RNA 3D Hub //

9H3M Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_9H3M_0101/A/319:323No text annotation
homologous
HL_7A0S_011
HL_75660.7
HL_9H3M_0111/A/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_9H3M_0321/A/1389:1398No text annotation
homologous
HL_5J7L_168
NA

Problematic loops

#loop idProblemSequence
HL_9H3M_001No text annotation
HL_9H3M_002No text annotation
HL_9H3M_003No text annotation
HL_9H3M_004No text annotation
HL_9H3M_005No text annotation
HL_9H3M_006No text annotation
HL_9H3M_007No text annotation
HL_9H3M_008No text annotation
HL_9H3M_009T-loop with 2 stacked bulged bases
HL_9H3M_012No text annotation
HL_9H3M_013No text annotation
HL_9H3M_014GNRA
HL_9H3M_015GNRA
HL_9H3M_016No text annotation
HL_9H3M_017No text annotation
HL_9H3M_018No text annotation
HL_9H3M_019No text annotation
HL_9H3M_020GNRA
HL_9H3M_021GNRA wlth tandem sheared
HL_9H3M_022No text annotation
HL_9H3M_023No text annotation
HL_9H3M_024No text annotation
HL_9H3M_025GNRA
HL_9H3M_026No text annotation
HL_9H3M_027No text annotation
HL_9H3M_028GNRA
HL_9H3M_029T-loop with 2 stacked bulged bases
HL_9H3M_030Pseudoknot geometry with 3' bulge
HL_9H3M_031GNRA
HL_9H3M_033Mini UNCG with extended bulge
HL_9H3M_034No text annotation
HL_9H3M_035UNCG
HL_9H3M_036Mini UNCG
HL_9H3M_037No text annotation
HL_9H3M_038GNRA
HL_9H3M_039No text annotation
HL_9H3M_040No text annotation
HL_9H3M_041No text annotation
HL_9H3M_042GNRA
HL_9H3M_043Ribsomal LSU H95
HL_9H3M_044No text annotation
HL_9H3M_045Mini UNCG
HL_9H3M_046No text annotation
HL_9H3M_047GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_9H3M_0121/A/481:484,
1/A/496:509		No text annotation
homologous
IL_5J7L_255
NA
IL_9H3M_0261/A/998:1002,
1/A/1153:1157		UAA/GAN
homologous
IL_5J7L_277
NA
IL_9H3M_0301/A/1196:1198,
1/A/1247:1250		Isolated cWS basepair
homologous
IL_7A0S_041
IL_42997.5

Problematic loops

#loop idProblemSequence
IL_9H3M_001Triple sheared with non-canonical cWW
IL_9H3M_002Single bulged A
IL_9H3M_003Minor groove platform
IL_9H3M_004No text annotation
IL_9H3M_005No text annotation
IL_9H3M_0068x7 Sarcin-Ricin; G-bulge
IL_9H3M_007Single stack bend
IL_9H3M_008No text annotation
IL_9H3M_009No text annotation
IL_9H3M_010No text annotation
IL_9H3M_011No text annotation
IL_9H3M_013Double sheared
IL_9H3M_014AAA cross-strand stack
IL_9H3M_015Single stack bend
IL_9H3M_016Isolated non-canonical cWW pair
IL_9H3M_017No text annotation
IL_9H3M_018Single bulged A
IL_9H3M_019Quadruple sheared
IL_9H3M_020No text annotation
IL_9H3M_021No text annotation
IL_9H3M_02290 degree turn
IL_9H3M_023No text annotation
IL_9H3M_024Stack outside cWW
IL_9H3M_025Single bulged C
IL_9H3M_027SSU/LSU pseudoknot
IL_9H3M_028Single bulged U
IL_9H3M_029No text annotation
IL_9H3M_031No text annotation
IL_9H3M_032Kink-turn
IL_9H3M_0338x7 Sarcin-Ricin; G-bulge
IL_9H3M_034Major groove platform; stack outside cWW
IL_9H3M_035Single stack bend
IL_9H3M_036No text annotation
IL_9H3M_037UAA/GAN
IL_9H3M_038tSH-tHW-tHS
IL_9H3M_039No text annotation
IL_9H3M_040No text annotation
IL_9H3M_041Tandem non-canonical cWW pairs
IL_9H3M_042tSH-tHW
IL_9H3M_043Single bulged U
IL_9H3M_044No text annotation
IL_9H3M_045tSH-tHW-tHS
IL_9H3M_046180 degree turn
IL_9H3M_047Single bulged A
IL_9H3M_048UAA/GAN variation
IL_9H3M_049No text annotation
IL_9H3M_050Isolated tWW turn
IL_9H3M_051Decoding loop related
IL_9H3M_052Intercalated tWH
IL_9H3M_0536x5 Sarcin-Ricin; G-bulge
IL_9H3M_054Triple sheared
IL_9H3M_055Single stack bend
IL_9H3M_056Major groove platform
IL_9H3M_057tSH-tHS-tHW
IL_9H3M_058Single stack bend
IL_9H3M_059No text annotation
IL_9H3M_060C-loop
IL_9H3M_061UAA/GAN related, with intercalation
IL_9H3M_062Multiple bulged bases
IL_9H3M_063UAA/GAN with extra cWW
IL_9H3M_064Isolated near basepair
IL_9H3M_065Single bulged A
IL_9H3M_066No text annotation
IL_9H3M_067Major groove intercalation
IL_9H3M_068Multiple bulged bases with non-canonical cWW
IL_9H3M_069tHS double platform

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_9H3M_0021/A/32:35,
1/A/445:461,
1/A/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_9H3M_0061/A/1298:1303,
1/A/1625:1627,
1/A/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_9H3M_0081/A/1344:1349,
1/A/1382:1385,
1/A/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J4_9H3M_0021/A/297:301,
1/A/316:319,
1/A/323:325,
1/A/337:341		No text annotation
homologous
J4_5J7L_019
NA
J4_9H3M_0051/A/1310:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_9H3M_0061/A/1313:1314,
1/A/1338:1343,
1/A/1404:1405,
1/A/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J5_9H3M_0021/A/531:533,
1/A/560:564,
1/A/577:579,
1/A/1261:1262,
1/A/2017:2018		No text annotation
homologous
J5_5J7L_014
NA
J5_9H3M_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
J7_9H3M_0011/A/8:15,
1/A/525:531,
1/A/2018:2023,
1/A/2040:2043,
1/A/2625:2630,
1/A/2788:2789,
1/A/2894:2895		No text annotation
J7_9H3M_0021/A/817:822,
1/A/835:838,
1/A/940:946,
1/A/971:976,
1/A/987:991,
1/A/1163:1164,
1/A/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_9H3M_001No text annotation
J3_9H3M_003No text annotation
J3_9H3M_004No text annotation
J3_9H3M_005No text annotation
J3_9H3M_007No text annotation
J3_9H3M_009No text annotation
J3_9H3M_010No text annotation
J3_9H3M_011No text annotation
J4_9H3M_001No text annotation
J4_9H3M_003No text annotation
J4_9H3M_004No text annotation
J4_9H3M_007No text annotation
J4_9H3M_008No text annotation
J5_9H3M_001No text annotation
J5_9H3M_004No text annotation
J6_9H3M_001No text annotation

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