RNA 3D Hub //

6GC6 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6GC6_0011/A/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_6GC6_0021/A/87:95No text annotation
homologous
HL_5J7L_135
NA
HL_6GC6_0031/A/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.7
HL_6GC6_0101/A/319:323No text annotation
homologous
HL_7A0S_011
HL_75660.7
HL_6GC6_0111/A/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_6GC6_0221/A/744:753No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_6GC6_0301/A/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_7A0S_032
HL_33597.2
HL_6GC6_0331/A/1389:1398No text annotation
homologous
HL_4WF9_035
HL_77449.1
HL_6GC6_0341/A/1451:1459No text annotation
geometric
HL_6U8D_003
HL_32346.6
HL_6GC6_0371/A/1565:1568Mini UNCG
homologous
HL_5J7L_172
NA
HL_6GC6_0561/A/1628:1638No text annotation
HL_6GC6_0461/A/2027:2036No text annotation
homologous
HL_4WF9_047
HL_78372.1

Problematic loops

#loop idProblemSequence
HL_6GC6_004No text annotation
HL_6GC6_005No text annotation
HL_6GC6_006No text annotation
HL_6GC6_007No text annotation
HL_6GC6_008No text annotation
HL_6GC6_009T-loop with 2 stacked bulged bases
HL_6GC6_012No text annotation
HL_6GC6_013Pseudoknot geometry
HL_6GC6_014GNRA
HL_6GC6_015GNRA
HL_6GC6_016No text annotation
HL_6GC6_017No text annotation
HL_6GC6_018No text annotation
HL_6GC6_019GNRA
HL_6GC6_020No text annotation
HL_6GC6_021GNRA wlth tandem sheared
HL_6GC6_054No text annotation
HL_6GC6_023UNCG variation
HL_6GC6_024No text annotation
HL_6GC6_025No text annotation
HL_6GC6_026GNRA
HL_6GC6_027No text annotation
HL_6GC6_028No text annotation
HL_6GC6_060No text annotation
HL_6GC6_029GNRA
HL_6GC6_055No text annotation
HL_6GC6_031Pseudoknot geometry with 3' bulge
HL_6GC6_032GNRA
HL_6GC6_035Pseudoknot geometry with 3' bulge
HL_6GC6_036UNCG
HL_6GC6_038No text annotation
HL_6GC6_039GNRA
HL_6GC6_040UNCG
HL_6GC6_057No text annotation
HL_6GC6_041No text annotation
HL_6GC6_042No text annotation
HL_6GC6_058No text annotation
HL_6GC6_061No text annotation
HL_6GC6_043No text annotation
HL_6GC6_059No text annotation
HL_6GC6_044GNRA related
HL_6GC6_045No text annotation
HL_6GC6_047No text annotation
HL_6GC6_048GNRA
HL_6GC6_049Ribsomal LSU H95
HL_6GC6_050No text annotation
HL_6GC6_051Mini UNCG
HL_6GC6_052No text annotation
HL_6GC6_053GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6GC6_0021/A/36:37,
1/A/442:444		Single bulged A
homologous
IL_4WF9_002
IL_14190.2
IL_6GC6_0721/A/82:85,
1/A/97:104		No text annotation
IL_6GC6_0051/A/188:194,
1/A/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_7A0S_006
IL_62167.2
IL_6GC6_0091/A/292:295,
1/A/343:348		No text annotation
IL_6GC6_0111/A/536:539,
1/A/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_6GC6_0121/A/564:566,
1/A/575:577		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_01003.2
IL_6GC6_0131/A/606:610,
1/A/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
NA
IL_6GC6_0191/A/737:740,
1/A/757:759		No text annotation
geometric
IL_6DME_003
IL_75527.2
IL_6GC6_0201/A/775:777,
1/A/787:791		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_6GC6_0271/A/998:1002,
1/A/1153:1157		UAA/GAN
homologous
IL_4WF9_036
IL_08938.1
IL_6GC6_0281/A/1004:1011,
1/A/1150:1151		SSU/LSU pseudoknot
geometric
IL_5J7L_278
NA
IL_6GC6_0301/A/1018:1024,
1/A/1140:1144		Kink-turn related
homologous
IL_4WF9_039
IL_57188.6
IL_6GC6_0321/A/1196:1198,
1/A/1247:1250		Isolated cWS basepair
homologous
IL_5J7L_286
NA
IL_6GC6_0351/A/1262:1269,
1/A/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_6GC6_0371/A/1319:1323,
1/A/1331:1333		C-loop
homologous
IL_5J7L_291
NA
IL_6GC6_0381/A/1351:1355,
1/A/1376:1380		UAA/GAN
homologous
IL_7A0S_048
IL_89021.3
IL_6GC6_0411/A/1417:1421,
1/A/1577:1581		UAA/GAN
homologous
IL_5J7L_295
NA
IL_6GC6_0421/A/1432:1435,
1/A/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
NA
IL_6GC6_0431/A/1437:1440,
1/A/1551:1555		tSH-tHW
homologous
IL_7A0S_053
IL_74317.1
IL_6GC6_0451/A/1468:1471,
1/A/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_6GC6_0511/A/1663:1665,
1/A/1995:1997		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_6GC6_0831/A/1666:1674,
1/A/1990:1994		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_6GC6_0531/A/1669:1674,
1/A/1990:1993		Intercalated tWH
geometric
IL_4WF9_065
IL_28217.1
IL_6GC6_0611/A/2636:2640,
1/A/2774:2782		tSH-tHS-tHW
homologous
IL_7RQB_102
NA
IL_6GC6_0641/A/2687:2691,
1/A/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_6GC6_0651/A/2695:2696,
1/A/2711:2714		Multiple bulged bases
homologous
IL_4WF9_103
IL_44609.2
IL_6GC6_0681/A/2806:2811,
1/A/2889:2892		No text annotation
geometric
IL_5J7L_351
NA
IL_6GC6_0701/A/2843:2846,
1/A/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_6GC6_0711/A/2847:2852,
1/A/2865:2869		tHS double platform
homologous
IL_7RQB_110
NA

Problematic loops

#loop idProblemSequence
IL_6GC6_001Triple sheared with non-canonical cWW
IL_6GC6_003Minor groove platform with extra cWW
IL_6GC6_086Minor groove platform
IL_6GC6_004No text annotation
IL_6GC6_0067x6 Sarcin-Ricin; G-bulge
IL_6GC6_007No text annotation
IL_6GC6_008No text annotation
IL_6GC6_073No text annotation
IL_6GC6_010No text annotation
IL_6GC6_074No text annotation
IL_6GC6_014No text annotation
IL_6GC6_015tHW-tHW cross-strand stack
IL_6GC6_016Single bulged A
IL_6GC6_017Single bulged G
IL_6GC6_075No text annotation
IL_6GC6_018Triple sheared
IL_6GC6_02190 degree turn
IL_6GC6_076No text annotation
IL_6GC6_022Stack outside cWW
IL_6GC6_023Single stack bend
IL_6GC6_077No text annotation
IL_6GC6_0247x7 Sarcin-Ricin with intercalated A; G-bulge
IL_6GC6_078No text annotation
IL_6GC6_025Single bulged G
IL_6GC6_026Isolated non-canonical cWW pair
IL_6GC6_087Single bulged C
IL_6GC6_079UAA/GAN with extra cWW
IL_6GC6_029Single bulged U
IL_6GC6_031No text annotation
IL_6GC6_033No text annotation
IL_6GC6_034Kink-turn
IL_6GC6_036Major groove platform; stack outside cWW
IL_6GC6_080No text annotation
IL_6GC6_039tSH-tHW-tHS
IL_6GC6_040No text annotation
IL_6GC6_044Single bulged U
IL_6GC6_081tSH-tHW-tHS
IL_6GC6_046tSH-tHW-tHS-cWW
IL_6GC6_047180 degree turn
IL_6GC6_048Single bulged A
IL_6GC6_082UAA/GAN variation
IL_6GC6_049Triple sheared related
IL_6GC6_050No text annotation
IL_6GC6_052Major groove platform; stack outside cWW
IL_6GC6_054tSH-tSH-tHH-tHS
IL_6GC6_084No text annotation
IL_6GC6_0556x5 Sarcin-Ricin; G-bulge
IL_6GC6_085No text annotation
IL_6GC6_056No text annotation
IL_6GC6_088Triple sheared
IL_6GC6_057Single stack bend
IL_6GC6_058Kink-turn related
IL_6GC6_059Major groove platform
IL_6GC6_060No text annotation
IL_6GC6_062Sarcin-Ricin target in LSU H95; G-bulge
IL_6GC6_063C-loop
IL_6GC6_066UAA/GAN with extra cWW
IL_6GC6_067Single bulged A
IL_6GC6_069Major groove intercalation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6GC6_0091/A/297:301,
1/A/316:325,
1/A/337:341		No text annotation
homologous
J3_5J7L_068
NA
J3_6GC6_0021/A/683:689,
1/A/773:775,
1/A/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_6GC6_0101/A/1306:1309,
1/A/1605:1611,
1/A/1620:1622		No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_6GC6_0061/A/1344:1349,
1/A/1382:1385,
1/A/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_6GC6_0081/A/2812:2815,
1/A/2831:2836,
1/A/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J4_6GC6_0011/A/30:35,
1/A/445:461,
1/A/468:481,
1/A/509:510		No text annotation
J4_6GC6_0021/A/30:35,
1/A/445:461,
1/A/468:484,
1/A/496:510		No text annotation
J4_6GC6_0041/A/297:301,
1/A/316:319,
1/A/323:325,
1/A/337:341		No text annotation
homologous
J4_5J7L_019
NA
J4_6GC6_0061/A/1270:1276,
1/A/1294:1295,
1/A/1645:1648,
1/A/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_6GC6_0071/A/1310:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_6GC6_0081/A/1313:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J5_6GC6_0011/A/47:54,
1/A/116:121,
1/A/130:131,
1/A/148:150,
1/A/176:178		No text annotation
homologous
J5_5J7L_013
NA
J5_6GC6_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_6GC6_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_7A0S_004
J5_74302.6
J5_6GC6_0041/A/1674:1682,
1/A/1706:1707,
1/A/1751:1752,
1/A/1756:1764,
1/A/1988:1990		No text annotation
homologous
J5_5J7L_016
NA
J6_6GC6_0011/A/45:46,
1/A/179:184,
1/A/212:224,
1/A/231:235,
1/A/262:266,
1/A/426:433		No text annotation
J7_6GC6_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

Problematic loops

#loop idProblemSequence
J3_6GC6_001No text annotation
J3_6GC6_003No text annotation
J3_6GC6_004No text annotation
J3_6GC6_005No text annotation
J3_6GC6_011No text annotation
J3_6GC6_012No text annotation
J3_6GC6_007No text annotation
J4_6GC6_003No text annotation
J4_6GC6_005No text annotation
J4_6GC6_009No text annotation
J4_6GC6_010No text annotation
J4_6GC6_011No text annotation
J7_6GC6_002No text annotation

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