RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5LZC_0031/A/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.6
HL_5LZC_0201/A/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
NA
HL_5LZC_0331/A/1389:1398No text annotation
homologous
HL_5J7L_168
NA
HL_5LZC_0381/A/1612:1619No text annotation
homologous
HL_5J7L_173
NA
HL_5LZC_0401/A/1691:1696UNCG
geometric
HL_5D5L_003
HL_61337.1
HL_5LZC_0431/A/1777:1787No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_5LZC_0481/A/2027:2036No text annotation
homologous
HL_5J7L_183
NA
HL_5LZC_1121/A/2304:2312No text annotation
homologous
HL_5J7L_219
NA
HL_5LZC_0771/a/320:333No text annotation
homologous
HL_6CZR_079
NA

Problematic loops

#loop idProblemSequence
HL_5LZC_001No text annotation
HL_5LZC_002No text annotation
HL_5LZC_004No text annotation
HL_5LZC_005No text annotation
HL_5LZC_006No text annotation
HL_5LZC_007No text annotation
HL_5LZC_008No text annotation
HL_5LZC_009T-loop with 2 stacked bulged bases
HL_5LZC_010T-loop with unstacked turn
HL_5LZC_011No text annotation
HL_5LZC_012No text annotation
HL_5LZC_013GNRA
HL_5LZC_014GNRA
HL_5LZC_015No text annotation
HL_5LZC_117Mini UNCG with extended bulge
HL_5LZC_016T-loop with 2 stacked bulged bases
HL_5LZC_017No text annotation
HL_5LZC_018GNRA
HL_5LZC_019No text annotation
HL_5LZC_021No text annotation
HL_5LZC_022No text annotation
HL_5LZC_023No text annotation
HL_5LZC_024No text annotation
HL_5LZC_118No text annotation
HL_5LZC_025No text annotation
HL_5LZC_110GNRA
HL_5LZC_026No text annotation
HL_5LZC_027GNRA wlth tandem sheared
HL_5LZC_028No text annotation
HL_5LZC_111No text annotation
HL_5LZC_029GNRA
HL_5LZC_030T-loop with 2 stacked bulged bases
HL_5LZC_031Pseudoknot geometry with 3' bulge
HL_5LZC_032GNRA
HL_5LZC_034Mini UNCG with extended bulge
HL_5LZC_035Pseudoknot geometry with 3' bulge
HL_5LZC_036No text annotation
HL_5LZC_037Mini UNCG
HL_5LZC_039GNRA
HL_5LZC_041Mini UNCG
HL_5LZC_042No text annotation
HL_5LZC_044GNRA related
HL_5LZC_045GNRA variation
HL_5LZC_046No text annotation
HL_5LZC_047No text annotation
HL_5LZC_049No text annotation
HL_5LZC_050No text annotation
HL_5LZC_051No text annotation
HL_5LZC_052No text annotation
HL_5LZC_053No text annotation
HL_5LZC_054Pseudoknot geometry
HL_5LZC_055GNRA
HL_5LZC_056GNRA
HL_5LZC_057No text annotation
HL_5LZC_058No text annotation
HL_5LZC_059GNRA variation
HL_5LZC_060No text annotation
HL_5LZC_061GNRA
HL_5LZC_062GNRA
HL_5LZC_063Ribsomal LSU H95
HL_5LZC_064No text annotation
HL_5LZC_065UNCG variation
HL_5LZC_119No text annotation
HL_5LZC_066No text annotation
HL_5LZC_067GNRA
HL_5LZC_113No text annotation
HL_5LZC_068No text annotation
HL_5LZC_069Mini UNCG
HL_5LZC_070No text annotation
HL_5LZC_114No text annotation
HL_5LZC_071No text annotation
HL_5LZC_072GNRA
HL_5LZC_073GNRA
HL_5LZC_074No text annotation
HL_5LZC_075GNRA related
HL_5LZC_076GNRA
HL_5LZC_078UNCG
HL_5LZC_079GNRA
HL_5LZC_080UNCG
HL_5LZC_081GNRA wlth extra near cWW
HL_5LZC_082No text annotation
HL_5LZC_115GNRA variation
HL_5LZC_083GNRA-like with tWH
HL_5LZC_084No text annotation
HL_5LZC_085GNRA
HL_5LZC_086No text annotation
HL_5LZC_087No text annotation
HL_5LZC_088GNRA
HL_5LZC_089GNRA
HL_5LZC_090No text annotation
HL_5LZC_091GNRA
HL_5LZC_092No text annotation
HL_5LZC_093GNRA
HL_5LZC_094T-loop related
HL_5LZC_095No text annotation
HL_5LZC_096GNRA
HL_5LZC_097GNRA
HL_5LZC_098T-loop with 3 stacked bulged bases
HL_5LZC_099No text annotation
HL_5LZC_100UNCG
HL_5LZC_101GNRA
HL_5LZC_102tRNA D-loop
HL_5LZC_103tRNA anticodon loop
HL_5LZC_104T-loop with 2 stacked bulged bases
HL_5LZC_105No text annotation
HL_5LZC_106tRNA D-loop
HL_5LZC_107No text annotation
HL_5LZC_116No text annotation
HL_5LZC_108No text annotation
HL_5LZC_109T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5LZC_0141/A/606:610,
1/A/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
NA
IL_5LZC_0171/A/697:698,
1/A/763:765		Single bulged A
geometric
IL_5J7L_261
NA
IL_5LZC_0191/A/703:707,
1/A/724:728		Triple sheared
geometric
IL_4WF9_024
IL_15190.1
IL_5LZC_0211/A/775:777,
1/A/787:791		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_5LZC_0371/A/1024:1030,
1/A/1124:1140		No text annotation
geometric
IL_5J7L_281
NA
IL_5LZC_0721/A/1841:1842,
1/A/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_5LZC_1851/A/1851:1860,
1/A/1882:1891		No text annotation
homologous
IL_5J7L_387
NA
IL_5LZC_0761/A/1934:1945,
1/A/1961:1964		No text annotation
geometric
IL_4WF9_077
IL_84014.1
IL_5LZC_0811/A/2070:2071,
1/A/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_5LZC_0921/A/2401:2403,
1/A/2414:2415		No text annotation
IL_5LZC_1911/A/2507:2508,
1/A/2580:2582		Major groove platform
homologous
IL_5J7L_394
NA
IL_5LZC_1001/A/2522:2523,
1/A/2540:2543		Major groove platform with intercalation
homologous
IL_5J7L_342
NA
IL_5LZC_1031/A/2636:2640,
1/A/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_5LZC_1051/A/2680:2684,
1/A/2725:2727		C-loop
homologous
IL_5J7L_347
NA
IL_5LZC_1121/A/2847:2852,
1/A/2865:2869		tHS double platform
homologous
IL_5J7L_354
NA
IL_5LZC_1221/a/63:66,
1/a/103:104		Multiple bulged bases
homologous
IL_6CZR_117
NA
IL_5LZC_1311/a/242:247,
1/a/277:284		Kink-turn with non-sequential stacking
homologous
IL_6CZR_123
NA
IL_5LZC_2001/a/249:252,
1/a/274:275		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_5LZC_1421/a/515:521,
1/a/528:536		Kink-turn related
homologous
IL_4LFB_021
IL_52042.1
IL_5LZC_1691/a/1247:1253,
1/a/1284:1290		No text annotation
homologous
IL_5J7L_054
NA
IL_5LZC_1771/a/1416:1419,
1/a/1481:1484		Double sheared
homologous
IL_6CZR_169
NA

Problematic loops

#loop idProblemSequence
IL_5LZC_001Triple sheared with non-canonical cWW
IL_5LZC_002Single bulged A
IL_5LZC_003Minor groove platform
IL_5LZC_004No text annotation
IL_5LZC_005Single stack bend
IL_5LZC_0068x7 Sarcin-Ricin; G-bulge
IL_5LZC_0077x6 Sarcin-Ricin; G-bulge
IL_5LZC_008No text annotation
IL_5LZC_009No text annotation
IL_5LZC_010No text annotation
IL_5LZC_011No text annotation
IL_5LZC_012Double sheared
IL_5LZC_013Isolated non-canonical cWW pair
IL_5LZC_015Isolated non-canonical cWW pair
IL_5LZC_016tHW-tHW cross-strand stack
IL_5LZC_018Single bulged G
IL_5LZC_020Major groove platform
IL_5LZC_022Single stack bend
IL_5LZC_02390 degree turn
IL_5LZC_182No text annotation
IL_5LZC_024Stack outside cWW
IL_5LZC_025Single stack bend
IL_5LZC_0267x7 Sarcin-Ricin with intercalated A; G-bulge
IL_5LZC_027Single bulged G
IL_5LZC_028C-loop with bulged stacked A's
IL_5LZC_029Isolated non-canonical cWW pair
IL_5LZC_030Double sheared with non-canonical cWW
IL_5LZC_031Isolated cWS basepair
IL_5LZC_032Single bulged C
IL_5LZC_033UAA/GAN
IL_5LZC_034SSU/LSU pseudoknot
IL_5LZC_035Single bulged U
IL_5LZC_036No text annotation
IL_5LZC_038Isolated non-canonical cWW pair
IL_5LZC_039Tandem non-canonical cWW pairs
IL_5LZC_040Kink-turn
IL_5LZC_041No text annotation
IL_5LZC_042Major groove platform
IL_5LZC_043Isolated cWS basepair
IL_5LZC_044No text annotation
IL_5LZC_045Kink-turn
IL_5LZC_0468x7 Sarcin-Ricin; G-bulge
IL_5LZC_047Major groove platform; stack outside cWW
IL_5LZC_048C-loop
IL_5LZC_197Intercalated cWW
IL_5LZC_049UAA/GAN
IL_5LZC_198No text annotation
IL_5LZC_050tSH-tHW-tHS
IL_5LZC_051No text annotation
IL_5LZC_052UAA/GAN
IL_5LZC_053Tandem non-canonical cWW pairs
IL_5LZC_054tSH-tHW
IL_5LZC_055Single bulged U
IL_5LZC_056No text annotation
IL_5LZC_183tSH-tHW-tHS
IL_5LZC_057No text annotation
IL_5LZC_058180 degree turn
IL_5LZC_059Single bulged A
IL_5LZC_060UAA/GAN variation
IL_5LZC_061No text annotation
IL_5LZC_062Isolated tWW turn
IL_5LZC_063Major groove platform; stack outside cWW
IL_5LZC_184No text annotation
IL_5LZC_064Intercalated tWH
IL_5LZC_065tSH-tSH-tHH-tHS
IL_5LZC_0666x5 Sarcin-Ricin; G-bulge
IL_5LZC_067Triple sheared
IL_5LZC_068Single bulged C
IL_5LZC_069Single bulged A
IL_5LZC_070Kink-turn related
IL_5LZC_071Minor groove platform, major groove intercalation
IL_5LZC_073Major groove minor groove platform; mini C-loop
IL_5LZC_074UAA/GAN related
IL_5LZC_075Bulged stacked bases
IL_5LZC_077Major groove platform
IL_5LZC_078No text annotation
IL_5LZC_079No text annotation
IL_5LZC_186Single bulged U
IL_5LZC_080Isolated non-canonical cWW pair
IL_5LZC_082Isolated tHS basepair with bulges
IL_5LZC_083Isolated non-canonical cWW pair
IL_5LZC_084Isolated non-canonical cWW pair
IL_5LZC_085No text annotation
IL_5LZC_187No text annotation
IL_5LZC_086No text annotation
IL_5LZC_087No text annotation
IL_5LZC_088No text annotation
IL_5LZC_089No text annotation
IL_5LZC_090Single bulged U
IL_5LZC_091Double sheared
IL_5LZC_188Single stack bend
IL_5LZC_093No text annotation
IL_5LZC_189Major groove platform
IL_5LZC_094No text annotation
IL_5LZC_190Major groove platform
IL_5LZC_095Major groove minor groove platform with extra cWW
IL_5LZC_096Double sheared with non-canonical cWW
IL_5LZC_097No text annotation
IL_5LZC_098Isolated non-canonical cWW with bulges
IL_5LZC_099No text annotation
IL_5LZC_101No text annotation
IL_5LZC_102Single bulged A
IL_5LZC_104Sarcin-Ricin target in LSU H95; G-bulge
IL_5LZC_106UAA/GAN related, with intercalation
IL_5LZC_107Multiple bulged bases
IL_5LZC_108UAA/GAN with extra cWW
IL_5LZC_199Single bulged A
IL_5LZC_109No text annotation
IL_5LZC_110Major groove intercalation
IL_5LZC_111Multiple bulged bases with non-canonical cWW
IL_5LZC_113Major groove intercalation
IL_5LZC_114No text annotation
IL_5LZC_115Major groove minor groove platform; mini C-loop
IL_5LZC_116Symmetric double minor groove platform
IL_5LZC_117Bacterial 5S Loop E
IL_5LZC_118Single bulged G
IL_5LZC_119Single bulged A
IL_5LZC_120No text annotation
IL_5LZC_121Minor groove platform
IL_5LZC_123Minor groove platform with extra cWW
IL_5LZC_124Minor groove platform
IL_5LZC_192Single bulged G
IL_5LZC_125Single bulged G, near cWW
IL_5LZC_126Isolated non-canonical cWW pair
IL_5LZC_127No text annotation
IL_5LZC_128Isolated cWH basepair
IL_5LZC_129tWH-tWH-tHW-tHW
IL_5LZC_130No text annotation
IL_5LZC_132No text annotation
IL_5LZC_133C-loop
IL_5LZC_134Single bulged U
IL_5LZC_135C-loop
IL_5LZC_136Single bulged G
IL_5LZC_137No text annotation
IL_5LZC_193No text annotation
IL_5LZC_138No text annotation
IL_5LZC_139tSH-tHW-tWW
IL_5LZC_140No text annotation
IL_5LZC_141SSU/LSU pseudoknot
IL_5LZC_143No text annotation
IL_5LZC_144tSH-tHW-tHS
IL_5LZC_145Major groove platform
IL_5LZC_146Major groove minor groove platform; mini C-loop
IL_5LZC_147No text annotation
IL_5LZC_148Major groove platform; stack outside cWW
IL_5LZC_149Single stack bend
IL_5LZC_150Tandem non-canonical cWW pairs
IL_5LZC_201Triple non-canonical cWW pairs
IL_5LZC_151Kink-turn
IL_5LZC_152Left turn
IL_5LZC_153tSH-tHW-tHS
IL_5LZC_1548x6 Sarcin-Ricin with inserted Y; G-bulge
IL_5LZC_155Single bulged A
IL_5LZC_194Isolated non-canonical cWW with bulges
IL_5LZC_156Single bulged G
IL_5LZC_157Minor groove platform
IL_5LZC_158Minor groove platform
IL_5LZC_159Minor groove platform
IL_5LZC_160Single stack bend
IL_5LZC_161Single bulged U
IL_5LZC_162No text annotation
IL_5LZC_163Isolated cWS basepair
IL_5LZC_164Minor groove platform
IL_5LZC_165Single bulged A
IL_5LZC_166Isolated non-canonical cWW pair
IL_5LZC_167No text annotation
IL_5LZC_168Minor groove platform
IL_5LZC_170180 degree turn
IL_5LZC_171Double sheared with non-canonical cWW
IL_5LZC_172No text annotation
IL_5LZC_173No text annotation
IL_5LZC_174No text annotation
IL_5LZC_195Isolated non-canonical cWW pair
IL_5LZC_175No text annotation
IL_5LZC_196No text annotation
IL_5LZC_176Isolated non-canonical cWW pair
IL_5LZC_178Triple sheared related
IL_5LZC_179Single bulged A
IL_5LZC_180No text annotation
IL_5LZC_181Single bulged U

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5LZC_0271/A/32:35,
1/A/445:461,
1/A/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_5LZC_0031/A/683:689,
1/A/773:775,
1/A/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_5LZC_0051/A/1298:1303,
1/A/1625:1627,
1/A/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_5LZC_0111/A/2789:2791,
1/A/2805:2806,
1/A/2892:2894		No text annotation
homologous
J3_5J7L_047
NA
J3_5LZC_0251/a/1237:1241,
1/a/1296:1303,
1/a/1334:1337		No text annotation
homologous
J3_5J7L_011
NA
J4_5LZC_0011/A/268:269,
1/A/370:375,
1/A/399:406,
1/A/421:424		No text annotation
homologous
J4_5J7L_018
NA
J4_5LZC_0071/A/1772:1776,
1/A/1788:1792,
1/A/1827:1830,
1/A/1975:1979		No text annotation
homologous
J4_5J7L_025
NA
J4_5LZC_0081/A/1833:1835,
1/A/1905:1906,
1/A/1924:1933,
1/A/1967:1972		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J5_5LZC_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_5J7L_015
NA
J5_5LZC_0051/A/2057:2064,
1/A/2446:2453,
1/A/2500:2507,
1/A/2582:2588,
1/A/2606:2611		No text annotation
J5_5LZC_0061/A/2074:2077,
1/A/2243:2246,
1/A/2258:2259,
1/A/2281:2282,
1/A/2427:2435		No text annotation
homologous
J5_4WF9_007
J5_39529.2
J6_5LZC_0021/A/2074:2077,
1/A/2243:2246,
1/A/2258:2259,
1/A/2281:2284,
1/A/2384:2395,
1/A/2421:2435		No text annotation

Problematic loops

#loop idProblemSequence
J3_5LZC_001No text annotation
J3_5LZC_026No text annotation
J3_5LZC_002No text annotation
J3_5LZC_028No text annotation
J3_5LZC_004No text annotation
J3_5LZC_006No text annotation
J3_5LZC_007No text annotation
J3_5LZC_029No text annotation
J3_5LZC_008Kink-turn 3-way junction
J3_5LZC_030No text annotation
J3_5LZC_009No text annotation
J3_5LZC_010No text annotation
J3_5LZC_012No text annotation
J3_5LZC_013No text annotation
J3_5LZC_014No text annotation
J3_5LZC_031No text annotation
J3_5LZC_015No text annotation
J3_5LZC_032No text annotation
J3_5LZC_038No text annotation
J3_5LZC_033No text annotation
J3_5LZC_016No text annotation
J3_5LZC_017No text annotation
J3_5LZC_018No text annotation
J3_5LZC_019No text annotation
J3_5LZC_020No text annotation
J3_5LZC_034No text annotation
J3_5LZC_035No text annotation
J3_5LZC_021No text annotation
J3_5LZC_036No text annotation
J3_5LZC_022No text annotation
J3_5LZC_037No text annotation
J3_5LZC_023No text annotation
J3_5LZC_024No text annotation
J4_5LZC_002No text annotation
J4_5LZC_003No text annotation
J4_5LZC_004No text annotation
J4_5LZC_005No text annotation
J4_5LZC_006No text annotation
J4_5LZC_009No text annotation
J4_5LZC_010No text annotation
J4_5LZC_011No text annotation
J4_5LZC_012No text annotation
J4_5LZC_013No text annotation
J4_5LZC_014tRNA junction
J5_5LZC_001No text annotation
J5_5LZC_002No text annotation
J5_5LZC_004No text annotation
J5_5LZC_007No text annotation
J5_5LZC_008No text annotation
J5_5LZC_009No text annotation
J5_5LZC_010No text annotation
J6_5LZC_001No text annotation
J7_5LZC_001No text annotation
J7_5LZC_002No text annotation

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