RNA 3D Hub //

8C92 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8C92_0011/A/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_8C92_0021/A/86:96No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_8C92_0031/A/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.7
HL_8C92_0091/A/305:312T-loop with 2 stacked bulged bases
homologous
HL_4WF9_010
HL_13999.3
HL_8C92_0101/A/319:323No text annotation
homologous
HL_7RQB_011
NA
HL_8C92_0111/A/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_8C92_0141/A/462:467GNRA
homologous
HL_7A0S_015
HL_34789.3
HL_8C92_0151/A/487:493GNRA
homologous
HL_5J7L_148
NA
HL_8C92_0171/A/566:575No text annotation
homologous
HL_7RQB_018
NA
HL_8C92_0181/A/611:617No text annotation
homologous
HL_5J7L_151
NA
HL_8C92_0251/A/978:985No text annotation
homologous
HL_7RQB_028
NA
HL_8C92_0281/A/1222:1227GNRA
homologous
HL_7A0S_031
HL_34789.3
HL_8C92_0291/A/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_4WF9_032
HL_33597.3
HL_8C92_0301/A/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_4WF9_033
HL_49081.1
HL_8C92_0321/A/1389:1398No text annotation
homologous
HL_5J7L_168
NA
HL_8C92_0331/A/1451:1459Mini UNCG with extended bulge
homologous
HL_5J7L_169
NA
HL_8C92_0381/A/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_8C92_0401/A/1752:1756No text annotation
homologous
HL_5J7L_177
NA
HL_8C92_0421/A/2027:2036No text annotation
homologous
HL_7RQB_050
NA
HL_8C92_0451/A/2701:2706Ribsomal LSU H95
homologous
HL_7A0S_064
HL_12125.2
HL_8C92_0481/A/2819:2827No text annotation
homologous
HL_5J7L_201
NA
HL_8C92_0491/A/2856:2861No text annotation
geometric
HL_4WF9_003
HL_75660.7

Problematic loops

#loop idProblemSequence
HL_8C92_004No text annotation
HL_8C92_005No text annotation
HL_8C92_006No text annotation
HL_8C92_007No text annotation
HL_8C92_008No text annotation
HL_8C92_012No text annotation
HL_8C92_050No text annotation
HL_8C92_013No text annotation
HL_8C92_016No text annotation
HL_8C92_019No text annotation
HL_8C92_020GNRA
HL_8C92_021No text annotation
HL_8C92_022No text annotation
HL_8C92_023No text annotation
HL_8C92_024GNRA
HL_8C92_026No text annotation
HL_8C92_027Externally structured
HL_8C92_031GNRA
HL_8C92_034No text annotation
HL_8C92_035UNCG
HL_8C92_036Mini UNCG
HL_8C92_037No text annotation
HL_8C92_039No text annotation
HL_8C92_041No text annotation
HL_8C92_043No text annotation
HL_8C92_044GNRA
HL_8C92_046No text annotation
HL_8C92_051No text annotation
HL_8C92_047Mini UNCG

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8C92_0011/A/24:30,
1/A/510:516		Triple sheared with non-canonical cWW
homologous
IL_4WF9_001
IL_22311.1
IL_8C92_0021/A/36:37,
1/A/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_8C92_0031/A/43:44,
1/A/434:436		Minor groove platform
homologous
IL_5J7L_247
NA
IL_8C92_0651/A/82:85,
1/A/97:104		Kink-turn
geometric
IL_1U63_003
IL_24134.1
IL_8C92_0051/A/183:184,
1/A/212:215		No text annotation
geometric
IL_8GLP_110
IL_18824.1
IL_8C92_0061/A/188:194,
1/A/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_006
IL_62167.3
IL_8C92_0101/A/293:295,
1/A/343:347		No text annotation
homologous
IL_5J7L_254
NA
IL_8C92_0111/A/481:484,
1/A/496:509		No text annotation
homologous
IL_5J7L_255
NA
IL_8C92_0121/A/536:539,
1/A/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_8C92_0131/A/564:566,
1/A/575:577		Isolated non-canonical cWW pair
homologous
IL_4WF9_017
IL_71625.2
IL_8C92_0161/A/672:674,
1/A/806:808		Isolated non-canonical cWW pair
homologous
IL_4WF9_020
IL_01003.3
IL_8C92_0171/A/674:678,
1/A/799:806		No text annotation
IL_8C92_0201/A/850:851,
1/A/926:928		Single stack bend
homologous
IL_5J7L_269
NA
IL_8C92_0231/A/994:996,
1/A/1159:1160		Single bulged C
homologous
IL_4WF9_035
IL_05642.2
IL_8C92_0241/A/998:1002,
1/A/1153:1157		UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_8C92_0251/A/1004:1011,
1/A/1150:1151		SSU/LSU pseudoknot
geometric
IL_4WF9_037
IL_11411.1
IL_8C92_0261/A/1011:1013,
1/A/1149:1150		Single bulged U
homologous
IL_5J7L_279
NA
IL_8C92_0271/A/1018:1024,
1/A/1140:1144		Kink-turn related
homologous
IL_4WF9_039
IL_57188.6
IL_8C92_0671/A/1018:1030,
1/A/1124:1144		No text annotation
IL_8C92_0281/A/1196:1198,
1/A/1247:1250		Isolated cWS basepair
homologous
IL_7A0S_041
IL_42997.5
IL_8C92_0291/A/1202:1206,
1/A/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_8C92_0301/A/1208:1215,
1/A/1234:1238		Kink-turn
homologous
IL_5J7L_288
NA
IL_8C92_0311/A/1262:1269,
1/A/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_049
NA
IL_8C92_0321/A/1310:1313,
1/A/1603:1604		Major groove platform; stack outside cWW
homologous
IL_7RQB_050
NA
IL_8C92_0331/A/1319:1323,
1/A/1331:1333		C-loop
homologous
IL_7A0S_047
IL_06671.1
IL_8C92_0391/A/1437:1440,
1/A/1551:1555		tSH-tHW
homologous
IL_5J7L_297
NA
IL_8C92_0401/A/1450:1451,
1/A/1459:1461		Single bulged U
geometric
IL_5J7L_298
NA
IL_8C92_0411/A/1468:1471,
1/A/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_8C92_0421/A/1474:1478,
1/A/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_8C92_0701/A/1526:1529,
1/A/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
NA
IL_8C92_0461/A/1651:1656,
1/A/2004:2006		No text annotation
homologous
IL_7A0S_059
IL_12566.5
IL_8C92_0471/A/1663:1665,
1/A/1995:1997		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_8C92_0711/A/1663:1669,
1/A/1993:1997		No text annotation
IL_8C92_0721/A/1663:1674,
1/A/1990:1997		No text annotation
IL_8C92_0501/A/1712:1718,
1/A/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
NA
IL_8C92_0541/A/2636:2640,
1/A/2774:2782		tSH-tHS-tHW
homologous
IL_7RQB_102
NA
IL_8C92_0751/A/2642:2644,
1/A/2771:2772		Single stack bend
geometric
IL_7A0S_054
IL_15011.2
IL_8C92_0561/A/2680:2684,
1/A/2725:2727		C-loop
homologous
IL_7A0S_095
IL_63596.12
IL_8C92_0571/A/2687:2691,
1/A/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_8C92_0581/A/2695:2696,
1/A/2711:2714		Multiple bulged bases
homologous
IL_4WF9_103
IL_44609.2
IL_8C92_0611/A/2806:2811,
1/A/2889:2892		No text annotation
geometric
IL_5J7L_351
NA
IL_8C92_0621/A/2838:2839,
1/A/2878:2880		Major groove intercalation
homologous
IL_5J7L_352
NA
IL_8C92_0631/A/2843:2846,
1/A/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_8C92_0641/A/2847:2853,
1/A/2864:2869		No text annotation

Problematic loops

#loop idProblemSequence
IL_8C92_004No text annotation
IL_8C92_007No text annotation
IL_8C92_077No text annotation
IL_8C92_008No text annotation
IL_8C92_009No text annotation
IL_8C92_014AAA cross-strand stack
IL_8C92_015Single stack bend
IL_8C92_01890 degree turn
IL_8C92_066No text annotation
IL_8C92_019Stack outside cWW
IL_8C92_0217x7 Sarcin-Ricin with intercalated A; G-bulge
IL_8C92_022Minor groove platform
IL_8C92_034UAA/GAN
IL_8C92_068tSH-tHW-tHS
IL_8C92_035tSH-tHW-tHS-cWW
IL_8C92_036No text annotation
IL_8C92_069No text annotation
IL_8C92_037No text annotation
IL_8C92_038Tandem non-canonical cWW pairs
IL_8C92_043180 degree turn
IL_8C92_044Single bulged A
IL_8C92_045Triple sheared related
IL_8C92_048Decoding loop related
IL_8C92_049Intercalated tWH
IL_8C92_073Triple sheared
IL_8C92_051Triple sheared with non-canonical cWW
IL_8C92_052Single stack bend
IL_8C92_074No text annotation
IL_8C92_053No text annotation
IL_8C92_078Major groove platform
IL_8C92_055No text annotation
IL_8C92_059UAA/GAN with extra cWW
IL_8C92_076No text annotation
IL_8C92_079No text annotation
IL_8C92_060Single bulged A

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8C92_0011/A/30:31,
1/A/474:481,
1/A/509:510		No text annotation
homologous
J3_7RQB_001
NA
J3_8C92_0081/A/32:35,
1/A/445:461,
1/A/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_8C92_0021/A/56:57,
1/A/70:76,
1/A/110:114		No text annotation
homologous
J3_5J7L_037
NA
J3_8C92_0031/A/1298:1303,
1/A/1625:1627,
1/A/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_8C92_0051/A/1344:1349,
1/A/1382:1385,
1/A/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_8C92_0061/A/2789:2791,
1/A/2805:2806,
1/A/2892:2894		No text annotation
homologous
J3_5J7L_047
NA
J3_8C92_0071/A/2812:2815,
1/A/2831:2836,
1/A/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J4_8C92_0021/A/297:301,
1/A/316:319,
1/A/323:325,
1/A/337:341		No text annotation
homologous
J4_5J7L_019
NA
J4_8C92_0031/A/601:604,
1/A/624:628,
1/A/635:638,
1/A/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_8C92_0041/A/1270:1276,
1/A/1294:1295,
1/A/1645:1648,
1/A/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_8C92_0051/A/1310:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_8C92_0061/A/1313:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J4_8C92_0071/A/1444:1445,
1/A/1466:1467,
1/A/1525:1526,
1/A/1546:1547		No text annotation
homologous
J4_5J7L_024
NA
J4_8C92_0081/A/2644:2646,
1/A/2674:2676,
1/A/2731:2735,
1/A/2769:2771		No text annotation
J5_8C92_0011/A/47:54,
1/A/116:121,
1/A/130:131,
1/A/148:151,
1/A/175:178		No text annotation
J5_8C92_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
NA
J5_8C92_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
NA
J6_8C92_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_8C92_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_8C92_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_8C92_004No text annotation
J3_8C92_009No text annotation
J3_8C92_010No text annotation
J4_8C92_001No text annotation
J4_8C92_009No text annotation
J5_8C92_004No text annotation

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