_0211/x/1702:1708,
1/x/1736:1743		No text annotation
IL_5JCS_0901/x/1711:1718,
1/x/1726:1733		Kink-turn
geometric
IL_3U4M_004
IL_70923.9
IL_5JCS_0231/x/1916:1923,
1/x/1928:1936		No text annotation
IL_5JCS_0241/x/1981:1983,
1/x/2038:2041		No text annotation
IL_5JCS_0251/x/1987:1991,
1/x/2030:2034		No text annotation
IL_5JCS_0911/x/1987:1997,
1/x/2024:2034		No text annotation
IL_5JCS_0261/x/1991:2001,
1/x/2020:2030		No text annotation
IL_5JCS_0271/x/2152:2163,
1/x/2171:2184		No text annotation
IL_5JCS_0281/x/2204:2206,
1/x/2237:2238		Single bulged U
homologous
IL_8P9A_314
IL_89505.4
IL_5JCS_0291/x/2206:2210,
1/x/2235:2237		No text annotation
IL_5JCS_0301/x/2210:2217,
1/x/2229:2235		No text annotation
IL_5JCS_0311/x/2277:2290,
1/x/2302:2307		No text annotation
IL_5JCS_0921/x/2423:2427,
1/x/2603:2607		No text annotation
IL_5JCS_0931/x/2427:2565,
1/x/2576:2603		No text annotation
IL_5JCS_0941/x/2719:2721,
1/x/2735:2738		No text annotation
IL_5JCS_0341/x/2879:2881,
1/x/2943:2947		Isolated non-canonical cWW with bulges
geometric
IL_7RQB_097
NA
IL_5JCS_0351/x/2881:2883,
1/x/2939:2943		Single stack bend with SAM intercalation
geometric
IL_2QWY_008
IL_90729.1
IL_5JCS_0951/x/2885:2916,
1/x/2930:2937		No text annotation
IL_5JCS_0361/x/2959:2961,
1/x/2970:2973		Decoding loop related
geometric
IL_2O3X_003
IL_31737.3
IL_5JCS_0721/x/3015:3017,
1/x/3038:3039		Single stack bend
geometric
IL_7MLX_001
IL_90729.1
IL_5JCS_0731/x/3017:3025,
1/x/3030:3038		No text annotation
IL_5JCS_0371/x/3045:3046,
1/x/3095:3097		Single stack bend
geometric
IL_7MLX_001
IL_90729.1
IL_5JCS_0961/x/3047:3052,
1/x/3090:3094		No text annotation
IL_5JCS_0391/x/3054:3060,
1/x/3083:3088		No text annotation
IL_5JCS_0401/x/3063:3065,
1/x/3076:3080		Isolated non-canonical cWW pair
geometric
IL_5UNE_006
IL_87907.2
IL_5JCS_0411/x/3161:3168,
1/x/3283:3289		No text annotation
IL_5JCS_0421/x/3222:3233,
1/x/3254:3263		No text annotation
IL_5JCS_0751/x/3222:3239,
1/x/3248:3263		No text annotation
IL_5JCS_0431/x/3233:3235,
1/x/3252:3254		Isolated non-canonical cWW pair
homologous
IL_8P9A_354
IL_87907.2
IL_5JCS_0441/x/3235:3238,
1/x/3249:3252		Tandem non-canonical cWW pairs
geometric
IL_4K27_001
IL_85033.2
IL_5JCS_0761/x/3298:3320,
1/x/3387:3390		No text annotation
IL_5JCS_0461/x/3323:3331,
1/x/3372:3384		No text annotation
IL_5JCS_0471/x/3331:3338,
1/x/3366:3372		No text annotation
IL_5JCS_0481/y/66:69,
1/y/89:93		No text annotation
geometric
IL_4PHY_003
IL_99358.1
IL_5JCS_0491/z/20:26,
1/z/57:59		No text annotation
IL_5JCS_0771/z/20:31,
1/z/46:59		No text annotation
IL_5JCS_0501/z/26:31,
1/z/46:57		No text annotation
IL_5JCS_0971/z/72:87,
1/z/94:106		No text annotation
IL_5JCS_0511/z/82:87,
1/z/94:98		No text annotation

Problematic loops

#loop idProblemSequence
IL_5JCS_052No text annotation
IL_5JCS_053No text annotation
IL_5JCS_054No text annotation
IL_5JCS_006Tandem non-canonical cWW pairs
IL_5JCS_056No text annotation
IL_5JCS_057Tandem non-canonical cWW pairs
IL_5JCS_010No text annotation
IL_5JCS_058No text annotation
IL_5JCS_059No text annotation
IL_5JCS_012No text annotation
IL_5JCS_061No text annotation
IL_5JCS_015Isolated non-canonical cWW pair
IL_5JCS_016No text annotation
IL_5JCS_066No text annotation
IL_5JCS_067No text annotation
IL_5JCS_068No text annotation
IL_5JCS_022No text annotation
IL_5JCS_069No text annotation
IL_5JCS_032No text annotation
IL_5JCS_070No text annotation
IL_5JCS_033No text annotation
IL_5JCS_071No text annotation
IL_5JCS_074No text annotation
IL_5JCS_038No text annotation
IL_5JCS_045No text annotation
IL_5JCS_078No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5JCS_0121/x/169:192,
1/x/203:215,
1/x/226:253		No text annotation
J3_5JCS_0131/x/673:721,
1/x/749:754,
1/x/778:789		No text annotation
J3_5JCS_0011/x/812:821,
1/x/904:910,
1/x/918:928		No text annotation
J3_5JCS_0021/x/828:832,
1/x/862:868,
1/x/891:897		No text annotation
J3_5JCS_0061/x/828:832,
1/x/862:873,
1/x/887:897		No text annotation
J3_5JCS_0071/x/1477:1485,
1/x/1857:1859,
1/x/1871:1876		No text annotation
J3_5JCS_0141/x/1488:1536,
1/x/1585:1649,
1/x/1806:1854		No text annotation
J3_5JCS_0151/x/1674:1677,
1/x/1691:1698,
1/x/1747:1773		No text annotation
J3_5JCS_0161/x/3161:3188,
1/x/3204:3220,
1/x/3265:3289		No text annotation
J3_5JCS_0041/z/8:18,
1/z/61:69,
1/z/109:113		No text annotation
J4_5JCS_0011/x/2391:2414,
1/x/2807:2883,
1/x/2939:2961,
1/x/2970:2988		No text annotation
J4_5JCS_0021/x/3004:3014,
1/x/3040:3046,
1/x/3095:3102,
1/x/3133:3144		No text annotation
J6_5JCS_0041/x/947:956,
1/x/965:970,
1/x/1111:1117,
1/x/1141:1161,
1/x/1338:1339,
1/x/1365:1372		No text annotation
J6_5JCS_0021/x/1883:1923,
1/x/1928:1981,
1/x/2041:2062,
1/x/2074:2201,
1/x/2241:2290,
1/x/2302:2349		No text annotation
J6_5JCS_0051/x/2414:2422,
1/x/2608:2672,
1/x/2682:2717,
1/x/2740:2742,
1/x/2751:2766,
1/x/2792:2807		No text annotation

Problematic loops

#loop idProblemSequence
J3_5JCS_005No text annotation
J3_5JCS_003No text annotation
J3_5JCS_008No text annotation
J3_5JCS_009No text annotation
J3_5JCS_010No text annotation
J3_5JCS_011No text annotation
J6_5JCS_001No text annotation
J6_5JCS_003No text annotation

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