RNA 3D Hub //

5ADY Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5ADY_0041/B/87:95No text annotation
homologous
HL_5J7L_135
NA
HL_5ADY_0081/B/188:208No text annotation
HL_5ADY_0141/B/381:393No text annotation
homologous
HL_4WF9_013
HL_69139.1
HL_5ADY_0191/B/564:577No text annotation
HL_5ADY_0291/B/978:985No text annotation
homologous
HL_4WF9_028
HL_47171.1
HL_5ADY_0301/B/1064:1074No text annotation
homologous
HL_5J7L_161
NA
HL_5ADY_0331/B/1222:1227GNRA
homologous
HL_7A0S_031
HL_34789.3
HL_5ADY_0861/B/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
NA
HL_5ADY_0351/B/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_5ADY_0361/B/1362:1369No text annotation
HL_5ADY_0371/B/1389:1398No text annotation
homologous
HL_4WF9_035
HL_77449.1
HL_5ADY_0401/B/1533:1538UNCG
geometric
HL_5D5L_003
HL_61337.3
HL_5ADY_0461/B/1752:1756No text annotation
homologous
HL_7A0S_044
HL_80709.5
HL_5ADY_0871/B/1777:1787No text annotation
homologous
HL_5J7L_178
NA
HL_5ADY_0491/B/1868:1873GNRA
geometric
HL_6AZ4_001
HL_34789.3
HL_5ADY_0551/B/2248:2256No text annotation
HL_5ADY_0791/B/2263:2277No text annotation
HL_5ADY_0561/B/2264:2276No text annotation
homologous
HL_7A0S_053
HL_02042.1
HL_5ADY_0891/B/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
NA
HL_5ADY_0591/B/2355:2362GNRA with extra cWW
homologous
HL_7A0S_056
HL_87268.2
HL_5ADY_0671/B/2699:2708No text annotation
geometric
HL_8KAH_003
NA

Problematic loops

#loop idProblemSequence
HL_5ADY_001No text annotation
HL_5ADY_072No text annotation
HL_5ADY_002Mini UNCG
HL_5ADY_003No text annotation
HL_5ADY_005No text annotation
HL_5ADY_006UNCG
HL_5ADY_007No text annotation
HL_5ADY_009No text annotation
HL_5ADY_073No text annotation
HL_5ADY_010No text annotation
HL_5ADY_011T-loop with 2 stacked bulged bases
HL_5ADY_012No text annotation
HL_5ADY_013T-loop with unstacked turn
HL_5ADY_015No text annotation
HL_5ADY_016GNRA
HL_5ADY_017GNRA
HL_5ADY_018No text annotation
HL_5ADY_020No text annotation
HL_5ADY_021GNRA
HL_5ADY_022No text annotation
HL_5ADY_084No text annotation
HL_5ADY_074No text annotation
HL_5ADY_023GNRA wlth tandem sheared
HL_5ADY_024No text annotation
HL_5ADY_025No text annotation
HL_5ADY_026No text annotation
HL_5ADY_075No text annotation
HL_5ADY_027No text annotation
HL_5ADY_085No text annotation
HL_5ADY_028GNRA
HL_5ADY_031No text annotation
HL_5ADY_032No text annotation
HL_5ADY_076No text annotation
HL_5ADY_034No text annotation
HL_5ADY_077No text annotation
HL_5ADY_038No text annotation
HL_5ADY_039Pseudoknot geometry with 3' bulge
HL_5ADY_041Mini UNCG
HL_5ADY_042No text annotation
HL_5ADY_043GNRA with extra cWW
HL_5ADY_044UNCG
HL_5ADY_045No text annotation
HL_5ADY_047No text annotation
HL_5ADY_048GNRA related
HL_5ADY_078No text annotation
HL_5ADY_050No text annotation
HL_5ADY_051No text annotation
HL_5ADY_052No text annotation
HL_5ADY_053No text annotation
HL_5ADY_054No text annotation
HL_5ADY_057No text annotation
HL_5ADY_088No text annotation
HL_5ADY_058tRNA anticodon loop
HL_5ADY_060GNRA
HL_5ADY_061No text annotation
HL_5ADY_062No text annotation
HL_5ADY_063GNRA variation
HL_5ADY_080No text annotation
HL_5ADY_064No text annotation
HL_5ADY_065GNRA
HL_5ADY_066GNRA
HL_5ADY_081No text annotation
HL_5ADY_068No text annotation
HL_5ADY_069No text annotation
HL_5ADY_090No text annotation
HL_5ADY_082No text annotation
HL_5ADY_070No text annotation
HL_5ADY_083No text annotation
HL_5ADY_071GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5ADY_1321/B/31:35,
1/B/445:474		No text annotation
IL_5ADY_0071/B/36:37,
1/B/442:444		Single bulged A
homologous
IL_5J7L_246
NA
IL_5ADY_1331/B/82:85,
1/B/97:104		Kink-turn
geometric
IL_1U63_003
IL_24134.1
IL_5ADY_0231/B/672:678,
1/B/799:808		No text annotation
IL_5ADY_1671/B/844:848,
1/B/930:934		No text annotation
IL_5ADY_0381/B/870:872,
1/B/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
NA
IL_5ADY_1681/B/1004:1011,
1/B/1150:1151		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_11411.1
IL_5ADY_0441/B/1018:1024,
1/B/1140:1144		Kink-turn related
homologous
IL_4WF9_039
IL_57188.6
IL_5ADY_0451/B/1024:1030,
1/B/1124:1140		No text annotation
geometric
IL_5J7L_281
NA
IL_5ADY_0481/B/1043:1051,
1/B/1108:1112		Kink-turn
geometric
IL_5J7L_284
NA
IL_5ADY_1461/B/1196:1198,
1/B/1247:1250		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.5
IL_5ADY_0521/B/1202:1206,
1/B/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_5ADY_0561/B/1319:1323,
1/B/1331:1333		Major groove minor groove platform with tHH
homologous
IL_4WF9_050
IL_06671.1
IL_5ADY_1691/B/1415:1416,
1/B/1582:1587		No text annotation
homologous
IL_5J7L_294
NA
IL_5ADY_1531/B/1663:1665,
1/B/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_5ADY_1721/B/1666:1669,
1/B/1993:1994		Major groove platform; stack outside cWW
homologous
IL_5J7L_306
NA
IL_5ADY_0831/B/1798:1804,
1/B/1813:1821		Kink-turn related
homologous
IL_5J7L_313
NA
IL_5ADY_0891/B/1933:1945,
1/B/1961:1967		No text annotation
IL_5ADY_1781/B/2401:2403,
1/B/2414:2415		Single bulged U
homologous
IL_5J7L_334
NA
IL_5ADY_1101/B/2459:2461,
1/B/2489:2493		Major groove minor groove platform with extra cWW
homologous
IL_7RQB_094
NA
IL_5ADY_1151/B/2591:2592,
1/B/2601:2603		Single bulged A
homologous
IL_5J7L_344
NA
IL_5ADY_1171/B/2636:2640,
1/B/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_5ADY_1201/B/2687:2691,
1/B/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_5ADY_1221/B/2695:2696,
1/B/2711:2714		Multiple bulged bases
geometric
IL_5J7L_349
NA

Problematic loops

#loop idProblemSequence
IL_5ADY_001Major groove intercalation
IL_5ADY_002No text annotation
IL_5ADY_003No text annotation
IL_5ADY_165No text annotation
IL_5ADY_004Bacterial 5S Loop E
IL_5ADY_131No text annotation
IL_5ADY_005Isolated tHS basepair with bulges
IL_5ADY_006No text annotation
IL_5ADY_008Minor groove platform
IL_5ADY_009No text annotation
IL_5ADY_010Tandem non-canonical cWW pairs
IL_5ADY_0117x6 Sarcin-Ricin; G-bulge
IL_5ADY_012No text annotation
IL_5ADY_013No text annotation
IL_5ADY_134No text annotation
IL_5ADY_014Isolated non-canonical cWW pair
IL_5ADY_015Isolated non-canonical cWW pair
IL_5ADY_016Isolated cWH basepair
IL_5ADY_017No text annotation
IL_5ADY_018Isolated non-canonical cWW pair
IL_5ADY_019Double sheared
IL_5ADY_020No text annotation
IL_5ADY_021Isolated non-canonical cWW pair
IL_5ADY_135No text annotation
IL_5ADY_166No text annotation
IL_5ADY_022No text annotation
IL_5ADY_024Isolated non-canonical cWW pair
IL_5ADY_025Single bulged G
IL_5ADY_136Quadruple sheared
IL_5ADY_026Triple sheared
IL_5ADY_027Tandem non-canonical cWW pairs
IL_5ADY_028Isolated non-canonical cWW pair
IL_5ADY_137No text annotation
IL_5ADY_029Major groove platform with extra cWW
IL_5ADY_030Isolated non-canonical cWW pair
IL_5ADY_031Isolated non-canonical cWW pair
IL_5ADY_032No text annotation
IL_5ADY_138No text annotation
IL_5ADY_033Single stack bend
IL_5ADY_034Isolated non-canonical cWW pair
IL_5ADY_0357x7 Sarcin-Ricin with intercalated A; G-bulge
IL_5ADY_139No text annotation
IL_5ADY_036Single bulged G
IL_5ADY_140No text annotation
IL_5ADY_037C-loop with bulged stacked A's
IL_5ADY_141Tandem non-canonical cWW pairs
IL_5ADY_039No text annotation
IL_5ADY_142No text annotation
IL_5ADY_040Isolated cWS basepair
IL_5ADY_041UAA/GAN with extra cWW
IL_5ADY_042Isolated non-canonical cWW pair
IL_5ADY_043Single bulged U
IL_5ADY_046Isolated non-canonical cWW pair
IL_5ADY_047Tandem non-canonical cWW pairs
IL_5ADY_143Partly complementary
IL_5ADY_144No text annotation
IL_5ADY_049No text annotation
IL_5ADY_145Major groove platform
IL_5ADY_050Tandem non-canonical cWW pairs
IL_5ADY_051Self complementary
IL_5ADY_053Kink-turn
IL_5ADY_147No text annotation
IL_5ADY_054Isolated non-canonical cWW pair
IL_5ADY_1488x7 Sarcin-Ricin; G-bulge
IL_5ADY_055Isolated non-canonical cWW pair
IL_5ADY_057No text annotation
IL_5ADY_058No text annotation
IL_5ADY_149No text annotation
IL_5ADY_059No text annotation
IL_5ADY_060No text annotation
IL_5ADY_061UAA/GAN
IL_5ADY_150No text annotation
IL_5ADY_062Tandem non-canonical cWW pairs
IL_5ADY_063tSH-tHW
IL_5ADY_151No text annotation
IL_5ADY_064No text annotation
IL_5ADY_065Isolated non-canonical cWW pair
IL_5ADY_066tSH-tHW-tHS
IL_5ADY_067180 degree turn
IL_5ADY_068Isolated non-canonical cWW with bulges
IL_5ADY_170Single bulged A
IL_5ADY_069UAA/GAN variation
IL_5ADY_152Isolated non-canonical cWW pair
IL_5ADY_070Isolated non-canonical cWW pair
IL_5ADY_171No text annotation
IL_5ADY_071No text annotation
IL_5ADY_072Isolated non-canonical cWW pair
IL_5ADY_073No text annotation
IL_5ADY_074No text annotation
IL_5ADY_075Isolated non-canonical cWW pair
IL_5ADY_076tSH-tSH-tHH-tHS
IL_5ADY_077Isolated non-canonical cWW pair
IL_5ADY_154No text annotation
IL_5ADY_0786x5 Sarcin-Ricin; G-bulge
IL_5ADY_079Triple sheared
IL_5ADY_080Single bulged C
IL_5ADY_081No text annotation
IL_5ADY_082Single bulged A
IL_5ADY_084Major groove intercalation
IL_5ADY_085Major groove minor groove platform; mini C-loop
IL_5ADY_086No text annotation
IL_5ADY_155No text annotation
IL_5ADY_087UAA/GAN related
IL_5ADY_088No text annotation
IL_5ADY_090Isolated cWH basepair
IL_5ADY_156No text annotation
IL_5ADY_091No text annotation
IL_5ADY_092No text annotation
IL_5ADY_173No text annotation
IL_5ADY_093Single bulged U
IL_5ADY_174Minor groove platform
IL_5ADY_094No text annotation
IL_5ADY_095Isolated non-canonical cWW pair
IL_5ADY_096Isolated tHS basepair with bulges
IL_5ADY_097Isolated non-canonical cWW pair
IL_5ADY_157Triple non-canonical cWW pairs
IL_5ADY_098Isolated non-canonical cWW pair
IL_5ADY_099Isolated non-canonical cWW pair
IL_5ADY_100Isolated non-canonical cWW pair
IL_5ADY_158No text annotation
IL_5ADY_175No text annotation
IL_5ADY_159No text annotation
IL_5ADY_101No text annotation
IL_5ADY_102Single bulged U
IL_5ADY_103Tandem non-canonical cWW pairs
IL_5ADY_104Single stack bend
IL_5ADY_176No text annotation
IL_5ADY_105No text annotation
IL_5ADY_160No text annotation
IL_5ADY_177Double sheared with near cWW
IL_5ADY_106Double sheared
IL_5ADY_107Isolated non-canonical cWW pair
IL_5ADY_161Triple non-canonical cWW pairs
IL_5ADY_108Tandem non-canonical cWW pairs
IL_5ADY_162No text annotation
IL_5ADY_109Major groove platform
IL_5ADY_111Double sheared with non-canonical cWW
IL_5ADY_112No text annotation
IL_5ADY_179No text annotation
IL_5ADY_163No text annotation
IL_5ADY_113Major groove platform with intercalation
IL_5ADY_114Isolated non-canonical cWW pair
IL_5ADY_116Isolated non-canonical cWW pair
IL_5ADY_118Sarcin-Ricin target in LSU H95; G-bulge
IL_5ADY_180C-loop
IL_5ADY_119C-loop with extra cWW pair
IL_5ADY_121Isolated non-canonical cWW pair
IL_5ADY_123Isolated non-canonical cWW pair
IL_5ADY_124UAA/GAN with extra cWW
IL_5ADY_125Isolated cWH basepair
IL_5ADY_126No text annotation
IL_5ADY_164No text annotation
IL_5ADY_127Isolated non-canonical cWW pair
IL_5ADY_128No text annotation
IL_5ADY_129Multiple bulged bases with non-canonical cWW
IL_5ADY_130tHS double platform

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5ADY_0111/B/24:31,
1/B/474:484,
1/B/496:516		No text annotation
J3_5ADY_0191/B/683:689,
1/B/773:777,
1/B/787:794		No text annotation
J3_5ADY_0141/B/1055:1058,
1/B/1080:1087,
1/B/1102:1104		No text annotation
J3_5ADY_0071/B/2091:2093,
1/B/2196:2200,
1/B/2223:2228		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_5ADY_0221/B/2295:2297,
1/B/2321:2323,
1/B/2332:2337		No text annotation
homologous
J3_5J7L_045
NA
J3_5ADY_0081/B/2295:2299,
1/B/2317:2323,
1/B/2332:2337		No text annotation
homologous
J3_5J7L_071
NA
J4_5ADY_0121/B/1270:1276,
1/B/1294:1295,
1/B/1645:1648,
1/B/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_5ADY_0131/B/1310:1314,
1/B/1338:1343,
1/B/1404:1405,
1/B/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_5ADY_0081/B/1833:1840,
1/B/1902:1906,
1/B/1924:1933,
1/B/1967:1972		No text annotation
J4_5ADY_0101/B/2643:2646,
1/B/2674:2676,
1/B/2731:2735,
1/B/2769:2771		No text annotation
homologous
J4_4WF9_009
J4_77044.5
J5_5ADY_0051/B/584:589,
1/B/668:671,
1/B/809:812,
1/B/1195:1196,
1/B/1250:1256		No text annotation
homologous
J5_5J7L_015
NA
J5_5ADY_0031/B/1666:1682,
1/B/1706:1707,
1/B/1751:1752,
1/B/1756:1764,
1/B/1988:1994		No text annotation
J5_5ADY_0071/B/2057:2064,
1/B/2446:2455,
1/B/2496:2508,
1/B/2580:2588,
1/B/2606:2611		No text annotation
J6_5ADY_0031/B/45:46,
1/B/179:184,
1/B/212:224,
1/B/231:235,
1/B/262:266,
1/B/426:433		No text annotation
J6_5ADY_0041/B/2074:2080,
1/B/2240:2246,
1/B/2258:2259,
1/B/2281:2284,
1/B/2384:2395,
1/B/2421:2435		No text annotation
J7_5ADY_0021/B/817:822,
1/B/835:838,
1/B/940:946,
1/B/971:976,
1/B/987:991,
1/B/1163:1164,
1/B/1185:1190		No text annotation
J9_5ADY_0021/B/8:15,
1/B/525:533,
1/B/560:579,
1/B/1261:1262,
1/B/2017:2023,
1/B/2040:2043,
1/B/2625:2630,
1/B/2788:2789,
1/B/2894:2895		No text annotation

Problematic loops

#loop idProblemSequence
J3_5ADY_001No text annotation
J3_5ADY_012No text annotation
J3_5ADY_013No text annotation
J3_5ADY_002No text annotation
J3_5ADY_003No text annotation
J3_5ADY_004No text annotation
J3_5ADY_015No text annotation
J3_5ADY_020No text annotation
J3_5ADY_005No text annotation
J3_5ADY_021No text annotation
J3_5ADY_006No text annotation
J3_5ADY_016No text annotation
J3_5ADY_017No text annotation
J3_5ADY_009No text annotation
J3_5ADY_018No text annotation
J3_5ADY_010No text annotation
J4_5ADY_001No text annotation
J4_5ADY_011No text annotation
J4_5ADY_002No text annotation
J4_5ADY_003No text annotation
J4_5ADY_004No text annotation
J4_5ADY_005No text annotation
J4_5ADY_006No text annotation
J4_5ADY_014No text annotation
J4_5ADY_007No text annotation
J4_5ADY_015No text annotation
J4_5ADY_009No text annotation
J5_5ADY_001No text annotation
J5_5ADY_002No text annotation
J5_5ADY_006No text annotation
J5_5ADY_004No text annotation
J6_5ADY_001No text annotation
J6_5ADY_002No text annotation
J7_5ADY_001No text annotation
J9_5ADY_001No text annotation

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