RNA 3D Hub //

Motif HL_02361.1 Version HL_02361.1 of this group appears in releases 3.3 to 3.11

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3 4 5 61-62-5
1 HL_4IOA_0044IOA0.70650GNRA variationX LSU rRNAC133G134U135A136A137G138cWWntSH
2 HL_4V8P_1354V8P0.50450GNRAD1 LSU rRNAU2531G2532C2533A2534A2535A2536cWWntSH
3 HL_5TBW_0745TBW0.64230GNRA variation4 5.8S rRNAU73U74G75C76A77G78ncWW
4 HL_4V9F_0224V9F0.51590GNRA0 LSU rRNAU733U734C735A736A737G738cWW
5 HL_5LM7_0015LM70.23241GNRAGRNA (29-MER)U21G22A23A24A26A27cWWntSH
6 HL_4AL5_0014AL50.26311GNRABRNA (20-mer)C10G11U12A13A15G16cWWtSH
7 HL_2XLK_0012XLK0.19571GNRACRNA (16-mer)C10G11U12A13A15G16cWWtSH
8 HL_5O7H_0015O7H0.00001GNRAAcrRNAC32G33C34A35A37G38cWWntSH
9 HL_5J7L_1745J7L0.18691GNRADA LSU rRNAA1630G1631A1632G1633A1635U1636cWWtSH
10 HL_1XJR_0011XJR0.23831GNRAAs2m RNAG21G22A23G24A26C27cWWtSH
11 HL_4Y4O_1234Y4O0.16761GNRA2A LSU rRNAC641G642A643A644A646G647cWWtSH
12 HL_4WF9_0214WF90.29471GNRAX LSU rRNAU686G687A688A689A691G692cWWntSH
13 HL_4V8P_1244V8P0.32561GNRAD1 LSU rRNAU1886U1887A1888G1889A1891G1892cWWntSH
14 HL_5TBW_0425TBW0.30461GNRA1 LSU rRNAU1862G1863A1864A1865A1867G1868cWWtSH
15 HL_4V9F_0164V9F0.33801GNRA0 LSU rRNAU493C494A495G496A498G499cWWntSH
16 HL_4IOA_0454IOA0.55561GNRAX LSU rRNAC1797G1798A1799A1800A1802G1803cWWtSH
17 HL_3D0U_0033D0U0.50231GNRAALysine Riboswitch RNAG121G122A123A124A126C127cWWtSH
18 HL_4QLM_0014QLM0.80310GNRAA cyclic di-AMP riboswitchC54G55A56A57A58G59cWWntSH

3D structures

Complete motif including flanking bases
SequenceCounts
CGUAUAG2
CGAACAG2
CGUAAG1
UGCAAA1
UUGCAG1
UUCAAG1
UGAAGAA1
CGCACAG1
AGAGAAU1
GGAGUAC1
UGAAUAG1
UUAGCAG1
UGAACAG1
UCAGAAG1
GGAAUAC1
CGAAAG1
Non-Watson-Crick part of the motif
SequenceCounts
GAACA3
GUAUA2
GAAUA2
GUAA1
GCAA1
UGCA1
UCAA1
GAAGA1
GCACA1
GAGAA1
GAGUA1
UAGCA1
CAGAA1
GAAA1

Release history

Release3.33.43.53.63.73.83.93.103.11
Date2018-03-082018-04-062018-05-042018-06-012018-06-292018-07-272018-08-242018-09-212018-10-19
StatusNew id, 2 parentsExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.
Annotations
  • GNRA (16)
  • GNRA variation (2)
    • Basepair signature
    cWW-tSH-R-R
    Heat map statistics
    Min 0.12 | Avg 0.49 | Max 0.99
    Help

    Coloring options:

    HL_4IOA_004:HL_4IOA_004 = 0HL_4IOA_004:HL_4V8P_135 = 0.4817HL_4IOA_004:HL_5TBW_074 = 0.7488HL_4IOA_004:HL_4V9F_022 = 0.8943HL_4IOA_004:HL_5LM7_001 = 0.6883HL_4IOA_004:HL_4AL5_001 = 0.6029HL_4IOA_004:HL_2XLK_001 = 0.6325HL_4IOA_004:HL_5O7H_001 = 0.7065HL_4IOA_004:HL_5J7L_174 = 0.6312HL_4IOA_004:HL_1XJR_001 = 0.768HL_4IOA_004:HL_4Y4O_123 = 0.7709HL_4IOA_004:HL_4WF9_021 = 0.7337HL_4IOA_004:HL_4V8P_124 = 0.7527HL_4IOA_004:HL_5TBW_042 = 0.7658HL_4IOA_004:HL_4V9F_016 = 0.6557HL_4IOA_004:HL_4IOA_045 = 0.759HL_4IOA_004:HL_3D0U_003 = 0.7928HL_4IOA_004:HL_4QLM_001 = 0.8581HL_4V8P_135:HL_4IOA_004 = 0.4817HL_4V8P_135:HL_4V8P_135 = 0HL_4V8P_135:HL_5TBW_074 = 0.6514HL_4V8P_135:HL_4V9F_022 = 0.6595HL_4V8P_135:HL_5LM7_001 = 0.4923HL_4V8P_135:HL_4AL5_001 = 0.4925HL_4V8P_135:HL_2XLK_001 = 0.4979HL_4V8P_135:HL_5O7H_001 = 0.5045HL_4V8P_135:HL_5J7L_174 = 0.4423HL_4V8P_135:HL_1XJR_001 = 0.5071HL_4V8P_135:HL_4Y4O_123 = 0.5254HL_4V8P_135:HL_4WF9_021 = 0.5304HL_4V8P_135:HL_4V8P_124 = 0.5789HL_4V8P_135:HL_5TBW_042 = 0.6418HL_4V8P_135:HL_4V9F_016 = 0.5466HL_4V8P_135:HL_4IOA_045 = 0.7134HL_4V8P_135:HL_3D0U_003 = 0.756HL_4V8P_135:HL_4QLM_001 = 0.9009HL_5TBW_074:HL_4IOA_004 = 0.7488HL_5TBW_074:HL_4V8P_135 = 0.6514HL_5TBW_074:HL_5TBW_074 = 0HL_5TBW_074:HL_4V9F_022 = 0.5677HL_5TBW_074:HL_5LM7_001 = 0.6202HL_5TBW_074:HL_4AL5_001 = 0.6656HL_5TBW_074:HL_2XLK_001 = 0.6618HL_5TBW_074:HL_5O7H_001 = 0.6423HL_5TBW_074:HL_5J7L_174 = 0.6236HL_5TBW_074:HL_1XJR_001 = 0.6355HL_5TBW_074:HL_4Y4O_123 = 0.6234HL_5TBW_074:HL_4WF9_021 = 0.5331HL_5TBW_074:HL_4V8P_124 = 0.5685HL_5TBW_074:HL_5TBW_042 = 0.6506HL_5TBW_074:HL_4V9F_016 = 0.6087HL_5TBW_074:HL_4IOA_045 = 0.8443HL_5TBW_074:HL_3D0U_003 = 0.7757HL_5TBW_074:HL_4QLM_001 = 0.9915HL_4V9F_022:HL_4IOA_004 = 0.8943HL_4V9F_022:HL_4V8P_135 = 0.6595HL_4V9F_022:HL_5TBW_074 = 0.5677HL_4V9F_022:HL_4V9F_022 = 0HL_4V9F_022:HL_5LM7_001 = 0.4453HL_4V9F_022:HL_4AL5_001 = 0.6123HL_4V9F_022:HL_2XLK_001 = 0.555HL_4V9F_022:HL_5O7H_001 = 0.5159HL_4V9F_022:HL_5J7L_174 = 0.5515HL_4V9F_022:HL_1XJR_001 = 0.5117HL_4V9F_022:HL_4Y4O_123 = 0.5018HL_4V9F_022:HL_4WF9_021 = 0.4735HL_4V9F_022:HL_4V8P_124 = 0.5065HL_4V9F_022:HL_5TBW_042 = 0.5806HL_4V9F_022:HL_4V9F_016 = 0.5131HL_4V9F_022:HL_4IOA_045 = 0.5994HL_4V9F_022:HL_3D0U_003 = 0.6354HL_4V9F_022:HL_4QLM_001 = 0.8424HL_5LM7_001:HL_4IOA_004 = 0.6883HL_5LM7_001:HL_4V8P_135 = 0.4923HL_5LM7_001:HL_5TBW_074 = 0.6202HL_5LM7_001:HL_4V9F_022 = 0.4453HL_5LM7_001:HL_5LM7_001 = 0HL_5LM7_001:HL_4AL5_001 = 0.2473HL_5LM7_001:HL_2XLK_001 = 0.1938HL_5LM7_001:HL_5O7H_001 = 0.2324HL_5LM7_001:HL_5J7L_174 = 0.2815HL_5LM7_001:HL_1XJR_001 = 0.352HL_5LM7_001:HL_4Y4O_123 = 0.2947HL_5LM7_001:HL_4WF9_021 = 0.3334HL_5LM7_001:HL_4V8P_124 = 0.3768HL_5LM7_001:HL_5TBW_042 = 0.3894HL_5LM7_001:HL_4V9F_016 = 0.2769HL_5LM7_001:HL_4IOA_045 = 0.5449HL_5LM7_001:HL_3D0U_003 = 0.5524HL_5LM7_001:HL_4QLM_001 = 0.7863HL_4AL5_001:HL_4IOA_004 = 0.6029HL_4AL5_001:HL_4V8P_135 = 0.4925HL_4AL5_001:HL_5TBW_074 = 0.6656HL_4AL5_001:HL_4V9F_022 = 0.6123HL_4AL5_001:HL_5LM7_001 = 0.2473HL_4AL5_001:HL_4AL5_001 = 0HL_4AL5_001:HL_2XLK_001 = 0.1185HL_4AL5_001:HL_5O7H_001 = 0.2631HL_4AL5_001:HL_5J7L_174 = 0.2773HL_4AL5_001:HL_1XJR_001 = 0.4134HL_4AL5_001:HL_4Y4O_123 = 0.3455HL_4AL5_001:HL_4WF9_021 = 0.3356HL_4AL5_001:HL_4V8P_124 = 0.4299HL_4AL5_001:HL_5TBW_042 = 0.4126HL_4AL5_001:HL_4V9F_016 = 0.3008HL_4AL5_001:HL_4IOA_045 = 0.5792HL_4AL5_001:HL_3D0U_003 = 0.5793HL_4AL5_001:HL_4QLM_001 = 0.739HL_2XLK_001:HL_4IOA_004 = 0.6325HL_2XLK_001:HL_4V8P_135 = 0.4979HL_2XLK_001:HL_5TBW_074 = 0.6618HL_2XLK_001:HL_4V9F_022 = 0.555HL_2XLK_001:HL_5LM7_001 = 0.1938HL_2XLK_001:HL_4AL5_001 = 0.1185HL_2XLK_001:HL_2XLK_001 = 0HL_2XLK_001:HL_5O7H_001 = 0.1957HL_2XLK_001:HL_5J7L_174 = 0.2458HL_2XLK_001:HL_1XJR_001 = 0.3575HL_2XLK_001:HL_4Y4O_123 = 0.2926HL_2XLK_001:HL_4WF9_021 = 0.3223HL_2XLK_001:HL_4V8P_124 = 0.393HL_2XLK_001:HL_5TBW_042 = 0.371HL_2XLK_001:HL_4V9F_016 = 0.2785HL_2XLK_001:HL_4IOA_045 = 0.5406HL_2XLK_001:HL_3D0U_003 = 0.5276HL_2XLK_001:HL_4QLM_001 = 0.771HL_5O7H_001:HL_4IOA_004 = 0.7065HL_5O7H_001:HL_4V8P_135 = 0.5045HL_5O7H_001:HL_5TBW_074 = 0.6423HL_5O7H_001:HL_4V9F_022 = 0.5159HL_5O7H_001:HL_5LM7_001 = 0.2324HL_5O7H_001:HL_4AL5_001 = 0.2631HL_5O7H_001:HL_2XLK_001 = 0.1957HL_5O7H_001:HL_5O7H_001 = 0HL_5O7H_001:HL_5J7L_174 = 0.1869HL_5O7H_001:HL_1XJR_001 = 0.2383HL_5O7H_001:HL_4Y4O_123 = 0.1676HL_5O7H_001:HL_4WF9_021 = 0.2947HL_5O7H_001:HL_4V8P_124 = 0.3256HL_5O7H_001:HL_5TBW_042 = 0.3046HL_5O7H_001:HL_4V9F_016 = 0.338HL_5O7H_001:HL_4IOA_045 = 0.5556HL_5O7H_001:HL_3D0U_003 = 0.5023HL_5O7H_001:HL_4QLM_001 = 0.8031HL_5J7L_174:HL_4IOA_004 = 0.6312HL_5J7L_174:HL_4V8P_135 = 0.4423HL_5J7L_174:HL_5TBW_074 = 0.6236HL_5J7L_174:HL_4V9F_022 = 0.5515HL_5J7L_174:HL_5LM7_001 = 0.2815HL_5J7L_174:HL_4AL5_001 = 0.2773HL_5J7L_174:HL_2XLK_001 = 0.2458HL_5J7L_174:HL_5O7H_001 = 0.1869HL_5J7L_174:HL_5J7L_174 = 0HL_5J7L_174:HL_1XJR_001 = 0.1972HL_5J7L_174:HL_4Y4O_123 = 0.2222HL_5J7L_174:HL_4WF9_021 = 0.3286HL_5J7L_174:HL_4V8P_124 = 0.2967HL_5J7L_174:HL_5TBW_042 = 0.3113HL_5J7L_174:HL_4V9F_016 = 0.3341HL_5J7L_174:HL_4IOA_045 = 0.5645HL_5J7L_174:HL_3D0U_003 = 0.496HL_5J7L_174:HL_4QLM_001 = 0.7883HL_1XJR_001:HL_4IOA_004 = 0.768HL_1XJR_001:HL_4V8P_135 = 0.5071HL_1XJR_001:HL_5TBW_074 = 0.6355HL_1XJR_001:HL_4V9F_022 = 0.5117HL_1XJR_001:HL_5LM7_001 = 0.352HL_1XJR_001:HL_4AL5_001 = 0.4134HL_1XJR_001:HL_2XLK_001 = 0.3575HL_1XJR_001:HL_5O7H_001 = 0.2383HL_1XJR_001:HL_5J7L_174 = 0.1972HL_1XJR_001:HL_1XJR_001 = 0HL_1XJR_001:HL_4Y4O_123 = 0.1581HL_1XJR_001:HL_4WF9_021 = 0.3491HL_1XJR_001:HL_4V8P_124 = 0.3081HL_1XJR_001:HL_5TBW_042 = 0.3543HL_1XJR_001:HL_4V9F_016 = 0.4242HL_1XJR_001:HL_4IOA_045 = 0.6302HL_1XJR_001:HL_3D0U_003 = 0.5437HL_1XJR_001:HL_4QLM_001 = 0.8451HL_4Y4O_123:HL_4IOA_004 = 0.7709HL_4Y4O_123:HL_4V8P_135 = 0.5254HL_4Y4O_123:HL_5TBW_074 = 0.6234HL_4Y4O_123:HL_4V9F_022 = 0.5018HL_4Y4O_123:HL_5LM7_001 = 0.2947HL_4Y4O_123:HL_4AL5_001 = 0.3455HL_4Y4O_123:HL_2XLK_001 = 0.2926HL_4Y4O_123:HL_5O7H_001 = 0.1676HL_4Y4O_123:HL_5J7L_174 = 0.2222HL_4Y4O_123:HL_1XJR_001 = 0.1581HL_4Y4O_123:HL_4Y4O_123 = 0HL_4Y4O_123:HL_4WF9_021 = 0.2457HL_4Y4O_123:HL_4V8P_124 = 0.2704HL_4Y4O_123:HL_5TBW_042 = 0.294HL_4Y4O_123:HL_4V9F_016 = 0.3645HL_4Y4O_123:HL_4IOA_045 = 0.6333HL_4Y4O_123:HL_3D0U_003 = 0.5645HL_4Y4O_123:HL_4QLM_001 = 0.8063HL_4WF9_021:HL_4IOA_004 = 0.7337HL_4WF9_021:HL_4V8P_135 = 0.5304HL_4WF9_021:HL_5TBW_074 = 0.5331HL_4WF9_021:HL_4V9F_022 = 0.4735HL_4WF9_021:HL_5LM7_001 = 0.3334HL_4WF9_021:HL_4AL5_001 = 0.3356HL_4WF9_021:HL_2XLK_001 = 0.3223HL_4WF9_021:HL_5O7H_001 = 0.2947HL_4WF9_021:HL_5J7L_174 = 0.3286HL_4WF9_021:HL_1XJR_001 = 0.3491HL_4WF9_021:HL_4Y4O_123 = 0.2457HL_4WF9_021:HL_4WF9_021 = 0HL_4WF9_021:HL_4V8P_124 = 0.2563HL_4WF9_021:HL_5TBW_042 = 0.2881HL_4WF9_021:HL_4V9F_016 = 0.2858HL_4WF9_021:HL_4IOA_045 = 0.6517HL_4WF9_021:HL_3D0U_003 = 0.5787HL_4WF9_021:HL_4QLM_001 = 0.805HL_4V8P_124:HL_4IOA_004 = 0.7527HL_4V8P_124:HL_4V8P_135 = 0.5789HL_4V8P_124:HL_5TBW_074 = 0.5685HL_4V8P_124:HL_4V9F_022 = 0.5065HL_4V8P_124:HL_5LM7_001 = 0.3768HL_4V8P_124:HL_4AL5_001 = 0.4299HL_4V8P_124:HL_2XLK_001 = 0.393HL_4V8P_124:HL_5O7H_001 = 0.3256HL_4V8P_124:HL_5J7L_174 = 0.2967HL_4V8P_124:HL_1XJR_001 = 0.3081HL_4V8P_124:HL_4Y4O_123 = 0.2704HL_4V8P_124:HL_4WF9_021 = 0.2563HL_4V8P_124:HL_4V8P_124 = 0HL_4V8P_124:HL_5TBW_042 = 0.1781HL_4V8P_124:HL_4V9F_016 = 0.2728HL_4V8P_124:HL_4IOA_045 = 0.6543HL_4V8P_124:HL_3D0U_003 = 0.5793HL_4V8P_124:HL_4QLM_001 = 0.9022HL_5TBW_042:HL_4IOA_004 = 0.7658HL_5TBW_042:HL_4V8P_135 = 0.6418HL_5TBW_042:HL_5TBW_074 = 0.6506HL_5TBW_042:HL_4V9F_022 = 0.5806HL_5TBW_042:HL_5LM7_001 = 0.3894HL_5TBW_042:HL_4AL5_001 = 0.4126HL_5TBW_042:HL_2XLK_001 = 0.371HL_5TBW_042:HL_5O7H_001 = 0.3046HL_5TBW_042:HL_5J7L_174 = 0.3113HL_5TBW_042:HL_1XJR_001 = 0.3543HL_5TBW_042:HL_4Y4O_123 = 0.294HL_5TBW_042:HL_4WF9_021 = 0.2881HL_5TBW_042:HL_4V8P_124 = 0.1781HL_5TBW_042:HL_5TBW_042 = 0HL_5TBW_042:HL_4V9F_016 = 0.288HL_5TBW_042:HL_4IOA_045 = 0.6337HL_5TBW_042:HL_3D0U_003 = 0.5694HL_5TBW_042:HL_4QLM_001 = 0.8876HL_4V9F_016:HL_4IOA_004 = 0.6557HL_4V9F_016:HL_4V8P_135 = 0.5466HL_4V9F_016:HL_5TBW_074 = 0.6087HL_4V9F_016:HL_4V9F_022 = 0.5131HL_4V9F_016:HL_5LM7_001 = 0.2769HL_4V9F_016:HL_4AL5_001 = 0.3008HL_4V9F_016:HL_2XLK_001 = 0.2785HL_4V9F_016:HL_5O7H_001 = 0.338HL_4V9F_016:HL_5J7L_174 = 0.3341HL_4V9F_016:HL_1XJR_001 = 0.4242HL_4V9F_016:HL_4Y4O_123 = 0.3645HL_4V9F_016:HL_4WF9_021 = 0.2858HL_4V9F_016:HL_4V8P_124 = 0.2728HL_4V9F_016:HL_5TBW_042 = 0.288HL_4V9F_016:HL_4V9F_016 = 0HL_4V9F_016:HL_4IOA_045 = 0.5779HL_4V9F_016:HL_3D0U_003 = 0.5907HL_4V9F_016:HL_4QLM_001 = 0.845HL_4IOA_045:HL_4IOA_004 = 0.759HL_4IOA_045:HL_4V8P_135 = 0.7134HL_4IOA_045:HL_5TBW_074 = 0.8443HL_4IOA_045:HL_4V9F_022 = 0.5994HL_4IOA_045:HL_5LM7_001 = 0.5449HL_4IOA_045:HL_4AL5_001 = 0.5792HL_4IOA_045:HL_2XLK_001 = 0.5406HL_4IOA_045:HL_5O7H_001 = 0.5556HL_4IOA_045:HL_5J7L_174 = 0.5645HL_4IOA_045:HL_1XJR_001 = 0.6302HL_4IOA_045:HL_4Y4O_123 = 0.6333HL_4IOA_045:HL_4WF9_021 = 0.6517HL_4IOA_045:HL_4V8P_124 = 0.6543HL_4IOA_045:HL_5TBW_042 = 0.6337HL_4IOA_045:HL_4V9F_016 = 0.5779HL_4IOA_045:HL_4IOA_045 = 0HL_4IOA_045:HL_3D0U_003 = 0.4709HL_4IOA_045:HL_4QLM_001 = 0.6535HL_3D0U_003:HL_4IOA_004 = 0.7928HL_3D0U_003:HL_4V8P_135 = 0.756HL_3D0U_003:HL_5TBW_074 = 0.7757HL_3D0U_003:HL_4V9F_022 = 0.6354HL_3D0U_003:HL_5LM7_001 = 0.5524HL_3D0U_003:HL_4AL5_001 = 0.5793HL_3D0U_003:HL_2XLK_001 = 0.5276HL_3D0U_003:HL_5O7H_001 = 0.5023HL_3D0U_003:HL_5J7L_174 = 0.496HL_3D0U_003:HL_1XJR_001 = 0.5437HL_3D0U_003:HL_4Y4O_123 = 0.5645HL_3D0U_003:HL_4WF9_021 = 0.5787HL_3D0U_003:HL_4V8P_124 = 0.5793HL_3D0U_003:HL_5TBW_042 = 0.5694HL_3D0U_003:HL_4V9F_016 = 0.5907HL_3D0U_003:HL_4IOA_045 = 0.4709HL_3D0U_003:HL_3D0U_003 = 0HL_3D0U_003:HL_4QLM_001 = 0.597HL_4QLM_001:HL_4IOA_004 = 0.8581HL_4QLM_001:HL_4V8P_135 = 0.9009HL_4QLM_001:HL_5TBW_074 = 0.9915HL_4QLM_001:HL_4V9F_022 = 0.8424HL_4QLM_001:HL_5LM7_001 = 0.7863HL_4QLM_001:HL_4AL5_001 = 0.739HL_4QLM_001:HL_2XLK_001 = 0.771HL_4QLM_001:HL_5O7H_001 = 0.8031HL_4QLM_001:HL_5J7L_174 = 0.7883HL_4QLM_001:HL_1XJR_001 = 0.8451HL_4QLM_001:HL_4Y4O_123 = 0.8063HL_4QLM_001:HL_4WF9_021 = 0.805HL_4QLM_001:HL_4V8P_124 = 0.9022HL_4QLM_001:HL_5TBW_042 = 0.8876HL_4QLM_001:HL_4V9F_016 = 0.845HL_4QLM_001:HL_4IOA_045 = 0.6535HL_4QLM_001:HL_3D0U_003 = 0.597HL_4QLM_001:HL_4QLM_001 = 0HL_4IOA_004HL_4V8P_135HL_5TBW_074HL_4V9F_022HL_5LM7_001HL_4AL5_001HL_2XLK_001HL_5O7H_001HL_5J7L_174HL_1XJR_001HL_4Y4O_123HL_4WF9_021HL_4V8P_124HL_5TBW_042HL_4V9F_016HL_4IOA_045HL_3D0U_003HL_4QLM_001Discrepancy0.000.200.400.600.80
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