RNA 3D Hub //

6GC7 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6GC7_0501/A/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_6GC7_0511/A/87:95No text annotation
homologous
HL_5J7L_135
NA
HL_6GC7_0031/A/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.7
HL_6GC7_0101/A/319:323No text annotation
homologous
HL_7A0S_011
HL_75660.7
HL_6GC7_0111/A/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_6GC7_0141/A/462:467GNRA
homologous
HL_4WF9_015
HL_34789.2
HL_6GC7_0151/A/485:495No text annotation
geometric
HL_8KAL_008
NA
HL_6GC7_0171/A/566:575No text annotation
geometric
HL_7RQB_033
NA
HL_6GC7_0281/A/1222:1227GNRA
homologous
HL_7A0S_031
HL_34789.2
HL_6GC7_0291/A/1280:1290No text annotation
HL_6GC7_0301/A/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_6GC7_0321/A/1389:1398No text annotation
homologous
HL_7RQB_036
NA
HL_6GC7_0331/A/1451:1459Mini UNCG with extended bulge
homologous
HL_5J7L_169
NA
HL_6GC7_0371/A/1612:1619No text annotation
geometric
HL_4WF9_038
HL_28592.1
HL_6GC7_0421/A/2027:2036No text annotation
homologous
HL_4WF9_047
HL_78372.1

Problematic loops

#loop idProblemSequence
HL_6GC7_001No text annotation
HL_6GC7_002No text annotation
HL_6GC7_004No text annotation
HL_6GC7_005No text annotation
HL_6GC7_006No text annotation
HL_6GC7_007No text annotation
HL_6GC7_008No text annotation
HL_6GC7_009T-loop with 1 bulged base
HL_6GC7_012No text annotation
HL_6GC7_013Pseudoknot geometry
HL_6GC7_016No text annotation
HL_6GC7_018No text annotation
HL_6GC7_019GNRA with extra cWW
HL_6GC7_020GNRA
HL_6GC7_052No text annotation
HL_6GC7_021No text annotation
HL_6GC7_022No text annotation
HL_6GC7_023No text annotation
HL_6GC7_024GNRA
HL_6GC7_025No text annotation
HL_6GC7_026No text annotation
HL_6GC7_027No text annotation
HL_6GC7_031GNRA
HL_6GC7_034Pseudoknot geometry with 3' bulge
HL_6GC7_035UNCG
HL_6GC7_036Mini UNCG
HL_6GC7_038No text annotation
HL_6GC7_055GNRA
HL_6GC7_053No text annotation
HL_6GC7_039No text annotation
HL_6GC7_040No text annotation
HL_6GC7_041No text annotation
HL_6GC7_043No text annotation
HL_6GC7_044GNRA
HL_6GC7_045Ribsomal LSU H95
HL_6GC7_046No text annotation
HL_6GC7_047No text annotation
HL_6GC7_048No text annotation
HL_6GC7_049No text annotation
HL_6GC7_054GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6GC7_0011/A/24:30,
1/A/510:516		Triple sheared with non-canonical cWW
geometric
IL_7RQB_001
NA
IL_6GC7_0021/A/36:37,
1/A/442:444		Single bulged A
homologous
IL_4WF9_002
IL_14190.2
IL_6GC7_0031/A/43:44,
1/A/434:436		Minor groove platform
homologous
IL_5J7L_247
NA
IL_6GC7_0051/A/188:194,
1/A/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_006
IL_62167.2
IL_6GC7_0851/A/292:295,
1/A/343:348		No text annotation
homologous
IL_7A0S_008
IL_74852.1
IL_6GC7_0091/A/293:295,
1/A/343:347		No text annotation
homologous
IL_5J7L_254
NA
IL_6GC7_0861/A/481:484,
1/A/496:509		No text annotation
geometric
IL_7A0S_009
IL_44923.1
IL_6GC7_0111/A/536:539,
1/A/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_6GC7_0121/A/564:566,
1/A/575:577		Isolated non-canonical cWW pair
homologous
IL_4WF9_017
IL_71625.2
IL_6GC7_0141/A/672:674,
1/A/806:808		Isolated non-canonical cWW pair
geometric
IL_3MEI_002
IL_01003.2
IL_6GC7_0211/A/993:996,
1/A/1159:1161		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_6GC7_0221/A/998:1002,
1/A/1153:1157		UAA/GAN
homologous
IL_4WF9_036
IL_08938.1
IL_6GC7_0241/A/1011:1013,
1/A/1149:1150		Single bulged U
geometric
IL_5J7L_279
NA
IL_6GC7_0251/A/1018:1024,
1/A/1140:1144		Kink-turn related
geometric
IL_4WF9_039
IL_57188.6
IL_6GC7_0741/A/1018:1030,
1/A/1124:1144		No text annotation
IL_6GC7_0261/A/1024:1030,
1/A/1124:1140		No text annotation
homologous
IL_5J7L_281
NA
IL_6GC7_0281/A/1202:1206,
1/A/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_6GC7_0301/A/1262:1269,
1/A/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_6GC7_0311/A/1310:1313,
1/A/1603:1604		Major groove platform; stack outside cWW
homologous
IL_7RQB_050
NA
IL_6GC7_0321/A/1319:1323,
1/A/1331:1333		C-loop
homologous
IL_5J7L_291
NA
IL_6GC7_0371/A/1417:1421,
1/A/1577:1581		UAA/GAN
homologous
IL_5J7L_295
NA
IL_6GC7_0391/A/1437:1440,
1/A/1551:1555		tSH-tHW
homologous
IL_7A0S_053
IL_74317.1
IL_6GC7_0781/A/1468:1471,
1/A/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_6GC7_0791/A/1474:1478,
1/A/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_6GC7_0801/A/1526:1529,
1/A/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
NA
IL_6GC7_0541/A/2636:2640,
1/A/2774:2782		tSH-tHS-tHW
homologous
IL_7RQB_102
NA
IL_6GC7_0571/A/2687:2691,
1/A/2718:2722		UAA/GAN related, with intercalation
homologous
IL_4WF9_102
IL_82016.1
IL_6GC7_0611/A/2806:2811,
1/A/2889:2892		No text annotation
geometric
IL_5J7L_351
NA

Problematic loops

#loop idProblemSequence
IL_6GC7_065Tandem non-canonical cWW pairs
IL_6GC7_066Minor groove platform with extra cWW
IL_6GC7_004No text annotation
IL_6GC7_067Kink-turn
IL_6GC7_0067x6 Sarcin-Ricin; G-bulge
IL_6GC7_007No text annotation
IL_6GC7_008No text annotation
IL_6GC7_068No text annotation
IL_6GC7_010No text annotation
IL_6GC7_013AAA cross-strand stack
IL_6GC7_015tHW-tHW cross-strand stack
IL_6GC7_016No text annotation
IL_6GC7_017No text annotation
IL_6GC7_069No text annotation
IL_6GC7_08790 degree turn
IL_6GC7_088No text annotation
IL_6GC7_018Stack outside cWW
IL_6GC7_019Single stack bend
IL_6GC7_070No text annotation
IL_6GC7_071No text annotation
IL_6GC7_020No text annotation
IL_6GC7_072Tandem non-canonical cWW pairs
IL_6GC7_073UAA/GAN with extra cWW
IL_6GC7_023SSU/LSU pseudoknot
IL_6GC7_027Isolated cWS basepair
IL_6GC7_029Kink-turn
IL_6GC7_075No text annotation
IL_6GC7_033Single stack bend with SAM intercalation
IL_6GC7_076UAA/GAN
IL_6GC7_034No text annotation
IL_6GC7_077No text annotation
IL_6GC7_089tSH-tHW-tHS
IL_6GC7_035tSH-tHW-tHS-cWW
IL_6GC7_036No text annotation
IL_6GC7_038Tandem non-canonical cWW pairs
IL_6GC7_040Single bulged U
IL_6GC7_041tSH-tHH-tHS
IL_6GC7_042No text annotation
IL_6GC7_043180 degree turn
IL_6GC7_044Tandem non-canonical cWW pairs
IL_6GC7_045Triple sheared related
IL_6GC7_046No text annotation
IL_6GC7_047Isolated tWW turn
IL_6GC7_048Major groove platform; stack outside cWW
IL_6GC7_081No text annotation
IL_6GC7_049Intercalated tWH
IL_6GC7_082No text annotation
IL_6GC7_0506x5 Sarcin-Ricin; G-bulge
IL_6GC7_083No text annotation
IL_6GC7_051Triple sheared with non-canonical cWW
IL_6GC7_090Triple sheared
IL_6GC7_052Major groove platform
IL_6GC7_053No text annotation
IL_6GC7_055Sarcin-Ricin target in LSU H95; G-bulge
IL_6GC7_084No text annotation
IL_6GC7_056C-loop
IL_6GC7_058Multiple bulged bases
IL_6GC7_059UAA/GAN with extra cWW
IL_6GC7_060Single bulged A
IL_6GC7_062Major groove intercalation
IL_6GC7_063Multiple bulged bases with non-canonical cWW
IL_6GC7_064tHS double platform

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6GC7_0131/A/30:32,
1/A/474:484,
1/A/496:510		No text annotation
J3_6GC7_0081/A/32:35,
1/A/445:461,
1/A/468:474		No text annotation
homologous
J3_5J7L_067
NA
J3_6GC7_0021/A/56:57,
1/A/70:76,
1/A/110:114		No text annotation
homologous
J3_5J7L_037
NA
J3_6GC7_0091/A/297:301,
1/A/316:325,
1/A/337:341		No text annotation
homologous
J3_5J7L_068
NA
J3_6GC7_0031/A/1298:1303,
1/A/1625:1627,
1/A/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_6GC7_0141/A/1306:1309,
1/A/1605:1611,
1/A/1620:1622		No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_6GC7_0151/A/1344:1349,
1/A/1382:1385,
1/A/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_6GC7_0061/A/2812:2815,
1/A/2831:2836,
1/A/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J4_6GC7_0031/A/1270:1276,
1/A/1294:1295,
1/A/1645:1648,
1/A/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_6GC7_0041/A/1310:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_6GC7_0051/A/1313:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J5_6GC7_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_6GC7_0021/A/531:533,
1/A/560:566,
1/A/575:579,
1/A/1261:1262,
1/A/2017:2018		No text annotation
J5_6GC7_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
J6_6GC7_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_6GC7_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_6GC7_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_6GC7_001No text annotation
J3_6GC7_007No text annotation
J3_6GC7_010No text annotation
J3_6GC7_004No text annotation
J3_6GC7_011No text annotation
J3_6GC7_012No text annotation
J3_6GC7_005No text annotation
J4_6GC7_001No text annotation
J4_6GC7_002No text annotation
J4_6GC7_006No text annotation
J4_6GC7_007No text annotation
J5_6GC7_004No text annotation

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