JAR3D
Query RF02032-3.98 completed
Run on Motif Atlas Version
using the Rfam secondary structure. Run with the CaCoFold secondary structure.
Rfam family RF02032 maps to these 73 chains: 9L0R|1|A, 9L0R|1|B, 9L0R|1|C, 9L0R|1|D, 9L0R|1|E, 9L0R|1|F, 9L0R|1|G, 9L0R|1|H, 9L0R|1|I, 9L0R|1|J, 9L0R|1|K, 9L0R|1|L, 9LEC|1|J, 9LEE|1|A, 9LEE|1|B, 9LEE|1|C, 9LEE|1|D, 9LEE|1|E, 9LEE|1|F, 9LEE|1|G, 9LEE|1|H, 9LEE|1|I, 9LEE|1|J, 9LEL|1|J, 9LEM|1|A, 9LEM|1|B, 9LEM|1|C, 9LEM|1|D, 9LEM|1|E, 9LEM|1|F, 9LEM|1|G, 9LEM|1|H, 9LEM|1|I, 9LEM|1|J, 9LHK|1|G, 9LHL|1|A, 9LHL|1|B, 9LHL|1|C, 9LHL|1|D, 9LHL|1|E, 9LHL|1|F, 9LHL|1|G, 9LHL|1|H, 9LHL|1|I, 9LHL|1|J, 9LHL|1|K, 9LHL|1|L, 9LHL|1|M, 9LHL|1|N, 9LMF|1|A, 9LMF|1|B, 9LMF|1|C, 9LMF|1|D, 9LMF|1|E, 9LMF|1|F, 9LMF|1|G, 9LMF|1|H, 9LMF|1|I, 9LMF|1|J, 9MEE|1|A, 9MEE|1|B, 9MEE|1|C, 9MEE|1|D, 9MEE|1|E, 9MEE|1|F, 9MEE|1|G, 9MEE|1|H, 9MEE|1|I, 9MEE|1|J, 9MEE|1|K, 9MEE|1|L, 9MEE|1|M, 9MEE|1|N See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.
Loop 17 3-way junction loop
Column numbers: 487-488, 526-534, 580-586 - View nucleotides in PDB file(s)
Scored sequences and counts
AU*G-GACA-AG*CAAAAGU 3
AU*G-GAUA-GG*CUAAAGG 3
AU*G-GACAAUG*CGAAAGA 2
AU*G-GAUA-AG*CAAAAGU 2
AU*G-GAUA-CG*CAAAAGA 2
GU*G-GAAA-UC*GUAAAGU 2
UU*G-GAAA-CG*CCAAAGA 2
AG*G-GAUG-UC*G--AGGU 2
UU*GUGUGUAAA*UAAAAUA 1
GU*G-GACAAAA*UCAAAGU 1
AG*G-GAUA-AG*CAAAGGU 1
AU*G-GACA-AA*GCAAAGG 1
AU*G-GACA-AG*CAAAAGA 1
AU*G-GACA-CG*CAAAAGA 1
AU*G-GAUA-AG*CGAAAGG 1
AU*G-GAUA-CA*CUAAAGA 1
AU*G-GAUA-UU*AUAAAGG 1
CU*G-GACA-AG*CGAGAGG 1
GU*G-GAAA-AU*AGAAAGC 1
UU*G-GAAA-CA*UUAAAGA 1
UU*G-GAAA-CG*CUAAAGA 1
UU*G-GAAA-CG*UAAAAGA 1
UU*G-GAAA-CG*UCAAAGA 1
UU*G-GAAA-CG*UUAAAGA 1
UU*G-GAUA-AA*UGAAAGA 1
Click on headings to reorder table
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group J3_45941.1
Basepair signature:
|
0.00 | -70.00 | 14 | 9 |
|
| 2 |
Motif group J3_53439.1
Basepair signature:
|
0.00 | -71.93 | 12 | 8 |
|
| 3 |
Motif group J3_09667.1
Basepair signature:
|
0.00 | -77.02 | 8 | 5 |
|
| 4 |
Motif group J3_34864.2
Basepair signature:
|
0.00 | -85.07 | 10 | 6 |
|
| 5 |
Motif group J3_58957.1
Basepair signature:
|
0.00 | -92.24 | 11 | 7 |
|
| 6 |
Motif group J3_12393.2
Basepair signature:
|
0.00 | -101.07 | 9 | 6 |
|
| 7 |
Motif group J3_00210.1
Basepair signature:
|
0.00 | -105.24 | 11 | 7 |
|
| 8 |
Motif group J3_83726.1
Basepair signature:
|
0.00 | -106.70 | 10 | 7 |
|
| 9 |
Motif group J3_83332.1
Basepair signature:
|
0.00 | -108.54 | 11 | 7 |
|
| 10 |
Motif group J3_35667.2
Basepair signature:
|
0.00 | -124.80 | 9 | 5 |
|
| 11 |
Motif group J3_55773.1
Basepair signature:
|
0.00 | -125.26 | 11 | 7 |
|
| 12 |
Motif group J3_32030.1
Basepair signature:
|
0.00 | -125.97 | 11 | 8 |
|
| 13 |
Motif group J3_98379.3
Basepair signature:
|
0.00 | -128.63 | 13 | 8 |
|
| 14 |
Motif group J3_65990.1
Basepair signature:
|
0.00 | -128.85 | 10 | 7 |
|
| 15 |
Motif group J3_46317.4
Basepair signature:
|
0.00 | -132.27 | 10 | 8 |
|
| 16 |
Motif group J3_36387.1
Basepair signature:
|
0.00 | -139.75 | 11 | 8 |
|
| 17 |
Motif group J3_37047.6
Basepair signature:
|
0.00 | -139.78 | 12 | 9 |
|
| 18 |
Motif group J3_01052.1
Basepair signature:
|
0.00 | -140.78 | 10 | 7 |
|
| 19 |
Motif group J3_45099.1
Basepair signature:
|
0.00 | -146.01 | 11 | 8 |
|
| 20 |
Motif group J3_24127.1
Basepair signature:
|
0.00 | -146.40 | 8 | 5 |
|
| 21 |
Motif group J3_88257.1
Basepair signature:
|
0.00 | -147.99 | 13 | 9 |
|
| 22 |
Motif group J3_07703.1
Basepair signature:
|
0.00 | -151.45 | 11 | 7 |
|
| 23 |
Motif group J3_20574.1
Basepair signature:
|
0.00 | -151.67 | 8 | 6 |
|
| 24 |
Motif group J3_62630.1
Basepair signature:
|
0.00 | -152.88 | 12 | 8 |
|
| 25 |
Motif group J3_89095.1
Basepair signature:
|
0.00 | -153.45 | 11 | 8 |
|
| 26 |
Motif group J3_31965.2
Basepair signature:
|
0.00 | -155.29 | 11 | 6 |
|
| 27 |
Motif group J3_71753.1
Basepair signature:
|
0.00 | -157.27 | 14 | 9 |
|
| 28 |
Motif group J3_25303.4
Basepair signature:
|
0.00 | -158.41 | 13 | 8 |
|
| 29 |
Motif group J3_51910.1
Basepair signature:
|
0.00 | -158.67 | 11 | 6 |
|
| 30 |
Motif group J3_88233.1
Basepair signature:
|
0.00 | -164.85 | 11 | 8 |
|
| 31 |
Motif group J3_45482.1
Basepair signature:
|
0.00 | -170.21 | 13 | 9 |
|
| 32 |
Motif group J3_19286.1
Basepair signature:
|
0.00 | -170.75 | 11 | 9 |
|
| 33 |
Motif group J3_84052.1
Basepair signature:
|
0.00 | -170.81 | 13 | 9 |
|
| 34 |
Motif group J3_94999.1
Basepair signature:
|
0.00 | -173.03 | 8 | 6 |
|
| 35 |
Motif group J3_04315.1
Basepair signature:
|
0.00 | -178.14 | 14 | 12 |
|
| 36 |
Motif group J3_58090.1
Basepair signature:
|
0.00 | -179.05 | 10 | 7 |
|
| 37 |
Motif group J3_04521.1
Basepair signature:
|
0.00 | -179.95 | 10 | 7 |
|
| 38 |
Motif group J3_00458.1
Basepair signature:
|
0.00 | -182.86 | 14 | 10 |
|
| 39 |
Motif group J3_06335.1
Basepair signature:
|
0.00 | -182.90 | 12 | 8 |
|
| 40 |
Motif group J3_69441.1
Basepair signature:
|
0.00 | -183.75 | 13 | 10 |
|
| 41 |
Motif group J3_98484.1
Basepair signature:
|
0.00 | -184.01 | 13 | 11 |
|
| 42 |
Motif group J3_38881.1
Basepair signature:
|
0.00 | -187.47 | 11 | 8 |
|
| 43 |
Motif group J3_41339.1
Basepair signature:
|
0.00 | -187.59 | 14 | 10 |
|
| 44 |
Motif group J3_72012.1
Basepair signature:
|
0.00 | -187.85 | 12 | 9 |
|
| 45 |
Motif group J3_92705.1
Basepair signature:
|
0.00 | -188.34 | 11 | 6 |
|
| 46 |
Motif group J3_76911.2
Basepair signature:
|
0.00 | -190.56 | 9 | 7 |
|
| 47 |
Motif group J3_97280.1
Basepair signature:
|
0.00 | -190.63 | 12 | 9 |
|
| 48 |
Motif group J3_32857.1
Basepair signature:
|
0.00 | -190.84 | 13 | 9 |
|
| 49 |
Motif group J3_99563.1
Basepair signature:
|
0.00 | -197.52 | 14 | 11 |
|
| 50 |
Motif group J3_71677.1
Basepair signature:
|
0.00 | -197.66 | 10 | 7 |
|
| 51 |
Motif group J3_20650.1
Basepair signature:
|
0.00 | -200.21 | 11 | 8 |
|
| 52 |
Motif group J3_87797.1
Basepair signature:
|
0.00 | -203.50 | 12 | 9 |
|
| 53 |
Motif group J3_96372.2
Basepair signature:
|
0.00 | -208.38 | 10 | 9 |
|
| 54 |
Motif group J3_97609.1
Basepair signature:
|
0.00 | -211.24 | 13 | 9 |
|
| 55 |
Motif group J3_31041.1
Basepair signature:
|
0.00 | -212.24 | 11 | 7 |
|
| 56 |
Motif group J3_36499.1
Basepair signature:
|
0.00 | -213.24 | 11 | 9 |
|
| 57 |
Motif group J3_37089.1
Basepair signature:
|
0.00 | -215.66 | 12 | 8 |
|
| 58 |
Motif group J3_80708.1
Basepair signature:
|
0.00 | -216.59 | 11 | 6 |
|
| 59 |
Motif group J3_20992.1
Basepair signature:
|
0.00 | -217.69 | 15 | 10 |
|
| 60 |
Motif group J3_44792.1
Basepair signature:
|
0.00 | -220.28 | 15 | 11 |
|
| 61 |
Motif group J3_76043.3
Basepair signature:
|
0.00 | -220.57 | 10 | 7 |
|
| 62 |
Motif group J3_41596.1
Basepair signature:
|
0.00 | -221.14 | 13 | 11 |
|
| 63 |
Motif group J3_76375.1
Basepair signature:
|
0.00 | -221.34 | 12 | 10 |
|
| 64 |
Motif group J3_76475.2
Basepair signature:
|
0.00 | -221.69 | 14 | 12 |
|
| 65 |
Motif group J3_58525.1
Basepair signature:
|
0.00 | -222.14 | 15 | 12 |
|
| 66 |
Motif group J3_89368.5
Basepair signature:
|
0.00 | -223.27 | 10 | 7 |
|
| 67 |
Motif group J3_51249.1
Basepair signature:
|
0.00 | -223.47 | 12 | 7 |
|
| 68 |
Motif group J3_23373.1
Basepair signature:
|
0.00 | -224.72 | 13 | 11 |
|
| 69 |
Motif group J3_75408.1
Basepair signature:
|
0.00 | -228.19 | 13 | 11 |
|
| 70 |
Motif group J3_17385.4
Basepair signature:
|
0.00 | -228.85 | 11 | 8 |
|
| 71 |
Motif group J3_67856.4
Basepair signature:
|
0.00 | -229.02 | 9 | 6 |
|
| 72 |
Motif group J3_22899.1
Basepair signature:
|
0.00 | -229.29 | 15 | 12 |
|
| 73 |
Motif group J3_46299.2
Basepair signature:
|
0.00 | -229.96 | 13 | 11 |
|
| 74 |
Motif group J3_47324.1
Basepair signature:
|
0.00 | -231.13 | 11 | 8 |
|
| 75 |
Motif group J3_01596.1
Basepair signature:
|
0.00 | -232.44 | 17 | 12 |
|
| 76 |
Motif group J3_68164.1
Basepair signature:
|
0.00 | -235.10 | 11 | 8 |
|
| 77 |
Motif group J3_44961.1
Basepair signature:
|
0.00 | -237.50 | 15 | 12 |
|
| 78 |
Motif group J3_47707.1
Basepair signature:
|
0.00 | -238.81 | 15 | 11 |
|
| 79 |
Motif group J3_19545.2
Basepair signature:
|
0.00 | -244.10 | 9 | 7 |
|
| 80 |
Motif group J3_15893.1
Basepair signature:
|
0.00 | -246.83 | 11 | 8 |
C-di-AMP riboswitch |
| 81 |
Motif group J3_32852.6
Basepair signature:
|
0.00 | -246.84 | 9 | 7 |
|
| 82 |
Motif group J3_46173.1
Basepair signature:
|
0.00 | -249.71 | 16 | 13 |
|
| 83 |
Motif group J3_44163.2
Basepair signature:
|
0.00 | -252.12 | 13 | 11 |
|
| 84 |
Motif group J3_32601.5
Basepair signature:
|
0.00 | -256.10 | 11 | 8 |
|
| 85 |
Motif group J3_39320.1
Basepair signature:
|
0.00 | -256.22 | 17 | 13 |
|
| 86 |
Motif group J3_94652.1
Basepair signature:
|
0.00 | -256.45 | 12 | 8 |
|
| 87 |
Motif group J3_85054.4
Basepair signature:
|
0.00 | -257.27 | 10 | 8 |
|
| 88 |
Motif group J3_97642.1
Basepair signature:
|
0.00 | -258.10 | 11 | 8 |
|
| 89 |
Motif group J3_97971.2
Basepair signature:
|
0.00 | -258.80 | 12 | 7 |
|
| 90 |
Motif group J3_61367.1
Basepair signature:
|
0.00 | -259.25 | 15 | 13 |
|
| 91 |
Motif group J3_21998.1
Basepair signature:
|
0.00 | -261.45 | 11 | 8 |
|
| 92 |
Motif group J3_08394.3
Basepair signature:
|
0.00 | -261.62 | 14 | 12 |
|
| 93 |
Motif group J3_64069.1
Basepair signature:
|
0.00 | -262.98 | 13 | 9 |
|
| 94 |
Motif group J3_83516.4
Basepair signature:
|
0.00 | -265.88 | 18 | 14 |
|
| 95 |
Motif group J3_89737.1
Basepair signature:
|
0.00 | -268.89 | 14 | 11 |
5S rRNA junction |
| 96 |
Motif group J3_82572.1
Basepair signature:
|
0.00 | -270.68 | 12 | 9 |
|
| 97 |
Motif group J3_11934.4
Basepair signature:
|
0.00 | -271.07 | 11 | 8 |
|
| 98 |
Motif group J3_65403.1
Basepair signature:
|
0.00 | -271.99 | 16 | 13 |
|
| 99 |
Motif group J3_28621.5
Basepair signature:
|
0.00 | -272.05 | 11 | 8 |
|
| 100 |
Motif group J3_47376.1
Basepair signature:
|
0.00 | -278.00 | 12 | 8 |
|
| 101 |
Motif group J3_59706.1
Basepair signature:
|
0.00 | -279.05 | 14 | 12 |
|
| 102 |
Motif group J3_83592.1
Basepair signature:
|
0.00 | -279.49 | 14 | 11 |
|
| 103 |
Motif group J3_21426.1
Basepair signature:
|
0.00 | -286.25 | 17 | 12 |
|
| 104 |
Motif group J3_28315.1
Basepair signature:
|
0.00 | -291.51 | 12 | 9 |
|
| 105 |
Motif group J3_98798.1
Basepair signature:
|
0.00 | -292.30 | 10 | 8 |
|
| 106 |
Motif group J3_89044.1
Basepair signature:
|
0.00 | -293.18 | 12 | 8 |
|
| 107 |
Motif group J3_93637.1
Basepair signature:
|
0.00 | -294.21 | 14 | 10 |
|
| 108 |
Motif group J3_33494.1
Basepair signature:
|
0.00 | -295.34 | 12 | 9 |
|
| 109 |
Motif group J3_19664.1
Basepair signature:
|
0.00 | -298.48 | 18 | 15 |
|
| 110 |
Motif group J3_64189.2
Basepair signature:
|
0.00 | -303.10 | 12 | 8 |
|
| 111 |
Motif group J3_79369.1
Basepair signature:
|
0.00 | -306.76 | 12 | 7 |
|
| 112 |
Motif group J3_61124.2
Basepair signature:
|
0.00 | -307.24 | 11 | 7 |
|
| 113 |
Motif group J3_36821.1
Basepair signature:
|
0.00 | -311.23 | 13 | 8 |
|
| 114 |
Motif group J3_05216.1
Basepair signature:
|
0.00 | -315.56 | 11 | 9 |
|
| 115 |
Motif group J3_80578.1
Basepair signature:
|
0.00 | -320.11 | 10 | 7 |
|
| 116 |
Motif group J3_44724.7
Basepair signature:
|
0.00 | -322.93 | 10 | 7 |
|
| 117 |
Motif group J3_77951.1
Basepair signature:
|
0.00 | -324.59 | 14 | 12 |
|
| 118 |
Motif group J3_10118.1
Basepair signature:
|
0.00 | -328.82 | 11 | 7 |
|
| 119 |
Motif group J3_38098.1
Basepair signature:
|
0.00 | -329.73 | 18 | 16 |
|
| 120 |
Motif group J3_03190.1
Basepair signature:
|
0.00 | -344.13 | 19 | 17 |
|
| 121 |
Motif group J3_25217.1
Basepair signature:
|
0.00 | -351.16 | 12 | 9 |
|
| 122 |
Motif group J3_69466.1
Basepair signature:
|
0.00 | -352.71 | 19 | 17 |
|
| 123 |
Motif group J3_41097.1
Basepair signature:
|
0.00 | -355.19 | 12 | 9 |
phi29 pRNA |
| 124 |
Motif group J3_93261.1
Basepair signature:
|
0.00 | -355.24 | 19 | 17 |
|
| 125 |
Motif group J3_70599.1
Basepair signature:
|
0.00 | -355.98 | 11 | 8 |
|
| 126 |
Motif group J3_72575.1
Basepair signature:
|
0.00 | -356.91 | 14 | 10 |
|
| 127 |
Motif group J3_93059.1
Basepair signature:
|
0.00 | -364.86 | 13 | 8 |
|
| 128 |
Motif group J3_46124.1
Basepair signature:
|
0.00 | -365.86 | 19 | 17 |
|
| 129 |
Motif group J3_22198.1
Basepair signature:
|
0.00 | -366.86 | 11 | 9 |
|
| 130 |
Motif group J3_81015.1
Basepair signature:
|
0.00 | -378.24 | 11 | 9 |
|
| 131 |
Motif group J3_14360.1
Basepair signature:
|
0.00 | -385.49 | 10 | 7 |
|
| 132 |
Motif group J3_68440.1
Basepair signature:
|
0.00 | -391.49 | 14 | 10 |
|
| 133 |
Motif group J3_28639.1
Basepair signature:
|
0.00 | -413.30 | 17 | 15 |
|
| 134 |
Motif group J3_63687.1
Basepair signature:
|
0.00 | -421.42 | 20 | 17 |
|
| 135 |
Motif group J3_12003.2
Basepair signature:
|
0.00 | -432.87 | 11 | 7 |
|
| 136 |
Motif group J3_52655.4
Basepair signature:
|
0.00 | -435.40 | 10 | 8 |
|
| 137 |
Motif group J3_11375.2
Basepair signature:
|
0.00 | -447.35 | 11 | 7 |
|
| 138 |
Motif group J3_26675.1
Basepair signature:
|
0.00 | -451.32 | 13 | 9 |
|
| 139 |
Motif group J3_56052.5
Basepair signature:
|
0.00 | -456.78 | 11 | 7 |
|
| 140 |
Motif group J3_58429.1
Basepair signature:
|
0.00 | -464.17 | 23 | 19 |
|
| 141 |
Motif group J3_82365.4
Basepair signature:
|
0.00 | -464.58 | 11 | 8 |
|
| 142 |
Motif group J3_90186.1
Basepair signature:
|
0.00 | -489.33 | 17 | 14 |
|
| 143 |
Motif group J3_01425.1
Basepair signature:
|
0.00 | -495.39 | 14 | 9 |
|
| 144 |
Motif group J3_30040.2
Basepair signature:
|
0.00 | -496.62 | 20 | 17 |
|
| 145 |
Motif group J3_17791.2
Basepair signature:
|
0.00 | -502.26 | 16 | 14 |
|
| 146 |
Motif group J3_41486.2
Basepair signature:
|
0.00 | -519.27 | 12 | 9 |
|
| 147 |
Motif group J3_38151.1
Basepair signature:
|
0.00 | -522.67 | 13 | 10 |
|
| 148 |
Motif group J3_28460.1
Basepair signature:
|
0.00 | -524.16 | 24 | 23 |
|
| 149 |
Motif group J3_65214.1
Basepair signature:
|
0.00 | -535.74 | 19 | 15 |
|
| 150 |
Motif group J3_08040.1
Basepair signature:
|
0.00 | -558.69 | 22 | 20 |
|
| 151 |
Motif group J3_75076.1
Basepair signature:
|
0.00 | -584.02 | 25 | 23 |
|
| 152 |
Motif group J3_99595.1
Basepair signature:
|
0.00 | -593.09 | 11 | 8 |
|
| 153 |
Motif group J3_59914.1
Basepair signature:
|
0.00 | -593.74 | 12 | 10 |
|
| 154 |
Motif group J3_74474.1
Basepair signature:
|
0.00 | -628.07 | 21 | 18 |
|
| 155 |
Motif group J3_10708.1
Basepair signature:
|
0.00 | -664.26 | 21 | 18 |
|
| 156 |
Motif group J3_75962.2
Basepair signature:
|
0.00 | -677.92 | 11 | 7 |
|
| 157 |
Motif group J3_07845.1
Basepair signature:
|
0.00 | -678.02 | 12 | 9 |
|
| 158 |
Motif group J3_30478.1
Basepair signature:
|
0.00 | -688.05 | 11 | 8 |
|
| 159 |
Motif group J3_30104.1
Basepair signature:
|
0.00 | -694.88 | 11 | 9 |
|
| 160 |
Motif group J3_13378.1
Basepair signature:
|
0.00 | -705.78 | 28 | 27 |
|
| 161 |
Motif group J3_24879.1
Basepair signature:
|
0.00 | -730.90 | 19 | 15 |
|
| 162 |
Motif group J3_08158.1
Basepair signature:
|
0.00 | -769.39 | 32 | 31 |
|
| 163 |
Motif group J3_33327.1
Basepair signature:
|
0.00 | -775.24 | 26 | 24 |
|
| 164 |
Motif group J3_92134.2
Basepair signature:
|
0.00 | -785.55 | 16 | 13 |
|
| 165 |
Motif group J3_60031.2
Basepair signature:
|
0.00 | -828.41 | 10 | 7 |
|