RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6FTJ_0031/u/89:95No text annotation
homologous
HL_8C3A_003
NA
HL_6FTJ_0141/u/1317:1326T-loop with 2 stacked bulged bases
homologous
HL_5TBW_014
NA
HL_6FTJ_0211/u/1593:1602No text annotation
homologous
HL_5TBW_020
NA
HL_6FTJ_0221/u/1627:1635No text annotation
homologous
HL_5TBW_021
NA
HL_6FTJ_0431/u/2792:2799No text annotation
homologous
HL_5TBW_041
NA
HL_6FTJ_0441/u/2810:2816GNRA
homologous
HL_5TBW_042
NA
HL_6FTJ_0471/u/3639:3649No text annotation
homologous
HL_5TBW_046
NA
HL_6FTJ_0661/u/4540:4545GNRA
homologous
HL_8C3A_065
NA

Problematic loops

#loop idProblemSequence
HL_6FTJ_001No text annotation
HL_6FTJ_002No text annotation
HL_6FTJ_004No text annotation
HL_6FTJ_005T-loop with 2 stacked bulged bases
HL_6FTJ_006No text annotation
HL_6FTJ_007T-loop with unstacked turn
HL_6FTJ_008No text annotation
HL_6FTJ_009Pseudoknot geometry
HL_6FTJ_010GNRA
HL_6FTJ_011GNRA
HL_6FTJ_079No text annotation
HL_6FTJ_012GNRA
HL_6FTJ_013GNRA
HL_6FTJ_015No text annotation
HL_6FTJ_016GNRA
HL_6FTJ_017No text annotation
HL_6FTJ_018No text annotation
HL_6FTJ_019No text annotation
HL_6FTJ_020GNRA
HL_6FTJ_023Externally structured
HL_6FTJ_024GNRA
HL_6FTJ_025No text annotation
HL_6FTJ_026GNRA
HL_6FTJ_027No text annotation
HL_6FTJ_080No text annotation
HL_6FTJ_028No text annotation
HL_6FTJ_029GNRA wlth tandem sheared
HL_6FTJ_030No text annotation
HL_6FTJ_031GNRA
HL_6FTJ_032T-loop with 2 stacked bulged bases
HL_6FTJ_033Pseudoknot geometry with 3' bulge
HL_6FTJ_034GNRA variation
HL_6FTJ_035No text annotation
HL_6FTJ_036No text annotation
HL_6FTJ_037GNRA
HL_6FTJ_038GNRA
HL_6FTJ_081No text annotation
HL_6FTJ_039No text annotation
HL_6FTJ_040No text annotation
HL_6FTJ_041No text annotation
HL_6FTJ_042No text annotation
HL_6FTJ_045No text annotation
HL_6FTJ_082No text annotation
HL_6FTJ_046No text annotation
HL_6FTJ_048GNRA
HL_6FTJ_049No text annotation
HL_6FTJ_050No text annotation
HL_6FTJ_051No text annotation
HL_6FTJ_052No text annotation
HL_6FTJ_053No text annotation
HL_6FTJ_054UNCG
HL_6FTJ_055No text annotation
HL_6FTJ_056No text annotation
HL_6FTJ_057No text annotation
HL_6FTJ_058No text annotation
HL_6FTJ_059Pseudoknot geometry
HL_6FTJ_060No text annotation
HL_6FTJ_061GNRA
HL_6FTJ_062No text annotation
HL_6FTJ_063No text annotation
HL_6FTJ_064GNRA with extra cWW
HL_6FTJ_065No text annotation
HL_6FTJ_067GNRA
HL_6FTJ_068Ribsomal LSU H95
HL_6FTJ_069No text annotation
HL_6FTJ_070No text annotation
HL_6FTJ_071No text annotation
HL_6FTJ_072UNCG variation
HL_6FTJ_083No text annotation
HL_6FTJ_073No text annotation
HL_6FTJ_074GNRA
HL_6FTJ_075Pseudoknot with intercalation
HL_6FTJ_076No text annotation
HL_6FTJ_077No text annotation
HL_6FTJ_078No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6FTJ_0191/u/387:390,
1/u/401:414		No text annotation
homologous
IL_5TBW_014
NA
IL_6FTJ_0581/u/1590:1592,
1/u/1603:1604		Single bulged U
homologous
IL_8C3A_035
NA
IL_6FTJ_0591/u/1624:1626,
1/u/1636:1640		Multiple bulged bases
homologous
IL_5TBW_033
NA
IL_6FTJ_1011/u/2832:2838,
1/u/3850:3853		No text annotation
homologous
IL_5TBW_074
NA
IL_6FTJ_1841/u/2847:2855,
1/u/3837:3841		No text annotation
homologous
IL_8C3A_484
NA
IL_6FTJ_1041/u/2850:2855,
1/u/3837:3840		Intercalated tWH
geometric
IL_5TBW_077
NA
IL_6FTJ_1181/u/3781:3792,
1/u/3808:3811		No text annotation
geometric
IL_5TBW_090
NA
IL_6FTJ_1201/u/3900:3902,
1/u/4558:4561		No text annotation
homologous
IL_8C3A_097
NA
IL_6FTJ_1211/u/3913:3915,
1/u/4388:4389		Single bulged U
homologous
IL_5TBW_093
NA
IL_6FTJ_1221/u/3916:3917,
1/u/4384:4387		Minor groove platform
homologous
IL_5TBW_094
NA
IL_6FTJ_1361/u/4453:4454,
1/u/4526:4528		Major groove platform
homologous
IL_8C3A_115
NA
IL_6FTJ_1371/u/4456:4458,
1/u/4520:4524		Isolated non-canonical cWW with bulges
homologous
IL_5TBW_108
NA
IL_6FTJ_1381/u/4458:4459,
1/u/4517:4520		No text annotation
homologous
IL_8C3A_117
NA

Problematic loops

#loop idProblemSequence
IL_6FTJ_001Single bulged C
IL_6FTJ_002Single bulged U
IL_6FTJ_003Isolated non-canonical cWW pair
IL_6FTJ_004Single stack bend
IL_6FTJ_0059x8 Sarcin-Ricin; G-bulge
IL_6FTJ_006No text annotation
IL_6FTJ_007Multiple bulged bases
IL_6FTJ_176No text annotation
IL_6FTJ_008No text annotation
IL_6FTJ_009No text annotation
IL_6FTJ_010No text annotation
IL_6FTJ_011Single stack bend
IL_6FTJ_012Major groove intercalation
IL_6FTJ_013Single bulged C
IL_6FTJ_014Single bulged U
IL_6FTJ_015Not an internal loop
IL_6FTJ_016Single stack bend
IL_6FTJ_017Minor groove platform, major groove intercalation
IL_6FTJ_018Single bulged A
IL_6FTJ_020Triple sheared with non-canonical cWW
IL_6FTJ_021No text annotation
IL_6FTJ_022No text annotation
IL_6FTJ_023Isolated non-canonical cWW pair
IL_6FTJ_177No text annotation
IL_6FTJ_024No text annotation
IL_6FTJ_025Decoding loop related
IL_6FTJ_026No text annotation
IL_6FTJ_027Single stack bend
IL_6FTJ_028No text annotation
IL_6FTJ_178Single stack bend
IL_6FTJ_029No text annotation
IL_6FTJ_030Single bulged A
IL_6FTJ_031Isolated non-canonical cWW pair
IL_6FTJ_032Single bulged G
IL_6FTJ_033No text annotation
IL_6FTJ_179No text annotation
IL_6FTJ_034No text annotation
IL_6FTJ_035No text annotation
IL_6FTJ_036Single stack bend
IL_6FTJ_037Isolated non-canonical cWW pair
IL_6FTJ_180No text annotation
IL_6FTJ_038No text annotation
IL_6FTJ_039No text annotation
IL_6FTJ_040Tandem non-canonical cWW pairs
IL_6FTJ_181No text annotation
IL_6FTJ_041No text annotation
IL_6FTJ_042Minor groove platform
IL_6FTJ_043No text annotation
IL_6FTJ_044Single bulged C
IL_6FTJ_045Single stack bend
IL_6FTJ_046Isolated near basepair
IL_6FTJ_047No text annotation
IL_6FTJ_048No text annotation
IL_6FTJ_049Triple sheared related
IL_6FTJ_050Double sheared
IL_6FTJ_051Single bulged A
IL_6FTJ_052Single base bend
IL_6FTJ_053Isolated non-canonical cWW pair
IL_6FTJ_054tHW-tHW cross-strand stack
IL_6FTJ_055Single bulged G
IL_6FTJ_056Triple sheared
IL_6FTJ_057Major groove platform with extra cWW
IL_6FTJ_189Isolated non-canonical cWW pair
IL_6FTJ_060Tandem non-canonical cWW pairs
IL_6FTJ_061No text annotation
IL_6FTJ_062No text annotation
IL_6FTJ_0635x5 Sarcin-Ricin with intercalated A; G-bulge
IL_6FTJ_064Minor groove platform
IL_6FTJ_065C-loop
IL_6FTJ_066Tandem non-canonical cWW pairs
IL_6FTJ_067Isolated non-canonical cWW pair
IL_6FTJ_068Intercalated cWW
IL_6FTJ_069Single stack bend
IL_6FTJ_182Tandem non-canonical cWW pairs
IL_6FTJ_070Isolated non-canonical cWW pair
IL_6FTJ_071Isolated non-canonical cWW pair
IL_6FTJ_072Isolated cWS basepair
IL_6FTJ_073UAA/GAN
IL_6FTJ_074SSU/LSU pseudoknot
IL_6FTJ_075No text annotation
IL_6FTJ_076No text annotation
IL_6FTJ_077No text annotation
IL_6FTJ_078No text annotation
IL_6FTJ_079Single bulged U
IL_6FTJ_080Kink-turn
IL_6FTJ_081No text annotation
IL_6FTJ_082Major groove platform with extra cWW
IL_6FTJ_083Single bulged C
IL_6FTJ_183No text annotation
IL_6FTJ_084Isolated cWS basepair
IL_6FTJ_085Single bulged A
IL_6FTJ_086Kink-turn
IL_6FTJ_087Single bulged A
IL_6FTJ_0887x6 Sarcin-Ricin; G-bulge
IL_6FTJ_089C-loop
IL_6FTJ_090UAA/GAN
IL_6FTJ_091Not an internal loop
IL_6FTJ_092Isolated non-canonical cWW pair
IL_6FTJ_093Triple sheared
IL_6FTJ_094Single bulged C
IL_6FTJ_095Single stack bend
IL_6FTJ_096Single stack bend
IL_6FTJ_097Isolated tHS basepair with bulges
IL_6FTJ_098Single bulged G
IL_6FTJ_099Kink-turn
IL_6FTJ_100No text annotation
IL_6FTJ_102Isolated tWW turn
IL_6FTJ_103Major groove platform; stack outside cWW
IL_6FTJ_105No text annotation
IL_6FTJ_106Isolated non-canonical cWW pair
IL_6FTJ_107No text annotation
IL_6FTJ_108No text annotation
IL_6FTJ_109Single bulged A
IL_6FTJ_110Kink-turn related
IL_6FTJ_111No text annotation
IL_6FTJ_112Multiple bulged bases
IL_6FTJ_113Single stack bend
IL_6FTJ_114No text annotation
IL_6FTJ_115No text annotation
IL_6FTJ_116Single stack bend
IL_6FTJ_117Bulged stacked bases
IL_6FTJ_119Major groove platform with extra pair
IL_6FTJ_123No text annotation
IL_6FTJ_124No text annotation
IL_6FTJ_125Minor groove platform
IL_6FTJ_126Single bulged A
IL_6FTJ_127Isolated tHS basepair with bulges
IL_6FTJ_128Single bulged A
IL_6FTJ_129Tandem non-canonical cWW pairs
IL_6FTJ_130Single stack bend
IL_6FTJ_131Major groove platform
IL_6FTJ_132Isolated non-canonical cWW pair
IL_6FTJ_133Major groove platform
IL_6FTJ_134Major groove minor groove platform with extra cWW
IL_6FTJ_135No text annotation
IL_6FTJ_139Isolated non-canonical cWW pair
IL_6FTJ_185No text annotation
IL_6FTJ_140No text annotation
IL_6FTJ_141Single stack bend
IL_6FTJ_142Isolated non-canonical cWW pair
IL_6FTJ_143Single bulged A
IL_6FTJ_186No text annotation
IL_6FTJ_144Tandem non-canonical cWW pairs
IL_6FTJ_145Double sheared
IL_6FTJ_146Isolated non-canonical cWW pair
IL_6FTJ_1478x7 Sarcin-Ricin; G-bulge
IL_6FTJ_148No text annotation
IL_6FTJ_149UAA/GAN related
IL_6FTJ_150Isolated cWH basepair
IL_6FTJ_151Multiple bulged bases
IL_6FTJ_152UAA/GAN
IL_6FTJ_153No text annotation
IL_6FTJ_187No text annotation
IL_6FTJ_154Tandem non-canonical cWW pairs
IL_6FTJ_155No text annotation
IL_6FTJ_156Tandem non-canonical cWW pairs
IL_6FTJ_188No text annotation
IL_6FTJ_157Tandem non-canonical cWW pairs
IL_6FTJ_158No text annotation
IL_6FTJ_159No text annotation
IL_6FTJ_160Single stack bend
IL_6FTJ_161Tandem non-canonical cWW pairs
IL_6FTJ_162Isolated non-canonical cWW pair
IL_6FTJ_163Single bulged C
IL_6FTJ_164Isolated non-canonical cWW pair
IL_6FTJ_165No text annotation
IL_6FTJ_166Single bulged U
IL_6FTJ_167Double sheared; A in syn
IL_6FTJ_168Single bulged A
IL_6FTJ_169Minor groove platform related
IL_6FTJ_170Major groove minor groove platform; mini C-loop
IL_6FTJ_171Symmetric double minor groove platform
IL_6FTJ_1728x7 Sarcin-Ricin; G-bulge
IL_6FTJ_173No text annotation
IL_6FTJ_174Isolated non-canonical cWW pair
IL_6FTJ_175Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6FTJ_0191/u/351:367,
1/u/374:379,
1/w/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_6FTJ_0201/u/380:390,
1/u/401:415,
1/w/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_6FTJ_0051/u/1531:1537,
1/u/1622:1624,
1/u/1640:1643		No text annotation
homologous
J3_5TBW_004
NA
J3_6FTJ_0061/u/1545:1548,
1/u/1580:1584,
1/u/1609:1614		No text annotation
homologous
J3_5TBW_005
NA
J3_6FTJ_0071/u/2393:2399,
1/u/2805:2807,
1/u/2819:2822		No text annotation
homologous
J3_5TBW_008
NA
J3_6FTJ_0081/u/2402:2405,
1/u/2785:2791,
1/u/2800:2802		No text annotation
homologous
J3_5TBW_009
NA
J4_6FTJ_0051/u/2406:2410,
1/u/2434:2439,
1/u/2538:2539,
1/u/2777:2784		No text annotation
homologous
J4_8C3A_004
NA
J4_6FTJ_0081/u/3696:3698,
1/u/3752:3754,
1/u/3770:3780,
1/u/3814:3819		No text annotation
J5_6FTJ_0041/u/3903:3910,
1/u/4392:4400,
1/u/4444:4453,
1/u/4528:4534,
1/u/4552:4557		No text annotation

Problematic loops

#loop idProblemSequence
J3_6FTJ_001No text annotation
J3_6FTJ_018No text annotation
J3_6FTJ_002No text annotation
J3_6FTJ_003No text annotation
J3_6FTJ_004No text annotation
J3_6FTJ_021No text annotation
J3_6FTJ_022No text annotation
J3_6FTJ_009No text annotation
J3_6FTJ_023No text annotation
J3_6FTJ_024No text annotation
J3_6FTJ_010No text annotation
J3_6FTJ_025No text annotation
J3_6FTJ_011No text annotation
J3_6FTJ_012No text annotation
J3_6FTJ_026No text annotation
J3_6FTJ_013No text annotation
J3_6FTJ_014No text annotation
J3_6FTJ_027No text annotation
J3_6FTJ_015No text annotation
J3_6FTJ_016No text annotation
J3_6FTJ_017No text annotation
J4_6FTJ_001No text annotation
J4_6FTJ_002No text annotation
J4_6FTJ_003No text annotation
J4_6FTJ_004No text annotation
J4_6FTJ_006No text annotation
J4_6FTJ_007No text annotation
J4_6FTJ_009No text annotation
J4_6FTJ_010No text annotation
J4_6FTJ_011No text annotation
J5_6FTJ_001No text annotation
J5_6FTJ_002No text annotation
J5_6FTJ_003No text annotation
J5_6FTJ_005No text annotation
J6_6FTJ_001No text annotation
J6_6FTJ_002No text annotation
J6_6FTJ_003No text annotation
J7_6FTJ_001No text annotation

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