RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6OUO_0071/1/225:230No text annotation
homologous
HL_5J7L_140
NA
HL_6OUO_0081/1/246:252No text annotation
homologous
HL_5J7L_141
NA
HL_6OUO_0121/1/382:392No text annotation
homologous
HL_5J7L_145
NA
HL_6OUO_0141/1/462:467GNRA
homologous
HL_7RQB_015
NA
HL_6OUO_1071/1/564:577No text annotation
HL_6OUO_0171/1/566:575T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_6OUO_0201/1/641:647No text annotation
homologous
HL_5J7L_153
NA
HL_6OUO_0221/1/744:753No text annotation
homologous
HL_5J7L_155
NA
HL_6OUO_0231/1/779:785No text annotation
homologous
HL_7RQB_024
NA
HL_6OUO_0241/1/826:831No text annotation
homologous
HL_5J7L_157
NA
HL_6OUO_0331/1/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_6OUO_0401/1/1612:1619No text annotation
homologous
HL_5J7L_173
NA
HL_6OUO_0411/1/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_6OUO_0451/1/1777:1787No text annotation
homologous
HL_5J7L_178
NA
HL_6OUO_0461/1/1806:1811GNRA related
homologous
HL_5J7L_179
NA
HL_6OUO_0481/1/1910:1920No text annotation
homologous
HL_5J7L_181
NA
HL_6OUO_0491/1/1949:1957No text annotation
homologous
HL_4WF9_046
HL_61418.2
HL_6OUO_0501/1/2027:2036No text annotation
homologous
HL_5J7L_183
NA
HL_6OUO_0531/1/2248:2256No text annotation
homologous
HL_7RQB_053
NA
HL_6OUO_0541/1/2264:2276No text annotation
homologous
HL_7RQB_054
NA
HL_6OUO_0621/1/2551:2557No text annotation
homologous
HL_7A0S_061
HL_48677.1
HL_6OUO_0631/1/2594:2599GNRA
homologous
HL_5J7L_196
NA
HL_6OUO_0841/2/689:698No text annotation
homologous
HL_5J7L_015
NA
HL_6OUO_0861/2/786:796No text annotation
homologous
HL_4LFB_017
HL_38491.2
HL_6OUO_0891/2/897:902GNRA
homologous
HL_4LFB_020
HL_34789.2

Problematic loops

#loop idProblemSequence
HL_6OUO_001No text annotation
HL_6OUO_002No text annotation
HL_6OUO_003No text annotation
HL_6OUO_004No text annotation
HL_6OUO_005No text annotation
HL_6OUO_006No text annotation
HL_6OUO_009T-loop with 2 stacked bulged bases
HL_6OUO_010No text annotation
HL_6OUO_011T-loop with unstacked turn
HL_6OUO_013No text annotation
HL_6OUO_015GNRA
HL_6OUO_016No text annotation
HL_6OUO_018No text annotation
HL_6OUO_019GNRA
HL_6OUO_021GNRA wlth tandem sheared
HL_6OUO_108No text annotation
HL_6OUO_025No text annotation
HL_6OUO_026No text annotation
HL_6OUO_109GNRA
HL_6OUO_027No text annotation
HL_6OUO_028No text annotation
HL_6OUO_029No text annotation
HL_6OUO_030No text annotation
HL_6OUO_110No text annotation
HL_6OUO_031GNRA
HL_6OUO_032T-loop with 2 stacked bulged bases
HL_6OUO_034GNRA
HL_6OUO_035No text annotation
HL_6OUO_036Mini UNCG with extended bulge
HL_6OUO_037Pseudoknot geometry with 3' bulge
HL_6OUO_038UNCG
HL_6OUO_039Mini UNCG
HL_6OUO_042UNCG
HL_6OUO_043UNCG variation
HL_6OUO_044No text annotation
HL_6OUO_047No text annotation
HL_6OUO_111No text annotation
HL_6OUO_051UNCG
HL_6OUO_052No text annotation
HL_6OUO_055No text annotation
HL_6OUO_112No text annotation
HL_6OUO_056Pseudoknot geometry
HL_6OUO_057GNRA
HL_6OUO_058GNRA
HL_6OUO_059No text annotation
HL_6OUO_060No text annotation
HL_6OUO_061GNRA variation
HL_6OUO_064GNRA
HL_6OUO_065Ribsomal LSU H95
HL_6OUO_066No text annotation
HL_6OUO_067Mini UNCG
HL_6OUO_068No text annotation
HL_6OUO_069GNRA
HL_6OUO_070No text annotation
HL_6OUO_071No text annotation
HL_6OUO_117No text annotation
HL_6OUO_072GNRA with extra cWW
HL_6OUO_113GNRA
HL_6OUO_073GNRA
HL_6OUO_074UNCG
HL_6OUO_075GNRA related
HL_6OUO_076GNRA
HL_6OUO_077No text annotation
HL_6OUO_078UNCG
HL_6OUO_079GNRA
HL_6OUO_080UNCG
HL_6OUO_081GNRA wlth extra near cWW
HL_6OUO_082No text annotation
HL_6OUO_114GNRA variation
HL_6OUO_083GNRA-like with tWH
HL_6OUO_085GNRA
HL_6OUO_087Externally structured
HL_6OUO_088GNRA
HL_6OUO_090No text annotation
HL_6OUO_091GNRA
HL_6OUO_092No text annotation
HL_6OUO_093GNRA
HL_6OUO_094T-loop related
HL_6OUO_095No text annotation
HL_6OUO_096GNRA
HL_6OUO_097GNRA
HL_6OUO_098T-loop with 3 stacked bulged bases
HL_6OUO_099No text annotation
HL_6OUO_115No text annotation
HL_6OUO_118No text annotation
HL_6OUO_100UNCG
HL_6OUO_101GNRA
HL_6OUO_116No text annotation
HL_6OUO_102No text annotation
HL_6OUO_103Mini UNCG
HL_6OUO_104tRNA D-loop
HL_6OUO_105tRNA anticodon loop
HL_6OUO_106T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6OUO_0011/1/36:37,
1/1/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_6OUO_0051/1/188:194,
1/1/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_7RQB_006
NA
IL_6OUO_0191/1/738:740,
1/1/757:758		Major groove platform
homologous
IL_4WF9_026
IL_48076.8
IL_6OUO_0201/1/775:777,
1/1/787:791		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_6OUO_0441/1/1262:1269,
1/1/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_6OUO_0511/1/1437:1440,
1/1/1551:1555		tSH-tHW
homologous
IL_5J7L_297
NA
IL_6OUO_0591/1/1663:1665,
1/1/1995:1997		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_6OUO_1761/1/1666:1674,
1/1/1990:1994		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_6OUO_0611/1/1669:1674,
1/1/1990:1993		Intercalated tWH
geometric
IL_4WF9_065
IL_28217.1
IL_6OUO_0661/1/1798:1804,
1/1/1813:1821		Kink-turn related
homologous
IL_5J7L_313
NA
IL_6OUO_0671/1/1837:1840,
1/1/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_6OUO_0711/1/1933:1934,
1/1/1964:1967		Bulged stacked bases
geometric
IL_5J7L_318
NA
IL_6OUO_0721/1/1934:1945,
1/1/1961:1964		No text annotation
homologous
IL_5J7L_319
NA
IL_6OUO_0741/1/2054:2056,
1/1/2612:2615		No text annotation
homologous
IL_5J7L_321
NA
IL_6OUO_0771/1/2070:2071,
1/1/2438:2441		Minor groove platform
homologous
IL_5J7L_324
NA
IL_6OUO_1831/1/2507:2508,
1/1/2580:2582		Major groove platform
homologous
IL_5J7L_394
NA
IL_6OUO_0931/1/2591:2592,
1/1/2601:2603		Single bulged A
homologous
IL_5J7L_344
NA
IL_6OUO_1081/2/54:56,
1/2/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_34520.2
IL_6OUO_1201/2/292:293,
1/2/304:308		C-loop
homologous
IL_6CZR_125
NA
IL_6OUO_1271/2/515:521,
1/2/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_6OUO_1371/2/684:688,
1/2/699:706		Kink-turn
homologous
IL_5J7L_035
NA
IL_6OUO_1391/2/779:783,
1/2/799:803		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_05821.1
IL_6OUO_1401/2/887:894,
1/2/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_6OUO_1631/2/1412:1414,
1/2/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_6OUO_1641/2/1416:1419,
1/2/1481:1484		Double sheared
homologous
IL_5J7L_062
NA

Problematic loops

#loop idProblemSequence
IL_6OUO_002Minor groove platform
IL_6OUO_003No text annotation
IL_6OUO_004Single stack bend
IL_6OUO_0067x6 Sarcin-Ricin; G-bulge
IL_6OUO_007No text annotation
IL_6OUO_008No text annotation
IL_6OUO_009No text annotation
IL_6OUO_010No text annotation
IL_6OUO_011Double sheared
IL_6OUO_012Isolated non-canonical cWW pair
IL_6OUO_013AAA cross-strand stack
IL_6OUO_014No text annotation
IL_6OUO_015tHW-tHW cross-strand stack
IL_6OUO_016Single bulged A
IL_6OUO_017Single bulged G
IL_6OUO_018Triple sheared
IL_6OUO_021Single stack bend
IL_6OUO_02290 degree turn
IL_6OUO_173No text annotation
IL_6OUO_023Stack outside cWW
IL_6OUO_024No text annotation
IL_6OUO_193Single stack bend
IL_6OUO_0257x7 Sarcin-Ricin with intercalated A; G-bulge
IL_6OUO_026Single bulged G
IL_6OUO_027C-loop with bulged stacked A's
IL_6OUO_028Isolated non-canonical cWW pair
IL_6OUO_029Double sheared with non-canonical cWW
IL_6OUO_030Single bulged A
IL_6OUO_031Single bulged C
IL_6OUO_032UAA/GAN
IL_6OUO_033SSU/LSU pseudoknot
IL_6OUO_034Single bulged U
IL_6OUO_035Kink-turn related
IL_6OUO_036No text annotation
IL_6OUO_037Isolated non-canonical cWW pair
IL_6OUO_038Tandem non-canonical cWW pairs
IL_6OUO_039Kink-turn
IL_6OUO_040No text annotation
IL_6OUO_174Tandem non-canonical cWW pairs
IL_6OUO_041Isolated cWS basepair
IL_6OUO_042No text annotation
IL_6OUO_043Kink-turn
IL_6OUO_045Major groove platform; stack outside cWW
IL_6OUO_046C-loop
IL_6OUO_047UAA/GAN
IL_6OUO_048tSH-tHW-tHS
IL_6OUO_049No text annotation
IL_6OUO_050Tandem non-canonical cWW pairs
IL_6OUO_052Single bulged U
IL_6OUO_053No text annotation
IL_6OUO_054tSH-tHW-tHS
IL_6OUO_055180 degree turn
IL_6OUO_056Single bulged A
IL_6OUO_057UAA/GAN variation
IL_6OUO_175Isolated non-canonical cWW pair
IL_6OUO_058No text annotation
IL_6OUO_060Major groove platform; stack outside cWW
IL_6OUO_062tSH-tSH-tHH-tHS
IL_6OUO_0636x5 Sarcin-Ricin; G-bulge
IL_6OUO_064Triple sheared
IL_6OUO_065Single bulged A
IL_6OUO_068Major groove intercalation
IL_6OUO_069Major groove minor groove platform; mini C-loop
IL_6OUO_177No text annotation
IL_6OUO_070UAA/GAN related
IL_6OUO_073Major groove platform
IL_6OUO_075No text annotation
IL_6OUO_178Single bulged U
IL_6OUO_076Isolated non-canonical cWW pair
IL_6OUO_078Isolated tHS basepair with bulges
IL_6OUO_079Isolated non-canonical cWW pair
IL_6OUO_179No text annotation
IL_6OUO_194No text annotation
IL_6OUO_080No text annotation
IL_6OUO_195No text annotation
IL_6OUO_081No text annotation
IL_6OUO_082Single bulged U
IL_6OUO_083Double sheared
IL_6OUO_084No text annotation
IL_6OUO_180Single stack bend
IL_6OUO_085No text annotation
IL_6OUO_181Major groove platform
IL_6OUO_086No text annotation
IL_6OUO_182Major groove platform
IL_6OUO_087Major groove minor groove platform with extra cWW
IL_6OUO_088Double sheared with non-canonical cWW
IL_6OUO_089No text annotation
IL_6OUO_090No text annotation
IL_6OUO_091Major groove platform with intercalation
IL_6OUO_092No text annotation
IL_6OUO_094tSH-tHS-tHW
IL_6OUO_095Sarcin-Ricin target in LSU H95; G-bulge
IL_6OUO_096C-loop
IL_6OUO_097UAA/GAN related, with intercalation
IL_6OUO_098Multiple bulged bases
IL_6OUO_099UAA/GAN with extra cWW
IL_6OUO_100Single bulged A
IL_6OUO_101No text annotation
IL_6OUO_102Major groove intercalation
IL_6OUO_184No text annotation
IL_6OUO_103Multiple bulged bases with non-canonical cWW
IL_6OUO_104No text annotation
IL_6OUO_185No text annotation
IL_6OUO_105Single bulged G
IL_6OUO_106Single bulged A
IL_6OUO_107No text annotation
IL_6OUO_196Multiple bulged bases
IL_6OUO_109Isolated non-canonical cWW pair
IL_6OUO_186No text annotation
IL_6OUO_110Minor groove platform with extra cWW
IL_6OUO_111Minor groove platform
IL_6OUO_112Stack outside cWW
IL_6OUO_113Isolated non-canonical cWW pair
IL_6OUO_187No text annotation
IL_6OUO_114No text annotation
IL_6OUO_197Minor groove platform related
IL_6OUO_115Isolated cWH basepair
IL_6OUO_116No text annotation
IL_6OUO_117No text annotation
IL_6OUO_188No text annotation
IL_6OUO_118Kink-turn with non-sequential stacking
IL_6OUO_119No text annotation
IL_6OUO_121Single bulged U
IL_6OUO_122C-loop
IL_6OUO_123Single bulged G
IL_6OUO_124No text annotation
IL_6OUO_125No text annotation
IL_6OUO_189No text annotation
IL_6OUO_126SSU/LSU pseudoknot
IL_6OUO_128No text annotation
IL_6OUO_129tSH-tHW-tHS
IL_6OUO_130Major groove platform
IL_6OUO_131Major groove minor groove platform; mini C-loop
IL_6OUO_132No text annotation
IL_6OUO_133Major groove platform; stack outside cWW
IL_6OUO_134Single stack bend
IL_6OUO_135Tandem non-canonical cWW pairs
IL_6OUO_190Triple non-canonical cWW pairs
IL_6OUO_136No text annotation
IL_6OUO_138Left turn
IL_6OUO_141Single bulged A
IL_6OUO_142Single bulged G
IL_6OUO_143Minor groove platform
IL_6OUO_144No text annotation
IL_6OUO_145Minor groove platform
IL_6OUO_146Single stack bend
IL_6OUO_147Single bulged U
IL_6OUO_148No text annotation
IL_6OUO_149Isolated cWS basepair
IL_6OUO_150Minor groove platform
IL_6OUO_151Single bulged A
IL_6OUO_152Isolated non-canonical cWW pair
IL_6OUO_153No text annotation
IL_6OUO_154Minor groove platform
IL_6OUO_155No text annotation
IL_6OUO_156No text annotation
IL_6OUO_157180 degree turn
IL_6OUO_158Double sheared with non-canonical cWW
IL_6OUO_159No text annotation
IL_6OUO_160No text annotation
IL_6OUO_161No text annotation
IL_6OUO_191Isolated non-canonical cWW pair
IL_6OUO_162No text annotation
IL_6OUO_192Decoding loop related
IL_6OUO_165Triple sheared related
IL_6OUO_166Single bulged A
IL_6OUO_167No text annotation
IL_6OUO_168Major groove intercalation
IL_6OUO_169No text annotation
IL_6OUO_198Major groove minor groove platform; mini C-loop
IL_6OUO_170No text annotation
IL_6OUO_171Symmetric double minor groove platform
IL_6OUO_172Bacterial 5S Loop E

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6OUO_0281/1/32:35,
1/1/445:461,
1/1/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_6OUO_0021/1/683:689,
1/1/773:775,
1/1/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_6OUO_0031/1/698:700,
1/1/732:736,
1/1/760:763		No text annotation
homologous
J3_7RQB_005
NA
J3_6OUO_0051/1/1298:1303,
1/1/1625:1627,
1/1/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_6OUO_0061/1/1306:1309,
1/1/1605:1611,
1/1/1620:1622		No text annotation
homologous
J3_7A0S_007
J3_47341.1
J3_6OUO_0401/1/2282:2284,
1/1/2384:2395,
1/1/2421:2427		No text annotation
homologous
J3_5J7L_070
NA
J3_6OUO_0111/1/2812:2815,
1/1/2831:2836,
1/1/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J3_6OUO_0241/2/1237:1241,
1/2/1296:1303,
1/2/1334:1337		No text annotation
homologous
J3_4LFB_009
J3_03192.1
J4_6OUO_0031/1/601:604,
1/1/624:628,
1/1/635:638,
1/1/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_6OUO_0041/1/1270:1276,
1/1/1294:1295,
1/1/1645:1648,
1/1/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_6OUO_0081/1/1772:1776,
1/1/1788:1792,
1/1/1827:1830,
1/1/1975:1979		No text annotation
homologous
J4_5J7L_025
NA
J4_6OUO_0091/1/1833:1835,
1/1/1905:1906,
1/1/1924:1933,
1/1/1967:1972		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_6OUO_0141/2/575:577,
1/2/764:769,
1/2/810:821,
1/2/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_6OUO_0151/5/6:9,
1/5/25:27,
1/5/43:49,
1/5/65:66		tRNA junction
homologous
J4_3TUP_001
J4_95067.1
J5_6OUO_0021/1/531:533,
1/1/560:564,
1/1/577:579,
1/1/1261:1262,
1/1/2017:2018		No text annotation
homologous
J5_5J7L_014
NA
J5_6OUO_0031/1/584:589,
1/1/668:671,
1/1/809:812,
1/1/1195:1196,
1/1/1250:1256		No text annotation
homologous
J5_5J7L_015
NA
J5_6OUO_0041/1/1674:1682,
1/1/1706:1707,
1/1/1751:1752,
1/1/1756:1764,
1/1/1988:1990		No text annotation
homologous
J5_5J7L_016
NA
J5_6OUO_0051/1/2057:2064,
1/1/2446:2453,
1/1/2500:2507,
1/1/2582:2588,
1/1/2606:2611		No text annotation
J5_6OUO_0061/1/2074:2077,
1/1/2243:2246,
1/1/2258:2259,
1/1/2281:2282,
1/1/2427:2435		No text annotation
homologous
J5_4WF9_007
J5_39529.2
J7_6OUO_0011/1/8:15,
1/1/525:531,
1/1/2018:2023,
1/1/2040:2043,
1/1/2625:2630,
1/1/2788:2789,
1/1/2894:2895		No text annotation

Problematic loops

#loop idProblemSequence
J3_6OUO_026No text annotation
J3_6OUO_027No text annotation
J3_6OUO_001No text annotation
J3_6OUO_029No text annotation
J3_6OUO_038No text annotation
J3_6OUO_004No text annotation
J3_6OUO_039No text annotation
J3_6OUO_030No text annotation
J3_6OUO_031No text annotation
J3_6OUO_032Kink-turn 3-way junction
J3_6OUO_007No text annotation
J3_6OUO_033No text annotation
J3_6OUO_008No text annotation
J3_6OUO_009No text annotation
J3_6OUO_010No text annotation
J3_6OUO_012No text annotation
J3_6OUO_034No text annotation
J3_6OUO_013No text annotation
J3_6OUO_035No text annotation
J3_6OUO_014No text annotation
J3_6OUO_015No text annotation
J3_6OUO_016No text annotation
J3_6OUO_017No text annotation
J3_6OUO_018No text annotation
J3_6OUO_019No text annotation
J3_6OUO_036No text annotation
J3_6OUO_020No text annotation
J3_6OUO_021No text annotation
J3_6OUO_041No text annotation
J3_6OUO_022No text annotation
J3_6OUO_023No text annotation
J3_6OUO_037No text annotation
J3_6OUO_025No text annotation
J4_6OUO_001No text annotation
J4_6OUO_002No text annotation
J4_6OUO_005No text annotation
J4_6OUO_006No text annotation
J4_6OUO_007No text annotation
J4_6OUO_010No text annotation
J4_6OUO_011No text annotation
J4_6OUO_012No text annotation
J4_6OUO_013No text annotation
J5_6OUO_001No text annotation
J5_6OUO_007No text annotation
J5_6OUO_008No text annotation
J5_6OUO_009No text annotation
J6_6OUO_001No text annotation
J7_6OUO_002No text annotation

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