RNA 3D Hub //

8C94 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8C94_0011/A/59:68No text annotation
homologous
HL_5J7L_134
HL_35677.3
HL_8C94_0021/A/87:95No text annotation
homologous
HL_5J7L_135
HL_80241.1
HL_8C94_0031/A/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_8C94_0041/A/136:143UNCG variation
geometric
HL_1P6V_001
HL_53890.2
HL_8C94_0051/A/158:168No text annotation
homologous
HL_5J7L_138
HL_68257.1
HL_8C94_0061/A/194:201No text annotation
geometric
HL_361D_002
HL_13963.3
HL_8C94_0071/A/225:230No text annotation
homologous
HL_5J7L_140
HL_62934.1
HL_8C94_0081/A/246:252No text annotation
homologous
HL_7RQB_008
NA
HL_8C94_0091/A/305:312T-loop with 2 stacked bulged bases
homologous
HL_4WF9_010
HL_01609.3
HL_8C94_0101/A/319:323No text annotation
homologous
HL_7RQB_011
NA
HL_8C94_0111/A/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
HL_27670.2
HL_8C94_0121/A/382:392No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_8C94_0131/A/410:417Pseudoknot geometry
homologous
HL_7A0S_014
HL_30680.3
HL_8C94_0141/A/462:467No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_8C94_0151/A/487:493GNRA
homologous
HL_5J7L_148
HL_37824.7
HL_8C94_0161/A/543:550No text annotation
homologous
HL_7RQB_017
NA
HL_8C94_0171/A/566:575T-loop with 2 stacked bulged bases
geometric
HL_1U0B_003
HL_28252.8
HL_8C94_0181/A/611:617No text annotation
homologous
HL_5J7L_151
HL_80922.2
HL_8C94_0191/A/629:634GNRA
homologous
HL_4WF9_020
HL_37824.7
HL_8C94_0201/A/641:647No text annotation
homologous
HL_7RQB_021
NA
HL_8C94_0481/A/826:831No text annotation
homologous
HL_5J7L_157
HL_55195.3
HL_8C94_0241/A/955:962GNRA
homologous
HL_7A0S_026
HL_37824.7
HL_8C94_0251/A/978:985No text annotation
homologous
HL_7A0S_027
HL_42998.2
HL_8C94_0271/A/1172:1177Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_8C94_0281/A/1222:1227GNRA
homologous
HL_5J7L_164
HL_37824.7
HL_8C94_0291/A/1281:1289No text annotation
homologous
HL_7RQB_033
NA
HL_8C94_0311/A/1630:1636GNRA
homologous
HL_5J7L_174
HL_37824.7
HL_8C94_0331/A/2027:2036No text annotation
homologous
HL_4WF9_047
HL_61996.2
HL_8C94_0341/A/2264:2276No text annotation
homologous
HL_7A0S_053
HL_91939.2
HL_8C94_0351/A/2303:2313No text annotation
homologous
HL_5J7L_188
NA
HL_8C94_0361/A/2324:2331Pseudoknot geometry
homologous
HL_7RQB_056
NA
HL_8C94_0371/A/2356:2361GNRA
homologous
HL_5J7L_190
HL_37824.7
HL_8C94_0381/A/2374:2379GNRA
homologous
HL_5J7L_191
HL_37824.7
HL_8C94_0391/A/2404:2413No text annotation
homologous
HL_7A0S_058
HL_53454.2
HL_8C94_0401/A/2658:2663GNRA
geometric
HL_6JDV_001
HL_37824.7
HL_8C94_0411/A/2701:2706Ribsomal LSU H95
homologous
HL_4WF9_061
HL_65794.5
HL_8C94_0421/A/2745:2759No text annotation
homologous
HL_7RQB_066
NA
HL_8C94_0431/A/2796:2799Mini UNCG
geometric
HL_4V88_192
NA
HL_8C94_0441/A/2819:2827No text annotation
homologous
HL_7RQB_068
NA
HL_8C94_0451/A/2856:2861GNRA
homologous
HL_7A0S_068
HL_37824.7
HL_8C94_0461/B/38:44No text annotation
homologous
HL_5J7L_203
HL_47787.2
HL_8C94_0471/B/86:90Mini UNCG
homologous
HL_5J7L_204
HL_48778.2

Problematic loops

#loop idProblemSequence
HL_8C94_021No text annotation
HL_8C94_022No text annotation
HL_8C94_023Externally structured
HL_8C94_026No text annotation
HL_8C94_030No text annotation
HL_8C94_032No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8C94_0011/A/2:3,
1/A/2900:2902		Single stack bend
geometric
IL_4WF9_089
IL_26793.1
IL_8C94_0021/A/24:30,
1/A/510:516		Triple sheared with non-canonical cWW
homologous
IL_7RQB_001
NA
IL_8C94_0031/A/36:37,
1/A/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_8C94_0041/A/43:44,
1/A/434:436		Minor groove platform
homologous
IL_5J7L_247
IL_51454.3
IL_8C94_0591/A/82:85,
1/A/97:104		No text annotation
IL_8C94_0061/A/183:184,
1/A/212:215		No text annotation
IL_8C94_0071/A/188:194,
1/A/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_006
IL_04346.10
IL_8C94_0081/A/239:245,
1/A/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_007
NA
IL_8C94_0091/A/269:271,
1/A/366:370		No text annotation
homologous
IL_5J7L_252
IL_47972.1
IL_8C94_0101/A/273:275,
1/A/363:364		Single stack bend
geometric
IL_5TBW_009
NA
IL_8C94_0601/A/273:281,
1/A/359:364		No text annotation
IL_8C94_0111/A/275:281,
1/A/359:363		No text annotation
IL_8C94_0121/A/293:295,
1/A/343:347		No text annotation
homologous
IL_5J7L_254
IL_69440.3
IL_8C94_0131/A/481:484,
1/A/496:509		No text annotation
geometric
IL_7A0S_009
IL_81516.2
IL_8C94_0141/A/536:539,
1/A/554:557		Double sheared
homologous
IL_5J7L_256
IL_09705.15
IL_8C94_0151/A/564:566,
1/A/575:577		Isolated non-canonical cWW pair
homologous
IL_4WF9_017
IL_07785.1
IL_8C94_0161/A/606:610,
1/A/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
IL_66798.2
IL_8C94_0171/A/672:674,
1/A/806:808		Isolated non-canonical cWW pair
geometric
IL_5TBW_027
NA
IL_8C94_0181/A/674:678,
1/A/799:806		tHW-tHW cross-strand stack
homologous
IL_7RQB_018
NA
IL_8C94_0191/A/844:847,
1/A/933:934		Other IL
homologous
IL_5J7L_267
IL_90729.1
IL_8C94_0611/A/844:848,
1/A/930:934		No text annotation
geometric
IL_5J7L_399
IL_96236.1
IL_8C94_0201/A/847:848,
1/A/930:933		Multiple bulged bases
geometric
IL_5XWP_001
IL_82107.4
IL_8C94_0211/A/850:851,
1/A/926:928		Single stack bend
homologous
IL_5J7L_269
IL_26793.1
IL_8C94_0221/A/854:856,
1/A/922:923		Single stack bend
geometric
IL_5TBW_375
NA
IL_8C94_0231/A/857:862,
1/A/915:921		5x5 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_7A0S_027
NA
IL_8C94_0241/A/862:863,
1/A/913:915		Single bulged G
homologous
IL_5J7L_271
IL_00225.13
IL_8C94_0251/A/864:868,
1/A/909:912		C-loop
homologous
IL_7RQB_029
NA
IL_8C94_0261/A/870:872,
1/A/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
IL_28037.2
IL_8C94_0271/A/994:996,
1/A/1159:1160		Single bulged C
homologous
IL_7RQB_035
NA
IL_8C94_0281/A/998:1002,
1/A/1153:1157		UAA/GAN
homologous
IL_7A0S_033
IL_38507.2
IL_8C94_0291/A/1004:1011,
1/A/1150:1151		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_41203.4
IL_8C94_0301/A/1011:1013,
1/A/1149:1150		Single bulged U
geometric
IL_5J7L_279
IL_89505.4
IL_8C94_0311/A/1018:1024,
1/A/1140:1144		Kink-turn related
geometric
IL_4WF9_039
IL_57188.5
IL_8C94_0331/A/1031:1034,
1/A/1121:1123		Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_8C94_0341/A/1196:1198,
1/A/1247:1250		Isolated cWS basepair
homologous
IL_7A0S_041
IL_42997.3
IL_8C94_0351/A/1202:1206,
1/A/1240:1243		No text annotation
homologous
IL_5J7L_287
IL_91920.1
IL_8C94_0621/A/1208:1215,
1/A/1234:1238		Kink-turn
homologous
IL_5J7L_288
IL_70923.9
IL_8C94_0371/A/1262:1269,
1/A/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
IL_04346.10
IL_8C94_0381/A/1651:1656,
1/A/2004:2006		No text annotation
homologous
IL_5J7L_304
IL_12566.4
IL_8C94_0391/A/2050:2052,
1/A/2617:2618		Major groove platform
homologous
IL_5J7L_320
IL_48076.6
IL_8C94_0401/A/2053:2057,
1/A/2611:2616		No text annotation
IL_8C94_0411/A/2350:2353,
1/A/2364:2367		Double sheared
homologous
IL_5J7L_333
IL_09705.15
IL_8C94_0421/A/2401:2403,
1/A/2414:2415		No text annotation
IL_8C94_0431/A/2636:2640,
1/A/2774:2782		tSH-tHS-tHW
homologous
IL_7RQB_102
NA
IL_8C94_0441/A/2652:2658,
1/A/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_7A0S_094
IL_16458.4
IL_8C94_0451/A/2680:2684,
1/A/2725:2727		C-loop
homologous
IL_5J7L_347
IL_63596.11
IL_8C94_0461/A/2687:2691,
1/A/2718:2722		No text annotation
homologous
IL_4WF9_102
IL_23774.1
IL_8C94_0471/A/2695:2696,
1/A/2711:2714		Multiple bulged bases
homologous
IL_5J7L_349
IL_42626.2
IL_8C94_0481/A/2737:2742,
1/A/2762:2767		UAA/GAN with extra cWW
homologous
IL_7A0S_098
IL_49767.8
IL_8C94_0491/A/2795:2796,
1/A/2799:2801		Single bulged A
geometric
IL_4V9F_025
IL_31462.6
IL_8C94_0501/A/2806:2811,
1/A/2889:2892		No text annotation
geometric
IL_5J7L_351
IL_29471.1
IL_8C94_0511/A/2838:2839,
1/A/2878:2880		Major groove intercalation
homologous
IL_4WF9_106
IL_66635.5
IL_8C94_0521/A/2843:2846,
1/A/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
IL_64231.5
IL_8C94_0631/A/2847:2852,
1/A/2865:2869		tHS double platform
homologous
IL_5J7L_354
IL_70411.2
IL_8C94_0541/B/17:18,
1/B/65:67		Major groove intercalation
homologous
IL_4WF9_112
IL_31462.6
IL_8C94_0551/B/23:28,
1/B/56:60		No text annotation
homologous
IL_5J7L_356
IL_18472.4
IL_8C94_0641/B/30:31,
1/B/51:54		No text annotation
homologous
IL_8OI5_136
IL_15052.4
IL_8C94_0571/B/34:38,
1/B/44:48		Symmetric double minor groove platform
geometric
IL_5J7L_358
IL_58103.11
IL_8C94_0581/B/71:79,
1/B/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
IL_56455.6

Problematic loops

#loop idProblemSequence
IL_8C94_005No text annotation
IL_8C94_032No text annotation
IL_8C94_036No text annotation
IL_8C94_053No text annotation
IL_8C94_056No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8C94_0011/A/30:31,
1/A/474:481,
1/A/509:510		No text annotation
homologous
J3_5J7L_036
J3_60031.2
J3_8C94_0091/A/32:35,
1/A/445:461,
1/A/468:473		No text annotation
homologous
J3_5J7L_067
J3_30040.2
J3_8C94_0021/A/56:57,
1/A/70:76,
1/A/110:114		No text annotation
homologous
J3_5J7L_037
J3_35667.2
J3_8C94_0031/A/1298:1303,
1/A/1625:1629,
1/A/1637:1642		No text annotation
J3_8C94_0041/A/2282:2284,
1/A/2384:2395,
1/A/2421:2427		No text annotation
homologous
J3_9DFE_015
J3_20992.1
J3_8C94_0051/A/2295:2299,
1/A/2317:2323,
1/A/2332:2337		No text annotation
homologous
J3_5J7L_071
J3_44961.1
J3_8C94_0061/A/2789:2791,
1/A/2805:2806,
1/A/2892:2894		No text annotation
homologous
J3_5J7L_047
J3_30104.1
J3_8C94_0071/A/2812:2815,
1/A/2831:2836,
1/A/2882:2888		No text annotation
homologous
J3_5J7L_048
J3_64069.1
J3_8C94_0101/B/10:16,
1/B/68:70,
1/B/106:110		No text annotation
homologous
J3_5J7L_049
J3_89095.1
J4_8C94_0011/A/268:269,
1/A/370:375,
1/A/399:406,
1/A/421:424		No text annotation
homologous
J4_5J7L_018
J4_45801.6
J4_8C94_0021/A/297:301,
1/A/316:319,
1/A/323:325,
1/A/337:341		No text annotation
homologous
J4_5J7L_019
J4_71729.5
J4_8C94_0031/A/601:604,
1/A/624:628,
1/A/635:638,
1/A/650:656		No text annotation
homologous
J4_5J7L_020
J4_60168.1
J4_8C94_0041/A/2285:2289,
1/A/2343:2347,
1/A/2370:2372,
1/A/2381:2383		No text annotation
homologous
J4_9DFE_009
J4_04930.6
J4_8C94_0051/A/2643:2646,
1/A/2674:2676,
1/A/2731:2735,
1/A/2769:2771		No text annotation
homologous
J4_5J7L_028
J4_77044.4
J5_8C94_0041/A/47:54,
1/A/116:121,
1/A/130:131,
1/A/148:151,
1/A/175:178		No text annotation
J5_8C94_0021/A/531:533,
1/A/560:564,
1/A/577:579,
1/A/1261:1262,
1/A/2017:2018		No text annotation
homologous
J5_5J7L_014
J5_43153.5
J5_8C94_0031/A/584:589,
1/A/668:671,
1/A/809:812,
1/A/1195:1196,
1/A/1250:1256		No text annotation
homologous
J5_5J7L_015
J5_74302.5
J6_8C94_0011/A/45:46,
1/A/179:183,
1/A/215:224,
1/A/231:235,
1/A/262:266,
1/A/426:433		No text annotation
J7_8C94_0011/A/8:15,
1/A/525:531,
1/A/2018:2023,
1/A/2040:2043,
1/A/2625:2630,
1/A/2788:2789,
1/A/2894:2895		No text annotation
J7_8C94_0021/A/817:822,
1/A/835:838,
1/A/940:946,
1/A/971:976,
1/A/987:991,
1/A/1163:1164,
1/A/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_8C94_008No text annotation
J5_8C94_001No text annotation

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