RNA 3D Hub //

Motif HL_02361.4 Version HL_02361.4 of this group appears in releases 3.33 to 3.47

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3 4 5 61-62-5
1 HL_4IOA_0044IOA0.68390GNRA variationX LSU rRNAC133G134U135A136A137G138cWWntSH
2 HL_5TBW_0745TBW0.62160GNRA variation4 5.8S rRNAU73U74G75C76A77G78ncWW
3 HL_5VSU_0015VSU0.62270GNRA variationI U6 snRNAU70G71C72A73U74A75cWW
4 HL_5LM7_0015LM70.25951GNRAGRNA (29-MER)U21G22A23A24A26A27cWWntSH
5 HL_4AL5_0014AL50.25931GNRABRNA (20-mer)C10G11U12A13A15G16cWWtSH
6 HL_2XLK_0012XLK0.20501GNRACRNA (16-mer)C10G11U12A13A15G16cWWtSH
7 HL_5O7H_0015O7H0.12781GNRAAcrRNAC32G33C34A35A37G38cWWntSH
8 HL_6VMY_0016VMY0.00001GNRAACobalamin riboswitchU223G224A225A226A228A229cWWntSH
9 HL_5J7L_1745J7L0.15071GNRADA LSU rRNAA1630G1631A1632G1633A1635U1636cWWtSH
10 HL_1XJR_0011XJR0.21291GNRAAs2m RNAG21G22A23G24A26C27cWWtSH
11 HL_4Y4O_1234Y4O0.16901GNRA2A LSU rRNAC641G642A643A644A646G647cWWtSH
12 HL_4WF9_0214WF90.29471GNRAX LSU rRNAU686G687A688A689A691G692cWWntSH
13 HL_4V9F_0164V9F0.33481GNRA0 LSU rRNAU493C494A495G496A498G499cWWntSH
14 HL_5TBW_0425TBW0.29141GNRA1 LSU rRNAU1862G1863A1864A1865A1867G1868cWWtSH
15 HL_3D0U_0033D0U0.49851GNRAALysine Riboswitch RNAG121G122A123A124A126C127cWWtSH
16 HL_4IOA_0454IOA0.55961GNRAX LSU rRNAC1797G1798A1799A1800A1802G1803cWWtSH

3D structures

Complete motif including flanking bases
SequenceCounts
CGUAUAG2
CGAACAG2
CGUAAG1
UUGCAG1
UGCAUA1
UGAAGAA1
CGCACAG1
UGAACAA1
AGAGAAU1
GGAGUAC1
UGAAUAG1
UCAGAAG1
UGAACAG1
GGAAUAC1
Non-Watson-Crick part of the motif
SequenceCounts
GAACA4
GUAUA2
GAAUA2
GUAA1
UGCA1
GCAU1
GAAGA1
GCACA1
GAGAA1
GAGUA1
CAGAA1

Release history

Release3.333.343.353.363.373.383.393.403.413.423.433.443.453.463.47
Date2020-06-242020-07-222020-08-192020-09-162020-10-142020-11-112020-12-092021-01-062021-02-032021-03-032021-03-312021-04-282021-05-262021-06-232021-07-21
StatusUpdated, 1 parentExact matchExact matchExact matchExact matchExact matchExact matchExact 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 (13)
  • GNRA variation (3)
    • Basepair signature
    cWW-tSH-R-R
    Heat map statistics
    Min 0.12 | Avg 0.44 | Max 0.94
    Help

    Coloring options:

    HL_4IOA_004:HL_4IOA_004 = 0HL_4IOA_004:HL_5TBW_074 = 0.7488HL_4IOA_004:HL_5VSU_001 = 0.9431HL_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_6VMY_001 = 0.6839HL_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_4V9F_016 = 0.6557HL_4IOA_004:HL_5TBW_042 = 0.7658HL_4IOA_004:HL_3D0U_003 = 0.7928HL_4IOA_004:HL_4IOA_045 = 0.759HL_5TBW_074:HL_4IOA_004 = 0.7488HL_5TBW_074:HL_5TBW_074 = 0HL_5TBW_074:HL_5VSU_001 = 0.6686HL_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_6VMY_001 = 0.6216HL_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_4V9F_016 = 0.6087HL_5TBW_074:HL_5TBW_042 = 0.6506HL_5TBW_074:HL_3D0U_003 = 0.7757HL_5TBW_074:HL_4IOA_045 = 0.8443HL_5VSU_001:HL_4IOA_004 = 0.9431HL_5VSU_001:HL_5TBW_074 = 0.6686HL_5VSU_001:HL_5VSU_001 = 0HL_5VSU_001:HL_5LM7_001 = 0.5715HL_5VSU_001:HL_4AL5_001 = 0.6985HL_5VSU_001:HL_2XLK_001 = 0.6521HL_5VSU_001:HL_5O7H_001 = 0.6058HL_5VSU_001:HL_6VMY_001 = 0.6227HL_5VSU_001:HL_5J7L_174 = 0.635HL_5VSU_001:HL_1XJR_001 = 0.5855HL_5VSU_001:HL_4Y4O_123 = 0.5806HL_5VSU_001:HL_4WF9_021 = 0.6155HL_5VSU_001:HL_4V9F_016 = 0.6459HL_5VSU_001:HL_5TBW_042 = 0.7005HL_5VSU_001:HL_3D0U_003 = 0.7785HL_5VSU_001:HL_4IOA_045 = 0.7643HL_5LM7_001:HL_4IOA_004 = 0.6883HL_5LM7_001:HL_5TBW_074 = 0.6202HL_5LM7_001:HL_5VSU_001 = 0.5715HL_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_6VMY_001 = 0.2595HL_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_4V9F_016 = 0.2769HL_5LM7_001:HL_5TBW_042 = 0.3894HL_5LM7_001:HL_3D0U_003 = 0.5524HL_5LM7_001:HL_4IOA_045 = 0.5449HL_4AL5_001:HL_4IOA_004 = 0.6029HL_4AL5_001:HL_5TBW_074 = 0.6656HL_4AL5_001:HL_5VSU_001 = 0.6985HL_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_6VMY_001 = 0.2593HL_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_4V9F_016 = 0.3008HL_4AL5_001:HL_5TBW_042 = 0.4126HL_4AL5_001:HL_3D0U_003 = 0.5793HL_4AL5_001:HL_4IOA_045 = 0.5792HL_2XLK_001:HL_4IOA_004 = 0.6325HL_2XLK_001:HL_5TBW_074 = 0.6618HL_2XLK_001:HL_5VSU_001 = 0.6521HL_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_6VMY_001 = 0.205HL_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_4V9F_016 = 0.2785HL_2XLK_001:HL_5TBW_042 = 0.371HL_2XLK_001:HL_3D0U_003 = 0.5276HL_2XLK_001:HL_4IOA_045 = 0.5406HL_5O7H_001:HL_4IOA_004 = 0.7065HL_5O7H_001:HL_5TBW_074 = 0.6423HL_5O7H_001:HL_5VSU_001 = 0.6058HL_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_6VMY_001 = 0.1278HL_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_4V9F_016 = 0.338HL_5O7H_001:HL_5TBW_042 = 0.3046HL_5O7H_001:HL_3D0U_003 = 0.5023HL_5O7H_001:HL_4IOA_045 = 0.5556HL_6VMY_001:HL_4IOA_004 = 0.6839HL_6VMY_001:HL_5TBW_074 = 0.6216HL_6VMY_001:HL_5VSU_001 = 0.6227HL_6VMY_001:HL_5LM7_001 = 0.2595HL_6VMY_001:HL_4AL5_001 = 0.2593HL_6VMY_001:HL_2XLK_001 = 0.205HL_6VMY_001:HL_5O7H_001 = 0.1278HL_6VMY_001:HL_6VMY_001 = 0HL_6VMY_001:HL_5J7L_174 = 0.1507HL_6VMY_001:HL_1XJR_001 = 0.2129HL_6VMY_001:HL_4Y4O_123 = 0.169HL_6VMY_001:HL_4WF9_021 = 0.2947HL_6VMY_001:HL_4V9F_016 = 0.3348HL_6VMY_001:HL_5TBW_042 = 0.2914HL_6VMY_001:HL_3D0U_003 = 0.4985HL_6VMY_001:HL_4IOA_045 = 0.5596HL_5J7L_174:HL_4IOA_004 = 0.6312HL_5J7L_174:HL_5TBW_074 = 0.6236HL_5J7L_174:HL_5VSU_001 = 0.635HL_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_6VMY_001 = 0.1507HL_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_4V9F_016 = 0.3341HL_5J7L_174:HL_5TBW_042 = 0.3113HL_5J7L_174:HL_3D0U_003 = 0.496HL_5J7L_174:HL_4IOA_045 = 0.5645HL_1XJR_001:HL_4IOA_004 = 0.768HL_1XJR_001:HL_5TBW_074 = 0.6355HL_1XJR_001:HL_5VSU_001 = 0.5855HL_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_6VMY_001 = 0.2129HL_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_4V9F_016 = 0.4242HL_1XJR_001:HL_5TBW_042 = 0.3543HL_1XJR_001:HL_3D0U_003 = 0.5437HL_1XJR_001:HL_4IOA_045 = 0.6302HL_4Y4O_123:HL_4IOA_004 = 0.7709HL_4Y4O_123:HL_5TBW_074 = 0.6234HL_4Y4O_123:HL_5VSU_001 = 0.5806HL_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_6VMY_001 = 0.169HL_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_4V9F_016 = 0.3645HL_4Y4O_123:HL_5TBW_042 = 0.294HL_4Y4O_123:HL_3D0U_003 = 0.5645HL_4Y4O_123:HL_4IOA_045 = 0.6333HL_4WF9_021:HL_4IOA_004 = 0.7337HL_4WF9_021:HL_5TBW_074 = 0.5331HL_4WF9_021:HL_5VSU_001 = 0.6155HL_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_6VMY_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_4V9F_016 = 0.2858HL_4WF9_021:HL_5TBW_042 = 0.2881HL_4WF9_021:HL_3D0U_003 = 0.5787HL_4WF9_021:HL_4IOA_045 = 0.6517HL_4V9F_016:HL_4IOA_004 = 0.6557HL_4V9F_016:HL_5TBW_074 = 0.6087HL_4V9F_016:HL_5VSU_001 = 0.6459HL_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_6VMY_001 = 0.3348HL_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_4V9F_016 = 0HL_4V9F_016:HL_5TBW_042 = 0.288HL_4V9F_016:HL_3D0U_003 = 0.5907HL_4V9F_016:HL_4IOA_045 = 0.5779HL_5TBW_042:HL_4IOA_004 = 0.7658HL_5TBW_042:HL_5TBW_074 = 0.6506HL_5TBW_042:HL_5VSU_001 = 0.7005HL_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_6VMY_001 = 0.2914HL_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_4V9F_016 = 0.288HL_5TBW_042:HL_5TBW_042 = 0HL_5TBW_042:HL_3D0U_003 = 0.5694HL_5TBW_042:HL_4IOA_045 = 0.6337HL_3D0U_003:HL_4IOA_004 = 0.7928HL_3D0U_003:HL_5TBW_074 = 0.7757HL_3D0U_003:HL_5VSU_001 = 0.7785HL_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_6VMY_001 = 0.4985HL_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_4V9F_016 = 0.5907HL_3D0U_003:HL_5TBW_042 = 0.5694HL_3D0U_003:HL_3D0U_003 = 0HL_3D0U_003:HL_4IOA_045 = 0.4709HL_4IOA_045:HL_4IOA_004 = 0.759HL_4IOA_045:HL_5TBW_074 = 0.8443HL_4IOA_045:HL_5VSU_001 = 0.7643HL_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_6VMY_001 = 0.5596HL_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_4V9F_016 = 0.5779HL_4IOA_045:HL_5TBW_042 = 0.6337HL_4IOA_045:HL_3D0U_003 = 0.4709HL_4IOA_045:HL_4IOA_045 = 0HL_4IOA_004HL_5TBW_074HL_5VSU_001HL_5LM7_001HL_4AL5_001HL_2XLK_001HL_5O7H_001HL_6VMY_001HL_5J7L_174HL_1XJR_001HL_4Y4O_123HL_4WF9_021HL_4V9F_016HL_5TBW_042HL_3D0U_003HL_4IOA_045Discrepancy0.000.200.400.600.80
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