RNA 3D Hub //

Motif IL_88739.4 Version IL_88739.4 of this group appears in releases 3.87 to 3.88

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3break 4 51-52-53-4
1 IL_7A0S_0667A0S0.17121Minor groove platform, major groove intercalationX LSU rRNAC1829G1831G1832*C1885G1886cWWcWW
2 IL_8C3A_0898C3A0.17251Major groove intercalation (H)1 LSU rRNAC2174A2176G2177*C2223G2224cWWcWW
3 IL_5TBW_0845TBW0.14111Major groove intercalation1 LSU rRNAC2196A2198G2199*C2245G2246cWWcWW
4 IL_8VTW_0708VTW0.19661Minor groove platform, major groove intercalation (H)1A LSU rRNAC1837G1839G1840*C1902G1903cWWcWW
5 IL_4V9F_0664V9F0.14031Minor groove platform, major groove intercalation0 LSU rRNAC1893A1895G1896*C1943G1944cWWcWW
6 IL_5J7L_3145J7L0.00001Minor groove platform, major groove intercalationDA LSU rRNAC1837G1839G1840*C1902G1903cWWntHScWW
7 IL_1U9S_0051U9S0.13871Minor groove platform, major groove intercalationARIBONUCLEASE PC136G138C139*G161G162cWWntHScWW
8 IL_8VTW_0728VTW0.29921Minor groove platform (H)1A LSU rRNAG1846A1848G1849*C1893C1894cWWncWScWW
9 IL_7A0S_0687A0S0.42611Major groove minor groove platform; mini C-loopX LSU rRNAG1838A1840G1841*C1876C1877cWWncWScWW
10 IL_1U9S_0021U9S0.42972Major groove intercalationARIBONUCLEASE PG111A114G115*C228C229cWWcWW
11 IL_6XJQ_0036XJQ0.67062ASelf-alkylating ribozyme (58-MER)U42G45C46*G16G17cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
CCGG*CG3
CCAG*CG3
GAAG*CC2
CAGC*GG1
GAAAG*CC1
UAGGC*GG1
Non-Watson-Crick part of the motif
SequenceCounts
CG*3
CA*3
AA*2
AG*1
AAA*1
AGG*1

Release history

Release3.873.88
Date2024-08-142024-09-11
StatusUpdated, 1 parentExact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.
Annotations
  • Minor groove platform, major groove intercalation (4)
  • Major groove intercalation (2)
  • (1)
  • Major groove minor groove platform; mini C-loop (1)
  • Major groove intercalation (H) (1)
  • Minor groove platform, major groove intercalation (H) (1)
  • Minor groove platform (H) (1)
    • Basepair signature
    cWW-L-cWW
    Heat map statistics
    Min 0.10 | Avg 0.34 | Max 0.73
    Help

    Coloring options:

    IL_7A0S_066:IL_7A0S_066 = 0IL_7A0S_066:IL_8C3A_089 = 0.1821IL_7A0S_066:IL_5TBW_084 = 0.1908IL_7A0S_066:IL_8VTW_070 = 0.2148IL_7A0S_066:IL_4V9F_066 = 0.2072IL_7A0S_066:IL_5J7L_314 = 0.1712IL_7A0S_066:IL_1U9S_005 = 0.2439IL_7A0S_066:IL_8VTW_072 = 0.3851IL_7A0S_066:IL_7A0S_068 = 0.4891IL_7A0S_066:IL_1U9S_002 = 0.5225IL_7A0S_066:IL_6XJQ_003 = 0.7348IL_8C3A_089:IL_7A0S_066 = 0.1821IL_8C3A_089:IL_8C3A_089 = 0IL_8C3A_089:IL_5TBW_084 = 0.0992IL_8C3A_089:IL_8VTW_070 = 0.1483IL_8C3A_089:IL_4V9F_066 = 0.1688IL_8C3A_089:IL_5J7L_314 = 0.1725IL_8C3A_089:IL_1U9S_005 = 0.2095IL_8C3A_089:IL_8VTW_072 = 0.4086IL_8C3A_089:IL_7A0S_068 = 0.5484IL_8C3A_089:IL_1U9S_002 = 0.505IL_8C3A_089:IL_6XJQ_003 = 0.7214IL_5TBW_084:IL_7A0S_066 = 0.1908IL_5TBW_084:IL_8C3A_089 = 0.0992IL_5TBW_084:IL_5TBW_084 = 0IL_5TBW_084:IL_8VTW_070 = 0.1191IL_5TBW_084:IL_4V9F_066 = 0.1255IL_5TBW_084:IL_5J7L_314 = 0.1411IL_5TBW_084:IL_1U9S_005 = 0.2029IL_5TBW_084:IL_8VTW_072 = 0.4004IL_5TBW_084:IL_7A0S_068 = 0.5073IL_5TBW_084:IL_1U9S_002 = 0.4562IL_5TBW_084:IL_6XJQ_003 = 0.6984IL_8VTW_070:IL_7A0S_066 = 0.2148IL_8VTW_070:IL_8C3A_089 = 0.1483IL_8VTW_070:IL_5TBW_084 = 0.1191IL_8VTW_070:IL_8VTW_070 = 0IL_8VTW_070:IL_4V9F_066 = 0.1395IL_8VTW_070:IL_5J7L_314 = 0.1966IL_8VTW_070:IL_1U9S_005 = 0.2589IL_8VTW_070:IL_8VTW_072 = 0.4599IL_8VTW_070:IL_7A0S_068 = 0.5342IL_8VTW_070:IL_1U9S_002 = 0.4409IL_8VTW_070:IL_6XJQ_003 = 0.6571IL_4V9F_066:IL_7A0S_066 = 0.2072IL_4V9F_066:IL_8C3A_089 = 0.1688IL_4V9F_066:IL_5TBW_084 = 0.1255IL_4V9F_066:IL_8VTW_070 = 0.1395IL_4V9F_066:IL_4V9F_066 = 0IL_4V9F_066:IL_5J7L_314 = 0.1403IL_4V9F_066:IL_1U9S_005 = 0.2202IL_4V9F_066:IL_8VTW_072 = 0.3804IL_4V9F_066:IL_7A0S_068 = 0.4749IL_4V9F_066:IL_1U9S_002 = 0.4364IL_4V9F_066:IL_6XJQ_003 = 0.6544IL_5J7L_314:IL_7A0S_066 = 0.1712IL_5J7L_314:IL_8C3A_089 = 0.1725IL_5J7L_314:IL_5TBW_084 = 0.1411IL_5J7L_314:IL_8VTW_070 = 0.1966IL_5J7L_314:IL_4V9F_066 = 0.1403IL_5J7L_314:IL_5J7L_314 = 0IL_5J7L_314:IL_1U9S_005 = 0.1387IL_5J7L_314:IL_8VTW_072 = 0.2992IL_5J7L_314:IL_7A0S_068 = 0.4261IL_5J7L_314:IL_1U9S_002 = 0.4297IL_5J7L_314:IL_6XJQ_003 = 0.6706IL_1U9S_005:IL_7A0S_066 = 0.2439IL_1U9S_005:IL_8C3A_089 = 0.2095IL_1U9S_005:IL_5TBW_084 = 0.2029IL_1U9S_005:IL_8VTW_070 = 0.2589IL_1U9S_005:IL_4V9F_066 = 0.2202IL_1U9S_005:IL_5J7L_314 = 0.1387IL_1U9S_005:IL_1U9S_005 = 0IL_1U9S_005:IL_8VTW_072 = 0.2692IL_1U9S_005:IL_7A0S_068 = 0.4076IL_1U9S_005:IL_1U9S_002 = 0.3976IL_1U9S_005:IL_6XJQ_003 = 0.6675IL_8VTW_072:IL_7A0S_066 = 0.3851IL_8VTW_072:IL_8C3A_089 = 0.4086IL_8VTW_072:IL_5TBW_084 = 0.4004IL_8VTW_072:IL_8VTW_070 = 0.4599IL_8VTW_072:IL_4V9F_066 = 0.3804IL_8VTW_072:IL_5J7L_314 = 0.2992IL_8VTW_072:IL_1U9S_005 = 0.2692IL_8VTW_072:IL_8VTW_072 = 0IL_8VTW_072:IL_7A0S_068 = 0.3068IL_8VTW_072:IL_1U9S_002 = 0.4883IL_8VTW_072:IL_6XJQ_003 = 0.6898IL_7A0S_068:IL_7A0S_066 = 0.4891IL_7A0S_068:IL_8C3A_089 = 0.5484IL_7A0S_068:IL_5TBW_084 = 0.5073IL_7A0S_068:IL_8VTW_070 = 0.5342IL_7A0S_068:IL_4V9F_066 = 0.4749IL_7A0S_068:IL_5J7L_314 = 0.4261IL_7A0S_068:IL_1U9S_005 = 0.4076IL_7A0S_068:IL_8VTW_072 = 0.3068IL_7A0S_068:IL_7A0S_068 = 0IL_7A0S_068:IL_1U9S_002 = 0.3946IL_7A0S_068:IL_6XJQ_003 = 0.6448IL_1U9S_002:IL_7A0S_066 = 0.5225IL_1U9S_002:IL_8C3A_089 = 0.505IL_1U9S_002:IL_5TBW_084 = 0.4562IL_1U9S_002:IL_8VTW_070 = 0.4409IL_1U9S_002:IL_4V9F_066 = 0.4364IL_1U9S_002:IL_5J7L_314 = 0.4297IL_1U9S_002:IL_1U9S_005 = 0.3976IL_1U9S_002:IL_8VTW_072 = 0.4883IL_1U9S_002:IL_7A0S_068 = 0.3946IL_1U9S_002:IL_1U9S_002 = 0IL_1U9S_002:IL_6XJQ_003 = 0.4962IL_6XJQ_003:IL_7A0S_066 = 0.7348IL_6XJQ_003:IL_8C3A_089 = 0.7214IL_6XJQ_003:IL_5TBW_084 = 0.6984IL_6XJQ_003:IL_8VTW_070 = 0.6571IL_6XJQ_003:IL_4V9F_066 = 0.6544IL_6XJQ_003:IL_5J7L_314 = 0.6706IL_6XJQ_003:IL_1U9S_005 = 0.6675IL_6XJQ_003:IL_8VTW_072 = 0.6898IL_6XJQ_003:IL_7A0S_068 = 0.6448IL_6XJQ_003:IL_1U9S_002 = 0.4962IL_6XJQ_003:IL_6XJQ_003 = 0IL_7A0S_066IL_8C3A_089IL_5TBW_084IL_8VTW_070IL_4V9F_066IL_5J7L_314IL_1U9S_005IL_8VTW_072IL_7A0S_068IL_1U9S_002IL_6XJQ_003Discrepancy0.000.200.400.60
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