RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8UXA_0021/A/228:248No text annotation
HL_8UXA_0071/A/393:398GNRA
geometric
HL_7MKY_002
HL_34789.4
HL_8UXA_0091/A/465:474T-loop with 2 stacked bulged bases
geometric
HL_7A0S_018
HL_33597.3
HL_8UXA_0131/A/635:644No text annotation
geometric
HL_8OI5_019
HL_50204.1
HL_8UXA_0151/A/717:722No text annotation
geometric
HL_4WF9_025
HL_27530.1
HL_8UXA_0171/A/904:911No text annotation
geometric
HL_4WF9_028
HL_47171.1
HL_8UXA_0241/A/1564:1571No text annotation
geometric
HL_7A0S_040
HL_28592.2
HL_8UXA_0271/A/1684:1694No text annotation
geometric
HL_8B0X_073
HL_87681.1
HL_8UXA_0321/A/1927:1936No text annotation
geometric
HL_8B0X_078
HL_78372.1
HL_8UXA_0351/A/2290:2302No text annotation
geometric
HL_8B0X_081
HL_02042.1
HL_8UXA_0511/AL/19:29No text annotation
homologous
HL_6CZR_072
NA
HL_8UXA_0601/AL/636:641GNRA variation
homologous
HL_6CZR_216
NA
HL_8UXA_0661/AL/1028:1037No text annotation
homologous
HL_6CZR_092
NA
HL_8UXA_0671/AL/1123:1128GNRA
homologous
HL_6CZR_095
NA
HL_8UXA_0681/AL/1136:1143T-loop related
homologous
HL_6CZR_096
NA
HL_8UXA_0741/AL/1607:1612GNRA
homologous
HL_6CZR_103
NA

Problematic loops

#loop idProblemSequence
HL_8UXA_001No text annotation
HL_8UXA_003No text annotation
HL_8UXA_004No text annotation
HL_8UXA_005No text annotation
HL_8UXA_006Pseudoknot geometry
HL_8UXA_008No text annotation
HL_8UXA_010No text annotation
HL_8UXA_011No text annotation
HL_8UXA_012No text annotation
HL_8UXA_014No text annotation
HL_8UXA_016GNRA
HL_8UXA_018No text annotation
HL_8UXA_019No text annotation
HL_8UXA_020Mini UNCG
HL_8UXA_021No text annotation
HL_8UXA_022No text annotation
HL_8UXA_023GNRA
HL_8UXA_025GNRA with extra cWW
HL_8UXA_026No text annotation
HL_8UXA_028No text annotation
HL_8UXA_029GNRA
HL_8UXA_030No text annotation
HL_8UXA_031No text annotation
HL_8UXA_033No text annotation
HL_8UXA_034No text annotation
HL_8UXA_036tRNA D-loop
HL_8UXA_037tRNA D-loop
HL_8UXA_038No text annotation
HL_8UXA_039No text annotation
HL_8UXA_040GNRA with extra cWW
HL_8UXA_041No text annotation
HL_8UXA_042No text annotation
HL_8UXA_043No text annotation
HL_8UXA_044No text annotation
HL_8UXA_045No text annotation
HL_8UXA_046GNRA
HL_8UXA_047GNRA
HL_8UXA_048Pseudoknot geometry
HL_8UXA_049No text annotation
HL_8UXA_050No text annotation
HL_8UXA_052No text annotation
HL_8UXA_053GNRA related
HL_8UXA_054GNRA
HL_8UXA_055No text annotation
HL_8UXA_056No text annotation
HL_8UXA_057GNRA
HL_8UXA_058No text annotation
HL_8UXA_059No text annotation
HL_8UXA_061No text annotation
HL_8UXA_062GNRA
HL_8UXA_063No text annotation
HL_8UXA_064GNRA
HL_8UXA_065GNRA
HL_8UXA_069No text annotation
HL_8UXA_070Anticodon loop related
HL_8UXA_071No text annotation
HL_8UXA_072T-loop with 3 stacked bulged bases
HL_8UXA_073No text annotation
HL_8UXA_075tRNA D-loop
HL_8UXA_076No text annotation
HL_8UXA_077T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8UXA_0051/A/58:63,
1/A/407:413		Triple sheared with non-canonical cWW
geometric
IL_7A0S_018
IL_29495.1
IL_8UXA_0061/A/96:97,
1/A/378:380		Single bulged A
geometric
IL_8P9A_242
IL_14190.2
IL_8UXA_0121/A/463:465,
1/A/474:476		No text annotation
geometric
IL_8B0X_077
IL_71625.3
IL_8UXA_0131/A/581:583,
1/A/697:699		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_01003.3
IL_8UXA_0141/A/583:587,
1/A/690:697		No text annotation
geometric
IL_9DFE_016
IL_73855.1
IL_8UXA_0181/A/666:669,
1/A/677:682		No text annotation
IL_8UXA_0251/A/787:791,
1/A/835:838		No text annotation
geometric
IL_8B0X_092
IL_16301.1
IL_8UXA_0281/A/877:879,
1/A/890:892		No text annotation
geometric
IL_8OI5_045
IL_01003.3
IL_8UXA_0321/A/950:957,
1/A/1091:1105		No text annotation
IL_8UXA_0341/A/1230:1232,
1/A/1280:1283		No text annotation
geometric
IL_9DFE_044
IL_42997.5
IL_8UXA_0361/A/1295:1302,
1/A/1911:1917		No text annotation
geometric
IL_8B0X_108
IL_62167.3
IL_8UXA_0441/A/1603:1608,
1/A/1904:1906		No text annotation
geometric
IL_9DFE_063
IL_12566.5
IL_8UXA_0461/A/1618:1621,
1/A/1893:1894		No text annotation
geometric
IL_8B0X_125
IL_74641.2
IL_8UXA_0471/A/1618:1626,
1/A/1890:1894		No text annotation
geometric
IL_8B0X_180
IL_80252.1
IL_8UXA_0481/A/1621:1626,
1/A/1890:1893		No text annotation
geometric
IL_8B0X_126
IL_28217.1
IL_8UXA_0591/A/1950:1952,
1/A/2884:2885		No text annotation
geometric
IL_8B0X_139
IL_48076.8
IL_8UXA_0601/A/1954:1956,
1/A/2879:2882		No text annotation
geometric
IL_9E6Q_076
IL_80025.1
IL_8UXA_0611/A/1967:1969,
1/A/2708:2709		Single bulged U
geometric
IL_9DFE_080
IL_97561.3
IL_8UXA_0621/A/1970:1971,
1/A/2704:2707		Minor groove platform
geometric
IL_9DFE_081
IL_34520.3
IL_8UXA_0731/A/2720:2721,
1/A/2762:2764		Major groove platform
geometric
IL_9DFE_092
IL_48076.8
IL_8UXA_0771/A/2775:2778,
1/A/2841:2846		No text annotation
IL_8UXA_0781/A/2778:2779,
1/A/2838:2841		No text annotation
geometric
IL_4WF9_096
IL_44609.2
IL_8UXA_1121/AL/617:626,
1/AL/653:655		No text annotation
IL_8UXA_1131/AL/629:635,
1/AL/642:650		Kink-turn related
homologous
IL_6CZR_133
NA
IL_8UXA_1151/AL/678:684,
1/AL/945:946		No text annotation
homologous
IL_6CZR_134
NA
IL_8UXA_1231/AL/951:959,
1/AL/970:976		No text annotation
IL_8UXA_1241/AL/987:989,
1/AL/1460:1463		Isolated non-canonical cWW with bulges
geometric
IL_4V9F_097
IL_68118.3
IL_8UXA_1251/AL/990:994,
1/AL/1456:1459		Tandem non-canonical cWW pairs
geometric
IL_8P9A_462
IL_71194.2
IL_8UXA_1321/AL/1107:1108,
1/AL/1227:1229		Single bulged U
homologous
IL_6CZR_156
NA
IL_8UXA_1391/AL/1467:1469,
1/AL/1593:1596		No text annotation
homologous
IL_6CZR_165
NA
IL_8UXA_1401/AL/1469:1472,
1/AL/1589:1593		No text annotation
homologous
IL_6CZR_368
NA

Problematic loops

#loop idProblemSequence
IL_8UXA_001No text annotation
IL_8UXA_002Isolated non-canonical cWW pair
IL_8UXA_003Isolated non-canonical cWW pair
IL_8UXA_004No text annotation
IL_8UXA_007No text annotation
IL_8UXA_008Tandem non-canonical cWW pairs
IL_8UXA_009No text annotation
IL_8UXA_010No text annotation
IL_8UXA_011No text annotation
IL_8UXA_015No text annotation
IL_8UXA_016Single bulged G
IL_8UXA_017No text annotation
IL_8UXA_019Single stack bend
IL_8UXA_020No text annotation
IL_8UXA_021No text annotation
IL_8UXA_022No text annotation
IL_8UXA_023No text annotation
IL_8UXA_024Minor groove platform related
IL_8UXA_026No text annotation
IL_8UXA_027Single stack bend
IL_8UXA_029No text annotation
IL_8UXA_030UAA/GAN
IL_8UXA_031No text annotation
IL_8UXA_033No text annotation
IL_8UXA_035No text annotation
IL_8UXA_037No text annotation
IL_8UXA_038No text annotation
IL_8UXA_039Single bulged A
IL_8UXA_040Isolated non-canonical cWW pair
IL_8UXA_041No text annotation
IL_8UXA_042Isolated non-canonical cWW contact
IL_8UXA_043No text annotation
IL_8UXA_045No text annotation
IL_8UXA_049No text annotation
IL_8UXA_050No text annotation
IL_8UXA_051Single bulged A
IL_8UXA_052Kink-turn related
IL_8UXA_053No text annotation
IL_8UXA_054No text annotation
IL_8UXA_055No text annotation
IL_8UXA_056No text annotation
IL_8UXA_057Bulged stacked bases
IL_8UXA_058No text annotation
IL_8UXA_063No text annotation
IL_8UXA_064No text annotation
IL_8UXA_065No text annotation
IL_8UXA_066No text annotation
IL_8UXA_067No text annotation
IL_8UXA_068No text annotation
IL_8UXA_069No text annotation
IL_8UXA_070No text annotation
IL_8UXA_071Double sheared
IL_8UXA_072Major groove platform
IL_8UXA_074Major groove platform
IL_8UXA_075No text annotation
IL_8UXA_076No text annotation
IL_8UXA_079No text annotation
IL_8UXA_080No text annotation
IL_8UXA_081Triple sheared
IL_8UXA_082No text annotation
IL_8UXA_083C-loop
IL_8UXA_084No text annotation
IL_8UXA_085No text annotation
IL_8UXA_086UAA/GAN with extra cWW
IL_8UXA_087Multiple bulged bases
IL_8UXA_088No text annotation
IL_8UXA_089Isolated cWH basepair
IL_8UXA_090No text annotation
IL_8UXA_091No text annotation
IL_8UXA_092Single bulged G
IL_8UXA_093Single bulged A
IL_8UXA_094No text annotation
IL_8UXA_095Minor groove platform
IL_8UXA_096Multiple bulged bases
IL_8UXA_097Multiple bulged bases
IL_8UXA_098No text annotation
IL_8UXA_099No text annotation
IL_8UXA_100No text annotation
IL_8UXA_101No text annotation
IL_8UXA_102No text annotation
IL_8UXA_103No text annotation
IL_8UXA_104Kink-turn with non-sequential stacking
IL_8UXA_105No text annotation
IL_8UXA_106No text annotation
IL_8UXA_107Single bulged A
IL_8UXA_108Single bulged U
IL_8UXA_109C-loop
IL_8UXA_110Single bulged G
IL_8UXA_111No text annotation
IL_8UXA_114No text annotation
IL_8UXA_116tSH-tHW-tHS
IL_8UXA_117Single bulged A
IL_8UXA_118No text annotation
IL_8UXA_119Tandem non-canonical cWW pairs
IL_8UXA_120No text annotation
IL_8UXA_121Left turn
IL_8UXA_122tSH-tHW-tHS
IL_8UXA_126Minor groove platform
IL_8UXA_127No text annotation
IL_8UXA_128Tandem non-canonical cWW pairs
IL_8UXA_129No text annotation
IL_8UXA_130No text annotation
IL_8UXA_131Minor groove platform
IL_8UXA_133No text annotation
IL_8UXA_134No text annotation
IL_8UXA_135Double sheared with non-canonical cWW
IL_8UXA_136Isolated cWH basepair
IL_8UXA_137No text annotation
IL_8UXA_138Single bulged A
IL_8UXA_141Isolated non-canonical cWW pair
IL_8UXA_142No text annotation
IL_8UXA_143Double sheared
IL_8UXA_144No text annotation
IL_8UXA_145No text annotation
IL_8UXA_146Tandem non-canonical cWW pairs
IL_8UXA_147No text annotation
IL_8UXA_148Triple non-canonical cWW pairs

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8UXA_0021/A/592:598,
1/A/664:666,
1/A/682:685		No text annotation
geometric
J3_9DFE_007
J3_46658.1
J3_8UXA_0031/A/592:598,
1/A/664:669,
1/A/677:685		No text annotation
J3_8UXA_0081/A/1337:1340,
1/A/1557:1563,
1/A/1572:1574		No text annotation
geometric
J3_8B0X_019
J3_47341.1
J3_8UXA_0221/AL/737:738,
1/AL/783:791,
1/AL/798:800		No text annotation
J3_8UXA_0231/AL/891:893,
1/AL/924:927,
1/AL/934:939		No text annotation
geometric
J3_7A0S_007
J3_47341.1
J3_8UXA_0241/AL/997:1004,
1/AL/1412:1418,
1/AL/1441:1453		No text annotation
J3_8UXA_0291/AL/1110:1115,
1/AL/1154:1160,
1/AL/1219:1225		No text annotation
homologous
J3_6CZR_023
NA
J3_8UXA_0301/AL/1120:1121,
1/AL/1130:1135,
1/AL/1144:1149		No text annotation
J4_8UXA_0011/A/66:71,
1/A/91:95,
1/A/381:392,
1/A/399:404		No text annotation
J4_8UXA_0091/AL/684:686,
1/AL/829:834,
1/AL/875:886,
1/AL/944:945		No text annotation
homologous
J4_6CZR_013
NA
J5_8UXA_0011/A/428:430,
1/A/459:463,
1/A/476:478,
1/A/1294:1295,
1/A/1917:1918		No text annotation
J5_8UXA_0021/A/483:488,
1/A/577:580,
1/A/700:703,
1/A/1229:1230,
1/A/1283:1289		No text annotation
J5_8UXA_0031/A/1957:1964,
1/A/2712:2720,
1/A/2764:2774,
1/A/2847:2855,
1/A/2873:2878		No text annotation
J5_8UXA_0041/A/1974:1977,
1/A/2269:2272,
1/A/2284:2285,
1/A/2308:2309,
1/A/2693:2701		No text annotation
J7_8UXA_0011/A/43:49,
1/A/422:428,
1/A/1918:1923,
1/A/1940:1943,
1/A/2892:2898,
1/A/3120:3123,
1/A/3260:3262		No text annotation
J7_8UXA_0021/A/708:713,
1/A/726:727,
1/A/869:872,
1/A/897:902,
1/A/913:917,
1/A/1183:1184,
1/A/1219:1224		No text annotation

Problematic loops

#loop idProblemSequence
J3_8UXA_001No text annotation
J3_8UXA_004No text annotation
J3_8UXA_005No text annotation
J3_8UXA_006No text annotation
J3_8UXA_007No text annotation
J3_8UXA_009No text annotation
J3_8UXA_010No text annotation
J3_8UXA_011No text annotation
J3_8UXA_012No text annotation
J3_8UXA_013No text annotation
J3_8UXA_014No text annotation
J3_8UXA_015No text annotation
J3_8UXA_016No text annotation
J3_8UXA_017No text annotation
J3_8UXA_018No text annotation
J3_8UXA_019No text annotation
J3_8UXA_020No text annotation
J3_8UXA_021No text annotation
J3_8UXA_025No text annotation
J3_8UXA_026No text annotation
J3_8UXA_027No text annotation
J3_8UXA_028No text annotation
J3_8UXA_031No text annotation
J4_8UXA_002No text annotation
J4_8UXA_003No text annotation
J4_8UXA_004No text annotation
J4_8UXA_005No text annotation
J4_8UXA_006No text annotation
J4_8UXA_007No text annotation
J4_8UXA_008No text annotation
J4_8UXA_010No text annotation
J5_8UXA_005No text annotation
J6_8UXA_001No text annotation

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