RNA 3D Hub //

Motif IL_10277.2 Version IL_10277.2 of this group appears in releases 3.3 to 3.11

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3break 4 51-52-42-53-4
1 IL_4V5O_1304V5O0.88030BA SSU rRNAA1030A1031U1032*G1037U1038cWWncWWncWW
2 IL_2XXA_0062XXA0.78250F SSRP RNAG68A69U70*G28C29cWWncWWcWW
3 IL_4GMA_0014GMA0.69840ZAdenosylcobalamin riboswitchA7G8C9*G176U177ncWWcWW
4 IL_5TBW_0705TBW0.77850Single stack bend1 LSU rRNAG1776U1777G1778*C1670C1671cWWcWW
5 IL_4UYK_0024UYK0.57640Not an internal loopRSRP RNAG78C79G80*C121C122ncwWcWW
6 IL_4Y4O_2344Y4O0.56570Single stack bend (H)2A LSU rRNAG1448A1449G1450*C1462C1463cWWcWW
7 IL_4LFB_0534LFB0.51030Not an internal loopA SSU rRNAG1274A1275G1276*C1259C1260ncWWntHScWW
8 IL_3Q1Q_0033Q1Q0.34662BRNase P RNAG103A106G107*C209C210cWWcWScWW
9 IL_5TBW_3745TBW0.45541Minor groove platformAS 5S rRNAG49A51G52*C28C29cWWcWScWW
10 IL_4TS2_0024TS20.35783Minor groove platformY+XSpinach aptamer RNA, bimolecular constructU82A84C85*G14A17cWWcWScWW
11 IL_4IOA_1064IOA0.00001Y 5S rRNAG53C55G56*C32C33cWWntHScWW
12 IL_4V9F_0664V9F0.34151Minor groove platform, major groove intercalation0 LSU rRNAC1893A1895G1896*C1943G1944cWWcWW
13 IL_5TBW_0845TBW0.35441Major groove intercalation1 LSU rRNAC2196A2198G2199*C2245G2246cWWcWW
14 IL_4V8P_2444V8P0.38041Major groove intercalation (H)D1 LSU rRNAC2191A2193G2194*C2240G2241cWWcWW
15 IL_4IOA_0664IOA0.40371Minor groove platform, major groove intercalation (H)X LSU rRNAC1829G1831G1832*C1885G1886cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
CCAG*CG3
GAG*CC2
AAU*GU1
GAU*GC1
AGC*GU1
GUG*CC1
GCG*CC1
GACAG*CC1
GUAG*CC1
UAAC*GAAA1
GUCG*CC1
CCGG*CG1
Non-Watson-Crick part of the motif
SequenceCounts
A*4
CA*3
G*1
U*1
C*1
ACA*1
UA*1
AA*AA1
UC*1
CG*1

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
StatusUpdated, 1 parentExact 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
  • (5)
  • Not an internal loop (2)
  • Minor groove platform (2)
  • Minor groove platform, major groove intercalation (H) (1)
  • Major groove intercalation (H) (1)
  • Minor groove platform, major groove intercalation (1)
  • Single stack bend (H) (1)
  • Single stack bend (1)
  • Major groove intercalation (1)
    • Basepair signature
    cWW-L-cWW
    Heat map statistics
    Min 0.10 | Avg 0.57 | Max 1.00
    Help

    Coloring options:

    IL_4V5O_130:IL_4V5O_130 = 0IL_4V5O_130:IL_2XXA_006 = 0.3282IL_4V5O_130:IL_4GMA_001 = 0.3773IL_4V5O_130:IL_5TBW_070 = 0.4733IL_4V5O_130:IL_4UYK_002 = 0.5409IL_4V5O_130:IL_4Y4O_234 = 0.5665IL_4V5O_130:IL_4LFB_053 = 0.5867IL_4V5O_130:IL_3Q1Q_003 = 0.9218IL_4V5O_130:IL_5TBW_374 = 0.9702IL_4V5O_130:IL_4TS2_002 = 0.9602IL_4V5O_130:IL_4IOA_106 = 0.8803IL_4V5O_130:IL_4V9F_066 = 0.9964IL_4V5O_130:IL_5TBW_084 = 0.9976IL_4V5O_130:IL_4V8P_244 = 0.9722IL_4V5O_130:IL_4IOA_066 = 0.9292IL_2XXA_006:IL_4V5O_130 = 0.3282IL_2XXA_006:IL_2XXA_006 = 0IL_2XXA_006:IL_4GMA_001 = 0.3576IL_2XXA_006:IL_5TBW_070 = 0.503IL_2XXA_006:IL_4UYK_002 = 0.5123IL_2XXA_006:IL_4Y4O_234 = 0.4314IL_2XXA_006:IL_4LFB_053 = 0.5353IL_2XXA_006:IL_3Q1Q_003 = 0.8087IL_2XXA_006:IL_5TBW_374 = 0.8437IL_2XXA_006:IL_4TS2_002 = 0.8506IL_2XXA_006:IL_4IOA_106 = 0.7825IL_2XXA_006:IL_4V9F_066 = 0.9234IL_2XXA_006:IL_5TBW_084 = 0.9347IL_2XXA_006:IL_4V8P_244 = 0.9287IL_2XXA_006:IL_4IOA_066 = 0.8854IL_4GMA_001:IL_4V5O_130 = 0.3773IL_4GMA_001:IL_2XXA_006 = 0.3576IL_4GMA_001:IL_4GMA_001 = 0IL_4GMA_001:IL_5TBW_070 = 0.4333IL_4GMA_001:IL_4UYK_002 = 0.4556IL_4GMA_001:IL_4Y4O_234 = 0.4926IL_4GMA_001:IL_4LFB_053 = 0.4325IL_4GMA_001:IL_3Q1Q_003 = 0.7321IL_4GMA_001:IL_5TBW_374 = 0.8022IL_4GMA_001:IL_4TS2_002 = 0.8202IL_4GMA_001:IL_4IOA_106 = 0.6984IL_4GMA_001:IL_4V9F_066 = 0.8098IL_4GMA_001:IL_5TBW_084 = 0.8314IL_4GMA_001:IL_4V8P_244 = 0.8144IL_4GMA_001:IL_4IOA_066 = 0.7529IL_5TBW_070:IL_4V5O_130 = 0.4733IL_5TBW_070:IL_2XXA_006 = 0.503IL_5TBW_070:IL_4GMA_001 = 0.4333IL_5TBW_070:IL_5TBW_070 = 0IL_5TBW_070:IL_4UYK_002 = 0.3851IL_5TBW_070:IL_4Y4O_234 = 0.6023IL_5TBW_070:IL_4LFB_053 = 0.6327IL_5TBW_070:IL_3Q1Q_003 = 0.8995IL_5TBW_070:IL_5TBW_374 = 0.954IL_5TBW_070:IL_4TS2_002 = 0.9492IL_5TBW_070:IL_4IOA_106 = 0.7785IL_5TBW_070:IL_4V9F_066 = 0.8877IL_5TBW_070:IL_5TBW_084 = 0.8897IL_5TBW_070:IL_4V8P_244 = 0.864IL_5TBW_070:IL_4IOA_066 = 0.8268IL_4UYK_002:IL_4V5O_130 = 0.5409IL_4UYK_002:IL_2XXA_006 = 0.5123IL_4UYK_002:IL_4GMA_001 = 0.4556IL_4UYK_002:IL_5TBW_070 = 0.3851IL_4UYK_002:IL_4UYK_002 = 0IL_4UYK_002:IL_4Y4O_234 = 0.4349IL_4UYK_002:IL_4LFB_053 = 0.469IL_4UYK_002:IL_3Q1Q_003 = 0.6963IL_4UYK_002:IL_5TBW_374 = 0.7127IL_4UYK_002:IL_4TS2_002 = 0.7348IL_4UYK_002:IL_4IOA_106 = 0.5764IL_4UYK_002:IL_4V9F_066 = 0.7595IL_4UYK_002:IL_5TBW_084 = 0.7422IL_4UYK_002:IL_4V8P_244 = 0.7314IL_4UYK_002:IL_4IOA_066 = 0.7262IL_4Y4O_234:IL_4V5O_130 = 0.5665IL_4Y4O_234:IL_2XXA_006 = 0.4314IL_4Y4O_234:IL_4GMA_001 = 0.4926IL_4Y4O_234:IL_5TBW_070 = 0.6023IL_4Y4O_234:IL_4UYK_002 = 0.4349IL_4Y4O_234:IL_4Y4O_234 = 0IL_4Y4O_234:IL_4LFB_053 = 0.468IL_4Y4O_234:IL_3Q1Q_003 = 0.6236IL_4Y4O_234:IL_5TBW_374 = 0.5753IL_4Y4O_234:IL_4TS2_002 = 0.612IL_4Y4O_234:IL_4IOA_106 = 0.5657IL_4Y4O_234:IL_4V9F_066 = 0.7405IL_4Y4O_234:IL_5TBW_084 = 0.7118IL_4Y4O_234:IL_4V8P_244 = 0.7214IL_4Y4O_234:IL_4IOA_066 = 0.7451IL_4LFB_053:IL_4V5O_130 = 0.5867IL_4LFB_053:IL_2XXA_006 = 0.5353IL_4LFB_053:IL_4GMA_001 = 0.4325IL_4LFB_053:IL_5TBW_070 = 0.6327IL_4LFB_053:IL_4UYK_002 = 0.469IL_4LFB_053:IL_4Y4O_234 = 0.468IL_4LFB_053:IL_4LFB_053 = 0IL_4LFB_053:IL_3Q1Q_003 = 0.4804IL_4LFB_053:IL_5TBW_374 = 0.6273IL_4LFB_053:IL_4TS2_002 = 0.6602IL_4LFB_053:IL_4IOA_106 = 0.5103IL_4LFB_053:IL_4V9F_066 = 0.5747IL_4LFB_053:IL_5TBW_084 = 0.5694IL_4LFB_053:IL_4V8P_244 = 0.5557IL_4LFB_053:IL_4IOA_066 = 0.5183IL_3Q1Q_003:IL_4V5O_130 = 0.9218IL_3Q1Q_003:IL_2XXA_006 = 0.8087IL_3Q1Q_003:IL_4GMA_001 = 0.7321IL_3Q1Q_003:IL_5TBW_070 = 0.8995IL_3Q1Q_003:IL_4UYK_002 = 0.6963IL_3Q1Q_003:IL_4Y4O_234 = 0.6236IL_3Q1Q_003:IL_4LFB_053 = 0.4804IL_3Q1Q_003:IL_3Q1Q_003 = 0IL_3Q1Q_003:IL_5TBW_374 = 0.3323IL_3Q1Q_003:IL_4TS2_002 = 0.3705IL_3Q1Q_003:IL_4IOA_106 = 0.3466IL_3Q1Q_003:IL_4V9F_066 = 0.3729IL_3Q1Q_003:IL_5TBW_084 = 0.3932IL_3Q1Q_003:IL_4V8P_244 = 0.4262IL_3Q1Q_003:IL_4IOA_066 = 0.3993IL_5TBW_374:IL_4V5O_130 = 0.9702IL_5TBW_374:IL_2XXA_006 = 0.8437IL_5TBW_374:IL_4GMA_001 = 0.8022IL_5TBW_374:IL_5TBW_070 = 0.954IL_5TBW_374:IL_4UYK_002 = 0.7127IL_5TBW_374:IL_4Y4O_234 = 0.5753IL_5TBW_374:IL_4LFB_053 = 0.6273IL_5TBW_374:IL_3Q1Q_003 = 0.3323IL_5TBW_374:IL_5TBW_374 = 0IL_5TBW_374:IL_4TS2_002 = 0.3967IL_5TBW_374:IL_4IOA_106 = 0.4554IL_5TBW_374:IL_4V9F_066 = 0.5821IL_5TBW_374:IL_5TBW_084 = 0.5642IL_5TBW_374:IL_4V8P_244 = 0.6052IL_5TBW_374:IL_4IOA_066 = 0.6362IL_4TS2_002:IL_4V5O_130 = 0.9602IL_4TS2_002:IL_2XXA_006 = 0.8506IL_4TS2_002:IL_4GMA_001 = 0.8202IL_4TS2_002:IL_5TBW_070 = 0.9492IL_4TS2_002:IL_4UYK_002 = 0.7348IL_4TS2_002:IL_4Y4O_234 = 0.612IL_4TS2_002:IL_4LFB_053 = 0.6602IL_4TS2_002:IL_3Q1Q_003 = 0.3705IL_4TS2_002:IL_5TBW_374 = 0.3967IL_4TS2_002:IL_4TS2_002 = 0IL_4TS2_002:IL_4IOA_106 = 0.3578IL_4TS2_002:IL_4V9F_066 = 0.4681IL_4TS2_002:IL_5TBW_084 = 0.4795IL_4TS2_002:IL_4V8P_244 = 0.5232IL_4TS2_002:IL_4IOA_066 = 0.5554IL_4IOA_106:IL_4V5O_130 = 0.8803IL_4IOA_106:IL_2XXA_006 = 0.7825IL_4IOA_106:IL_4GMA_001 = 0.6984IL_4IOA_106:IL_5TBW_070 = 0.7785IL_4IOA_106:IL_4UYK_002 = 0.5764IL_4IOA_106:IL_4Y4O_234 = 0.5657IL_4IOA_106:IL_4LFB_053 = 0.5103IL_4IOA_106:IL_3Q1Q_003 = 0.3466IL_4IOA_106:IL_5TBW_374 = 0.4554IL_4IOA_106:IL_4TS2_002 = 0.3578IL_4IOA_106:IL_4IOA_106 = 0IL_4IOA_106:IL_4V9F_066 = 0.3415IL_4IOA_106:IL_5TBW_084 = 0.3544IL_4IOA_106:IL_4V8P_244 = 0.3804IL_4IOA_106:IL_4IOA_066 = 0.4037IL_4V9F_066:IL_4V5O_130 = 0.9964IL_4V9F_066:IL_2XXA_006 = 0.9234IL_4V9F_066:IL_4GMA_001 = 0.8098IL_4V9F_066:IL_5TBW_070 = 0.8877IL_4V9F_066:IL_4UYK_002 = 0.7595IL_4V9F_066:IL_4Y4O_234 = 0.7405IL_4V9F_066:IL_4LFB_053 = 0.5747IL_4V9F_066:IL_3Q1Q_003 = 0.3729IL_4V9F_066:IL_5TBW_374 = 0.5821IL_4V9F_066:IL_4TS2_002 = 0.4681IL_4V9F_066:IL_4IOA_106 = 0.3415IL_4V9F_066:IL_4V9F_066 = 0IL_4V9F_066:IL_5TBW_084 = 0.1318IL_4V9F_066:IL_4V8P_244 = 0.1743IL_4V9F_066:IL_4IOA_066 = 0.1843IL_5TBW_084:IL_4V5O_130 = 0.9976IL_5TBW_084:IL_2XXA_006 = 0.9347IL_5TBW_084:IL_4GMA_001 = 0.8314IL_5TBW_084:IL_5TBW_070 = 0.8897IL_5TBW_084:IL_4UYK_002 = 0.7422IL_5TBW_084:IL_4Y4O_234 = 0.7118IL_5TBW_084:IL_4LFB_053 = 0.5694IL_5TBW_084:IL_3Q1Q_003 = 0.3932IL_5TBW_084:IL_5TBW_374 = 0.5642IL_5TBW_084:IL_4TS2_002 = 0.4795IL_5TBW_084:IL_4IOA_106 = 0.3544IL_5TBW_084:IL_4V9F_066 = 0.1318IL_5TBW_084:IL_5TBW_084 = 0IL_5TBW_084:IL_4V8P_244 = 0.0968IL_5TBW_084:IL_4IOA_066 = 0.2225IL_4V8P_244:IL_4V5O_130 = 0.9722IL_4V8P_244:IL_2XXA_006 = 0.9287IL_4V8P_244:IL_4GMA_001 = 0.8144IL_4V8P_244:IL_5TBW_070 = 0.864IL_4V8P_244:IL_4UYK_002 = 0.7314IL_4V8P_244:IL_4Y4O_234 = 0.7214IL_4V8P_244:IL_4LFB_053 = 0.5557IL_4V8P_244:IL_3Q1Q_003 = 0.4262IL_4V8P_244:IL_5TBW_374 = 0.6052IL_4V8P_244:IL_4TS2_002 = 0.5232IL_4V8P_244:IL_4IOA_106 = 0.3804IL_4V8P_244:IL_4V9F_066 = 0.1743IL_4V8P_244:IL_5TBW_084 = 0.0968IL_4V8P_244:IL_4V8P_244 = 0IL_4V8P_244:IL_4IOA_066 = 0.1949IL_4IOA_066:IL_4V5O_130 = 0.9292IL_4IOA_066:IL_2XXA_006 = 0.8854IL_4IOA_066:IL_4GMA_001 = 0.7529IL_4IOA_066:IL_5TBW_070 = 0.8268IL_4IOA_066:IL_4UYK_002 = 0.7262IL_4IOA_066:IL_4Y4O_234 = 0.7451IL_4IOA_066:IL_4LFB_053 = 0.5183IL_4IOA_066:IL_3Q1Q_003 = 0.3993IL_4IOA_066:IL_5TBW_374 = 0.6362IL_4IOA_066:IL_4TS2_002 = 0.5554IL_4IOA_066:IL_4IOA_106 = 0.4037IL_4IOA_066:IL_4V9F_066 = 0.1843IL_4IOA_066:IL_5TBW_084 = 0.2225IL_4IOA_066:IL_4V8P_244 = 0.1949IL_4IOA_066:IL_4IOA_066 = 0IL_4V5O_130IL_2XXA_006IL_4GMA_001IL_5TBW_070IL_4UYK_002IL_4Y4O_234IL_4LFB_053IL_3Q1Q_003IL_5TBW_374IL_4TS2_002IL_4IOA_106IL_4V9F_066IL_5TBW_084IL_4V8P_244IL_4IOA_066Discrepancy0.000.200.400.600.80
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