RNA 3D Hub //

7QGN Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7QGN_0011/0/12:22No text annotation
homologous
HL_5J7L_001
NA
HL_7QGN_0131/0/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.7
HL_7QGN_0161/0/726:731GNRA
homologous
HL_5J7L_016
NA
HL_7QGN_0191/0/862:867GNRA
homologous
HL_5J7L_019
NA
HL_7QGN_0201/0/897:902GNRA
homologous
HL_4LFB_020
HL_34789.2
HL_7QGN_0211/0/963:972No text annotation
homologous
HL_5J7L_021
NA
HL_7QGN_0241/0/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_7QGN_0251/0/1089:1096T-loop related
homologous
HL_4LFB_025
HL_63894.2
HL_7QGN_0321/0/1515:1520GNRA
homologous
HL_6CZR_103
NA
HL_7QGN_0361/M/12:22No text annotation
homologous
HL_1SER_001
NA
HL_7QGN_0371/M/30:38tRNA anticodon loop
homologous
HL_6UFM_002
HL_81376.2
HL_7QGN_0391/N/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_7QGN_0441/N/194:201No text annotation
geometric
HL_5J7L_139
NA
HL_7QGN_0521/N/462:467GNRA
homologous
HL_4WF9_015
HL_34789.2
HL_7QGN_0551/N/566:575T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_7QGN_0601/N/744:753No text annotation
homologous
HL_7A0S_022
HL_50204.1
HL_7QGN_0611/N/779:785UNCG variation
homologous
HL_7A0S_023
HL_51020.2
HL_7QGN_0621/N/826:831No text annotation
homologous
HL_5J7L_157
NA
HL_7QGN_0781/N/1612:1619No text annotation
homologous
HL_7RQB_040
NA
HL_7QGN_0831/N/1777:1787No text annotation
homologous
HL_5J7L_178
NA

Problematic loops

#loop idProblemSequence
HL_7QGN_002No text annotation
HL_7QGN_113No text annotation
HL_7QGN_003GNRA
HL_7QGN_004GNRA
HL_7QGN_005No text annotation
HL_7QGN_006GNRA related
HL_7QGN_007GNRA
HL_7QGN_008No text annotation
HL_7QGN_009UNCG
HL_7QGN_010GNRA
HL_7QGN_011UNCG
HL_7QGN_012GNRA wlth extra near cWW
HL_7QGN_014GNRA-like with tWH
HL_7QGN_015No text annotation
HL_7QGN_017No text annotation
HL_7QGN_018Externally structured
HL_7QGN_022No text annotation
HL_7QGN_110No text annotation
HL_7QGN_023No text annotation
HL_7QGN_026No text annotation
HL_7QGN_027GNRA
HL_7QGN_028GNRA
HL_7QGN_029T-loop with 3 stacked bulged bases
HL_7QGN_030No text annotation
HL_7QGN_031UNCG
HL_7QGN_033No text annotation
HL_7QGN_034tRNA anticodon loop
HL_7QGN_035T-loop with 2 stacked bulged bases
HL_7QGN_038T-loop with 2 stacked bulged bases
HL_7QGN_040No text annotation
HL_7QGN_041No text annotation
HL_7QGN_042No text annotation
HL_7QGN_043No text annotation
HL_7QGN_045No text annotation
HL_7QGN_046No text annotation
HL_7QGN_047T-loop with 1 bulged base
HL_7QGN_048No text annotation
HL_7QGN_049T-loop with unstacked turn
HL_7QGN_050No text annotation
HL_7QGN_051Pseudoknot geometry
HL_7QGN_053GNRA
HL_7QGN_054No text annotation
HL_7QGN_056No text annotation
HL_7QGN_057GNRA
HL_7QGN_058No text annotation
HL_7QGN_059GNRA wlth tandem sheared
HL_7QGN_063No text annotation
HL_7QGN_064GNRA
HL_7QGN_065No text annotation
HL_7QGN_066No text annotation
HL_7QGN_067GNRA wlth tandem sheared
HL_7QGN_068No text annotation
HL_7QGN_069GNRA
HL_7QGN_070T-loop with 2 stacked bulged bases
HL_7QGN_071Pseudoknot geometry with 3' bulge
HL_7QGN_072GNRA
HL_7QGN_073No text annotation
HL_7QGN_074Mini UNCG with extended bulge
HL_7QGN_075Pseudoknot geometry with 3' bulge
HL_7QGN_076UNCG
HL_7QGN_077No text annotation
HL_7QGN_079GNRA
HL_7QGN_080No text annotation
HL_7QGN_081No text annotation
HL_7QGN_082No text annotation
HL_7QGN_084GNRA related
HL_7QGN_085GNRA variation
HL_7QGN_086No text annotation
HL_7QGN_087No text annotation
HL_7QGN_088No text annotation
HL_7QGN_089No text annotation
HL_7QGN_090No text annotation
HL_7QGN_091No text annotation
HL_7QGN_092No text annotation
HL_7QGN_093No text annotation
HL_7QGN_111No text annotation
HL_7QGN_094Pseudoknot geometry
HL_7QGN_095GNRA
HL_7QGN_096GNRA
HL_7QGN_097No text annotation
HL_7QGN_098No text annotation
HL_7QGN_099GNRA variation
HL_7QGN_100No text annotation
HL_7QGN_101GNRA
HL_7QGN_102GNRA
HL_7QGN_103Ribsomal LSU H95
HL_7QGN_104No text annotation
HL_7QGN_105Mini UNCG
HL_7QGN_106No text annotation
HL_7QGN_107GNRA
HL_7QGN_112No text annotation
HL_7QGN_108No text annotation
HL_7QGN_109Mini UNCG

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7QGN_0011/0/30:32,
1/0/552:553		Single bulged G
homologous
IL_4LFB_001
IL_28408.2
IL_7QGN_0031/0/47:52,
1/0/359:361		No text annotation
geometric
IL_5J7L_003
NA
IL_7QGN_0141/0/242:247,
1/0/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_7QGN_0241/0/504:511,
1/0/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
NA
IL_7QGN_0261/0/569:575,
1/0/880:881		No text annotation
homologous
IL_5J7L_026
NA
IL_7QGN_0271/0/580:584,
1/0/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_7QGN_0311/0/654:655,
1/0/751:754		Major groove platform; stack outside cWW
homologous
IL_5J7L_031
NA
IL_7QGN_0331/0/662:666,
1/0/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_7QGN_0381/0/887:894,
1/0/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_7QGN_0391/0/922:923,
1/0/1393:1395		Single bulged A
homologous
IL_5J7L_039
NA
IL_7QGN_0401/0/925:927,
1/0/1390:1391		Single bulged G
homologous
IL_5J7L_040
NA
IL_7QGN_0411/0/933:935,
1/0/1380:1384		Minor groove platform
homologous
IL_5J7L_041
NA
IL_7QGN_0461/0/1048:1050,
1/0/1208:1209		Single bulged U
homologous
IL_5J7L_046
NA
IL_7QGN_1801/0/1052:1056,
1/0/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_7QGN_0481/0/1057:1058,
1/0/1199:1203		Minor groove platform
homologous
IL_5J7L_048
NA
IL_7QGN_0491/0/1060:1061,
1/0/1195:1197		Single bulged A
geometric
IL_5J7L_049
NA
IL_7QGN_0501/0/1061:1063,
1/0/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_7QGN_0581/0/1399:1401,
1/0/1501:1504		No text annotation
geometric
IL_5J7L_058
NA
IL_7QGN_0591/0/1401:1404,
1/0/1497:1501		No text annotation
homologous
IL_5J7L_059
NA
IL_7QGN_0601/0/1405:1407,
1/0/1494:1496		Isolated non-canonical cWW pair
geometric
IL_5MWI_007
NA
IL_7QGN_0611/0/1407:1409,
1/0/1491:1494		No text annotation
geometric
IL_8UO6_002
IL_53541.1
IL_7QGN_0621/0/1412:1414,
1/0/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_7QGN_0821/N/674:678,
1/N/799:806		tHW-tHW cross-strand stack
geometric
IL_5J7L_260
NA
IL_7QGN_0871/N/775:777,
1/N/787:791		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_7QGN_1021/N/1024:1030,
1/N/1124:1140		No text annotation
geometric
IL_5J7L_281
NA
IL_7QGN_1101/N/1208:1215,
1/N/1234:1238		Kink-turn
homologous
IL_5J7L_288
NA
IL_7QGN_1111/N/1262:1269,
1/N/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_7QGN_1131/N/1319:1323,
1/N/1331:1333		Major groove minor groove platform with tHH
homologous
IL_4WF9_050
IL_06671.1
IL_7QGN_1451/N/2070:2071,
1/N/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_7QGN_1601/N/2512:2513,
1/N/2571:2574		No text annotation
geometric
IL_5J7L_341
NA

Problematic loops

#loop idProblemSequence
IL_7QGN_002Single bulged A
IL_7QGN_004Minor groove platform
IL_7QGN_005Multiple bulged bases
IL_7QGN_006Minor groove platform with extra cWW
IL_7QGN_007Minor groove platform
IL_7QGN_008Single bulged G
IL_7QGN_009Isolated non-canonical cWW pair
IL_7QGN_010Minor groove platform related
IL_7QGN_011Isolated cWH basepair
IL_7QGN_012tWH-tWH-tHW-tHW
IL_7QGN_013Minor groove platform
IL_7QGN_015No text annotation
IL_7QGN_016C-loop
IL_7QGN_017Single bulged U
IL_7QGN_018C-loop
IL_7QGN_019Single bulged G
IL_7QGN_020No text annotation
IL_7QGN_021No text annotation
IL_7QGN_022tSH-tHW-tWW
IL_7QGN_023No text annotation
IL_7QGN_025Kink-turn related
IL_7QGN_028Major groove platform
IL_7QGN_029Major groove minor groove platform; mini C-loop
IL_7QGN_030No text annotation
IL_7QGN_032Single stack bend
IL_7QGN_179Triple non-canonical cWW pairs
IL_7QGN_034No text annotation
IL_7QGN_035Kink-turn
IL_7QGN_036Left turn
IL_7QGN_037tSH-tHW-tHS
IL_7QGN_042Minor groove platform
IL_7QGN_043Minor groove platform
IL_7QGN_044Single stack bend
IL_7QGN_045Single stack bend
IL_7QGN_047Tandem non-canonical cWW pairs
IL_7QGN_051No text annotation
IL_7QGN_052Minor groove platform
IL_7QGN_053No text annotation
IL_7QGN_054No text annotation
IL_7QGN_055180 degree turn
IL_7QGN_056Double sheared with non-canonical cWW
IL_7QGN_057No text annotation
IL_7QGN_063Double sheared
IL_7QGN_064Triple sheared related
IL_7QGN_065Single bulged A
IL_7QGN_066No text annotation
IL_7QGN_067Triple sheared with non-canonical cWW
IL_7QGN_068Single bulged A
IL_7QGN_069Minor groove platform
IL_7QGN_070No text annotation
IL_7QGN_071Single stack bend
IL_7QGN_0728x7 Sarcin-Ricin; G-bulge
IL_7QGN_0737x6 Sarcin-Ricin; G-bulge
IL_7QGN_074No text annotation
IL_7QGN_075No text annotation
IL_7QGN_076No text annotation
IL_7QGN_077No text annotation
IL_7QGN_078Double sheared
IL_7QGN_079Isolated non-canonical cWW pair
IL_7QGN_080AAA cross-strand stack
IL_7QGN_081No text annotation
IL_7QGN_083Single bulged A
IL_7QGN_084Single bulged G
IL_7QGN_085Triple sheared
IL_7QGN_086Major groove platform
IL_7QGN_08890 degree turn
IL_7QGN_181No text annotation
IL_7QGN_089Stack outside cWW
IL_7QGN_090Single stack bend
IL_7QGN_0917x7 Sarcin-Ricin with intercalated A; G-bulge
IL_7QGN_092Single bulged G
IL_7QGN_093C-loop with bulged stacked A's
IL_7QGN_094Isolated non-canonical cWW pair
IL_7QGN_095Double sheared with non-canonical cWW
IL_7QGN_096No text annotation
IL_7QGN_097Single bulged C
IL_7QGN_098UAA/GAN
IL_7QGN_099SSU/LSU pseudoknot
IL_7QGN_100Single bulged U
IL_7QGN_101Kink-turn related
IL_7QGN_103Isolated non-canonical cWW pair
IL_7QGN_104Tandem non-canonical cWW pairs
IL_7QGN_105Kink-turn
IL_7QGN_182No text annotation
IL_7QGN_106No text annotation
IL_7QGN_107Major groove platform
IL_7QGN_108Isolated cWS basepair
IL_7QGN_109No text annotation
IL_7QGN_112Major groove platform; stack outside cWW
IL_7QGN_114UAA/GAN
IL_7QGN_115tSH-tHW-tHS
IL_7QGN_116No text annotation
IL_7QGN_117UAA/GAN
IL_7QGN_118Tandem non-canonical cWW pairs
IL_7QGN_119tSH-tHW
IL_7QGN_120Single bulged U
IL_7QGN_121No text annotation
IL_7QGN_122tSH-tHW-tHS
IL_7QGN_123180 degree turn
IL_7QGN_124Single bulged A
IL_7QGN_125UAA/GAN variation
IL_7QGN_126No text annotation
IL_7QGN_127Isolated tWW turn
IL_7QGN_128Major groove platform; stack outside cWW
IL_7QGN_183No text annotation
IL_7QGN_129Intercalated tWH
IL_7QGN_130tSH-tSH-tHH-tHS
IL_7QGN_1316x5 Sarcin-Ricin; G-bulge
IL_7QGN_132Triple sheared
IL_7QGN_133Single bulged C
IL_7QGN_134Single bulged A
IL_7QGN_135Kink-turn related
IL_7QGN_136Minor groove platform, major groove intercalation
IL_7QGN_137Major groove intercalation
IL_7QGN_138Major groove minor groove platform; mini C-loop
IL_7QGN_184No text annotation
IL_7QGN_139UAA/GAN related
IL_7QGN_140Bulged stacked bases
IL_7QGN_141No text annotation
IL_7QGN_142Major groove platform
IL_7QGN_143No text annotation
IL_7QGN_144Single bulged U
IL_7QGN_146Isolated tHS basepair with bulges
IL_7QGN_147Isolated non-canonical cWW pair
IL_7QGN_185Other IL
IL_7QGN_148Isolated non-canonical cWW pair
IL_7QGN_149No text annotation
IL_7QGN_186No text annotation
IL_7QGN_187No text annotation
IL_7QGN_150Single bulged U
IL_7QGN_151Double sheared
IL_7QGN_152Single bulged U
IL_7QGN_153Single stack bend
IL_7QGN_154Major groove platform
IL_7QGN_155Major groove platform
IL_7QGN_156Major groove minor groove platform with extra cWW
IL_7QGN_157Double sheared with non-canonical cWW
IL_7QGN_158Major groove platform
IL_7QGN_159Isolated non-canonical cWW with bulges
IL_7QGN_161Major groove platform with intercalation
IL_7QGN_162Single bulged A
IL_7QGN_163tSH-tHS-tHW
IL_7QGN_164Sarcin-Ricin target in LSU H95; G-bulge
IL_7QGN_165C-loop
IL_7QGN_166UAA/GAN related, with intercalation
IL_7QGN_167Multiple bulged bases
IL_7QGN_168UAA/GAN with extra cWW
IL_7QGN_169Single bulged A
IL_7QGN_170No text annotation
IL_7QGN_171Major groove intercalation
IL_7QGN_172Multiple bulged bases with non-canonical cWW
IL_7QGN_173tHS double platform
IL_7QGN_174Major groove intercalation
IL_7QGN_175No text annotation
IL_7QGN_176Major groove minor groove platform; mini C-loop
IL_7QGN_177Symmetric double minor groove platform
IL_7QGN_178Bacterial 5S Loop E

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7QGN_0281/0/46:52,
1/0/359:367,
1/0/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_7QGN_0021/0/586:588,
1/0/651:654,
1/0/754:755		No text annotation
homologous
J3_5J7L_002
NA
J3_7QGN_0291/0/586:588,
1/0/651:655,
1/0/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_7QGN_0041/0/826:829,
1/0/857:861,
1/0/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_7QGN_0061/0/943:946,
1/0/1235:1237,
1/0/1337:1340		No text annotation
homologous
J3_5J7L_005
NA
J3_7QGN_0071/0/955:962,
1/0/973:984,
1/0/1221:1225		No text annotation
homologous
J3_5J7L_006
NA
J3_7QGN_0081/0/990:993,
1/0/1045:1047,
1/0/1210:1215		No text annotation
homologous
J3_5J7L_007
NA
J3_7QGN_0301/0/990:997,
1/0/1044:1047,
1/0/1210:1215		No text annotation
homologous
J3_5J7L_053
NA
J3_7QGN_0101/0/1063:1068,
1/0/1107:1113,
1/0/1187:1193		No text annotation
homologous
J3_5J7L_008
NA
J3_7QGN_0311/0/1073:1074,
1/0/1083:1086,
1/0/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_7QGN_0331/N/32:35,
1/N/445:461,
1/N/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_7QGN_0161/N/683:689,
1/N/773:775,
1/N/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_7QGN_0211/N/1344:1349,
1/N/1382:1385,
1/N/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J4_7QGN_0011/0/115:122,
1/0/239:240,
1/0/286:289,
1/0/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_7QGN_0031/0/575:577,
1/0/764:769,
1/0/810:821,
1/0/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_7QGN_0051/M/7:10,
1/M/24:26,
1/M/42:48,
1/M/64:65		tRNA junction
homologous
J4_1IL2_001
J4_95067.1
J4_7QGN_0091/N/1270:1276,
1/N/1294:1295,
1/N/1645:1648,
1/N/2009:2010		No text annotation
homologous
J4_5J7L_021
NA

Problematic loops

#loop idProblemSequence
J3_7QGN_001No text annotation
J3_7QGN_003No text annotation
J3_7QGN_005No text annotation
J3_7QGN_037No text annotation
J3_7QGN_009No text annotation
J3_7QGN_011No text annotation
J3_7QGN_012No text annotation
J3_7QGN_032No text annotation
J3_7QGN_013No text annotation
J3_7QGN_014No text annotation
J3_7QGN_015No text annotation
J3_7QGN_034No text annotation
J3_7QGN_017No text annotation
J3_7QGN_018No text annotation
J3_7QGN_019No text annotation
J3_7QGN_020No text annotation
J3_7QGN_035No text annotation
J3_7QGN_022Kink-turn 3-way junction
J3_7QGN_036No text annotation
J3_7QGN_023No text annotation
J3_7QGN_024No text annotation
J3_7QGN_025No text annotation
J3_7QGN_026No text annotation
J3_7QGN_027No text annotation
J4_7QGN_002No text annotation
J4_7QGN_004tRNA junction
J4_7QGN_006No text annotation
J4_7QGN_007No text annotation
J4_7QGN_008No text annotation
J4_7QGN_010No text annotation
J4_7QGN_011No text annotation
J4_7QGN_012No text annotation
J4_7QGN_013No text annotation
J4_7QGN_014No text annotation
J4_7QGN_015No text annotation
J4_7QGN_016No text annotation
J5_7QGN_001No text annotation
J5_7QGN_002No text annotation
J5_7QGN_003No text annotation
J5_7QGN_004No text annotation
J5_7QGN_005No text annotation
J5_7QGN_006No text annotation
J5_7QGN_007No text annotation
J5_7QGN_008No text annotation
J6_7QGN_001No text annotation
J6_7QGN_002No text annotation
J7_7QGN_001No text annotation
J7_7QGN_002No text annotation

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