RNA 3D Hub //

Motif IL_48779.2 Version IL_48779.2 of this group appears in releases 3.90 to 3.90

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3break 4 51-52-32-43-4
1 IL_5J7L_3935J7L0.40070Major groove platformDA LSU rRNAPSU2457G2458A2459*U2493G2494cWWntSHcWW
2 IL_5J7L_3945J7L0.36370Major groove platformDA LSU rRNAPSU2580G2581G2582*C2507G2508cWWchHcWW
3 IL_4V9F_0834V9F0.15160Major groove platform0 LSU rRNAU2492C2493G2494*U2528G2529cWWcHHcWW
4 IL_5TBW_1045TBW0.14890Major groove platform1 LSU rRNAU2826U2827G2828*U2862G2863cWWcWW
5 IL_8C3A_1128C3A0.16300Major groove platform1 LSU rRNAU2798U2799G2800*U2834G2835cWWcWW
6 IL_7A0S_0887A0S0.10540Major groove platformX LSU rRNAU2559G2560G2561*C2486G2487cWWchHcWW
7 IL_8VTW_0958VTW0.00000Major groove platform1A LSU rRNAU2580G2581G2582*C2507G2508cWWchHcWW
8 IL_4WF9_0944WF90.09780Major groove platformX LSU rRNAU2607G2608G2609*C2534G2535cWWchHcWW
9 IL_5TBW_1075TBW0.11570Major groove platform1 LSU rRNAU2949G2950G2951*C2876G2877cWWcWW
10 IL_4V9F_0864V9F0.10860Major groove platform0 LSU rRNAU2615G2616G2617*C2542G2543cWWnchHcWW
11 IL_8C3A_1158C3A0.14360Major groove platform1 LSU rRNAU2921G2922G2923*C2848G2849cWWcWW
12 IL_5XTM_0045XTM0.46340Major groove intercalationDRNA (47-MER)U3A4U5*A44G45cWWcWW
13 IL_5DCV_0055DCV0.54870Major groove intercalationDRNA (47-MER)U3A4U5*A48G49cWWcWW
14 IL_1U6B_0101U6B0.58300Major groove intercalationB197-MERU160A161U162*A150G151cWWcWW
15 IL_5VCI_0045VCI0.57210Major groove intercalationB+ARNA (12-mer)U2A3U4*A11G12cWWcWW
16 IL_4PCJ_0044PCJ0.60470Major groove intercalationAtrCUG-3('5)U25A26U27*A11G12cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
UGG*CG6
UAU*AG5
UUG*UG2
(PSU)GA*UG1
(PSU)GG*CG1
UCG*UG1
Non-Watson-Crick part of the motif
SequenceCounts
G*8
A*5
U*2
C*1

Release history

Release3.90
Date2024-11-06
StatusUpdated, 1 parent

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.
Annotations
  • Major groove platform (11)
  • Major groove intercalation (5)
    • Basepair signature
    cWW-L-cWW
    Heat map statistics
    Min 0.06 | Avg 0.35 | Max 0.67
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    Coloring options:

    IL_5J7L_393:IL_5J7L_393 = 0IL_5J7L_393:IL_5J7L_394 = 0.2901IL_5J7L_393:IL_4V9F_083 = 0.4049IL_5J7L_393:IL_5TBW_104 = 0.3742IL_5J7L_393:IL_8C3A_112 = 0.3736IL_5J7L_393:IL_7A0S_088 = 0.38IL_5J7L_393:IL_8VTW_095 = 0.4007IL_5J7L_393:IL_4WF9_094 = 0.427IL_5J7L_393:IL_5TBW_107 = 0.4133IL_5J7L_393:IL_4V9F_086 = 0.435IL_5J7L_393:IL_8C3A_115 = 0.4608IL_5J7L_393:IL_5XTM_004 = 0.5789IL_5J7L_393:IL_5DCV_005 = 0.6483IL_5J7L_393:IL_1U6B_010 = 0.6711IL_5J7L_393:IL_5VCI_004 = 0.6019IL_5J7L_393:IL_4PCJ_004 = 0.6305IL_5J7L_394:IL_5J7L_393 = 0.2901IL_5J7L_394:IL_5J7L_394 = 0IL_5J7L_394:IL_4V9F_083 = 0.3476IL_5J7L_394:IL_5TBW_104 = 0.3889IL_5J7L_394:IL_8C3A_112 = 0.4144IL_5J7L_394:IL_7A0S_088 = 0.3832IL_5J7L_394:IL_8VTW_095 = 0.3637IL_5J7L_394:IL_4WF9_094 = 0.3717IL_5J7L_394:IL_5TBW_107 = 0.3811IL_5J7L_394:IL_4V9F_086 = 0.3559IL_5J7L_394:IL_8C3A_115 = 0.4116IL_5J7L_394:IL_5XTM_004 = 0.4603IL_5J7L_394:IL_5DCV_005 = 0.5074IL_5J7L_394:IL_1U6B_010 = 0.5022IL_5J7L_394:IL_5VCI_004 = 0.4457IL_5J7L_394:IL_4PCJ_004 = 0.4744IL_4V9F_083:IL_5J7L_393 = 0.4049IL_4V9F_083:IL_5J7L_394 = 0.3476IL_4V9F_083:IL_4V9F_083 = 0IL_4V9F_083:IL_5TBW_104 = 0.1261IL_4V9F_083:IL_8C3A_112 = 0.1837IL_4V9F_083:IL_7A0S_088 = 0.1809IL_4V9F_083:IL_8VTW_095 = 0.1516IL_4V9F_083:IL_4WF9_094 = 0.2092IL_4V9F_083:IL_5TBW_107 = 0.2096IL_4V9F_083:IL_4V9F_086 = 0.1982IL_4V9F_083:IL_8C3A_115 = 0.2219IL_4V9F_083:IL_5XTM_004 = 0.4263IL_4V9F_083:IL_5DCV_005 = 0.5253IL_4V9F_083:IL_1U6B_010 = 0.5613IL_4V9F_083:IL_5VCI_004 = 0.5325IL_4V9F_083:IL_4PCJ_004 = 0.5662IL_5TBW_104:IL_5J7L_393 = 0.3742IL_5TBW_104:IL_5J7L_394 = 0.3889IL_5TBW_104:IL_4V9F_083 = 0.1261IL_5TBW_104:IL_5TBW_104 = 0IL_5TBW_104:IL_8C3A_112 = 0.1186IL_5TBW_104:IL_7A0S_088 = 0.1566IL_5TBW_104:IL_8VTW_095 = 0.1489IL_5TBW_104:IL_4WF9_094 = 0.2104IL_5TBW_104:IL_5TBW_107 = 0.2045IL_5TBW_104:IL_4V9F_086 = 0.2233IL_5TBW_104:IL_8C3A_115 = 0.2282IL_5TBW_104:IL_5XTM_004 = 0.4538IL_5TBW_104:IL_5DCV_005 = 0.5519IL_5TBW_104:IL_1U6B_010 = 0.5974IL_5TBW_104:IL_5VCI_004 = 0.5697IL_5TBW_104:IL_4PCJ_004 = 0.601IL_8C3A_112:IL_5J7L_393 = 0.3736IL_8C3A_112:IL_5J7L_394 = 0.4144IL_8C3A_112:IL_4V9F_083 = 0.1837IL_8C3A_112:IL_5TBW_104 = 0.1186IL_8C3A_112:IL_8C3A_112 = 0IL_8C3A_112:IL_7A0S_088 = 0.1157IL_8C3A_112:IL_8VTW_095 = 0.163IL_8C3A_112:IL_4WF9_094 = 0.2124IL_8C3A_112:IL_5TBW_107 = 0.2168IL_8C3A_112:IL_4V9F_086 = 0.2436IL_8C3A_112:IL_8C3A_115 = 0.2573IL_8C3A_112:IL_5XTM_004 = 0.5035IL_8C3A_112:IL_5DCV_005 = 0.6077IL_8C3A_112:IL_1U6B_010 = 0.6566IL_8C3A_112:IL_5VCI_004 = 0.636IL_8C3A_112:IL_4PCJ_004 = 0.6674IL_7A0S_088:IL_5J7L_393 = 0.38IL_7A0S_088:IL_5J7L_394 = 0.3832IL_7A0S_088:IL_4V9F_083 = 0.1809IL_7A0S_088:IL_5TBW_104 = 0.1566IL_7A0S_088:IL_8C3A_112 = 0.1157IL_7A0S_088:IL_7A0S_088 = 0IL_7A0S_088:IL_8VTW_095 = 0.1054IL_7A0S_088:IL_4WF9_094 = 0.1566IL_7A0S_088:IL_5TBW_107 = 0.1543IL_7A0S_088:IL_4V9F_086 = 0.1659IL_7A0S_088:IL_8C3A_115 = 0.1833IL_7A0S_088:IL_5XTM_004 = 0.4833IL_7A0S_088:IL_5DCV_005 = 0.5685IL_7A0S_088:IL_1U6B_010 = 0.6116IL_7A0S_088:IL_5VCI_004 = 0.6032IL_7A0S_088:IL_4PCJ_004 = 0.6359IL_8VTW_095:IL_5J7L_393 = 0.4007IL_8VTW_095:IL_5J7L_394 = 0.3637IL_8VTW_095:IL_4V9F_083 = 0.1516IL_8VTW_095:IL_5TBW_104 = 0.1489IL_8VTW_095:IL_8C3A_112 = 0.163IL_8VTW_095:IL_7A0S_088 = 0.1054IL_8VTW_095:IL_8VTW_095 = 0IL_8VTW_095:IL_4WF9_094 = 0.0978IL_8VTW_095:IL_5TBW_107 = 0.1157IL_8VTW_095:IL_4V9F_086 = 0.1086IL_8VTW_095:IL_8C3A_115 = 0.1436IL_8VTW_095:IL_5XTM_004 = 0.4634IL_8VTW_095:IL_5DCV_005 = 0.5487IL_8VTW_095:IL_1U6B_010 = 0.583IL_8VTW_095:IL_5VCI_004 = 0.5721IL_8VTW_095:IL_4PCJ_004 = 0.6047IL_4WF9_094:IL_5J7L_393 = 0.427IL_4WF9_094:IL_5J7L_394 = 0.3717IL_4WF9_094:IL_4V9F_083 = 0.2092IL_4WF9_094:IL_5TBW_104 = 0.2104IL_4WF9_094:IL_8C3A_112 = 0.2124IL_4WF9_094:IL_7A0S_088 = 0.1566IL_4WF9_094:IL_8VTW_095 = 0.0978IL_4WF9_094:IL_4WF9_094 = 0IL_4WF9_094:IL_5TBW_107 = 0.092IL_4WF9_094:IL_4V9F_086 = 0.0971IL_4WF9_094:IL_8C3A_115 = 0.1421IL_4WF9_094:IL_5XTM_004 = 0.4524IL_4WF9_094:IL_5DCV_005 = 0.5318IL_4WF9_094:IL_1U6B_010 = 0.5576IL_4WF9_094:IL_5VCI_004 = 0.5613IL_4WF9_094:IL_4PCJ_004 = 0.594IL_5TBW_107:IL_5J7L_393 = 0.4133IL_5TBW_107:IL_5J7L_394 = 0.3811IL_5TBW_107:IL_4V9F_083 = 0.2096IL_5TBW_107:IL_5TBW_104 = 0.2045IL_5TBW_107:IL_8C3A_112 = 0.2168IL_5TBW_107:IL_7A0S_088 = 0.1543IL_5TBW_107:IL_8VTW_095 = 0.1157IL_5TBW_107:IL_4WF9_094 = 0.092IL_5TBW_107:IL_5TBW_107 = 0IL_5TBW_107:IL_4V9F_086 = 0.1015IL_5TBW_107:IL_8C3A_115 = 0.112IL_5TBW_107:IL_5XTM_004 = 0.4357IL_5TBW_107:IL_5DCV_005 = 0.5169IL_5TBW_107:IL_1U6B_010 = 0.5455IL_5TBW_107:IL_5VCI_004 = 0.5474IL_5TBW_107:IL_4PCJ_004 = 0.5807IL_4V9F_086:IL_5J7L_393 = 0.435IL_4V9F_086:IL_5J7L_394 = 0.3559IL_4V9F_086:IL_4V9F_083 = 0.1982IL_4V9F_086:IL_5TBW_104 = 0.2233IL_4V9F_086:IL_8C3A_112 = 0.2436IL_4V9F_086:IL_7A0S_088 = 0.1659IL_4V9F_086:IL_8VTW_095 = 0.1086IL_4V9F_086:IL_4WF9_094 = 0.0971IL_4V9F_086:IL_5TBW_107 = 0.1015IL_4V9F_086:IL_4V9F_086 = 0IL_4V9F_086:IL_8C3A_115 = 0.1063IL_4V9F_086:IL_5XTM_004 = 0.4414IL_4V9F_086:IL_5DCV_005 = 0.5076IL_4V9F_086:IL_1U6B_010 = 0.5314IL_4V9F_086:IL_5VCI_004 = 0.5369IL_4V9F_086:IL_4PCJ_004 = 0.5706IL_8C3A_115:IL_5J7L_393 = 0.4608IL_8C3A_115:IL_5J7L_394 = 0.4116IL_8C3A_115:IL_4V9F_083 = 0.2219IL_8C3A_115:IL_5TBW_104 = 0.2282IL_8C3A_115:IL_8C3A_112 = 0.2573IL_8C3A_115:IL_7A0S_088 = 0.1833IL_8C3A_115:IL_8VTW_095 = 0.1436IL_8C3A_115:IL_4WF9_094 = 0.1421IL_8C3A_115:IL_5TBW_107 = 0.112IL_8C3A_115:IL_4V9F_086 = 0.1063IL_8C3A_115:IL_8C3A_115 = 0IL_8C3A_115:IL_5XTM_004 = 0.4539IL_8C3A_115:IL_5DCV_005 = 0.5168IL_8C3A_115:IL_1U6B_010 = 0.5393IL_8C3A_115:IL_5VCI_004 = 0.5529IL_8C3A_115:IL_4PCJ_004 = 0.5856IL_5XTM_004:IL_5J7L_393 = 0.5789IL_5XTM_004:IL_5J7L_394 = 0.4603IL_5XTM_004:IL_4V9F_083 = 0.4263IL_5XTM_004:IL_5TBW_104 = 0.4538IL_5XTM_004:IL_8C3A_112 = 0.5035IL_5XTM_004:IL_7A0S_088 = 0.4833IL_5XTM_004:IL_8VTW_095 = 0.4634IL_5XTM_004:IL_4WF9_094 = 0.4524IL_5XTM_004:IL_5TBW_107 = 0.4357IL_5XTM_004:IL_4V9F_086 = 0.4414IL_5XTM_004:IL_8C3A_115 = 0.4539IL_5XTM_004:IL_5XTM_004 = 0IL_5XTM_004:IL_5DCV_005 = 0.1758IL_5XTM_004:IL_1U6B_010 = 0.2409IL_5XTM_004:IL_5VCI_004 = 0.2313IL_5XTM_004:IL_4PCJ_004 = 0.254IL_5DCV_005:IL_5J7L_393 = 0.6483IL_5DCV_005:IL_5J7L_394 = 0.5074IL_5DCV_005:IL_4V9F_083 = 0.5253IL_5DCV_005:IL_5TBW_104 = 0.5519IL_5DCV_005:IL_8C3A_112 = 0.6077IL_5DCV_005:IL_7A0S_088 = 0.5685IL_5DCV_005:IL_8VTW_095 = 0.5487IL_5DCV_005:IL_4WF9_094 = 0.5318IL_5DCV_005:IL_5TBW_107 = 0.5169IL_5DCV_005:IL_4V9F_086 = 0.5076IL_5DCV_005:IL_8C3A_115 = 0.5168IL_5DCV_005:IL_5XTM_004 = 0.1758IL_5DCV_005:IL_5DCV_005 = 0IL_5DCV_005:IL_1U6B_010 = 0.1299IL_5DCV_005:IL_5VCI_004 = 0.1917IL_5DCV_005:IL_4PCJ_004 = 0.2123IL_1U6B_010:IL_5J7L_393 = 0.6711IL_1U6B_010:IL_5J7L_394 = 0.5022IL_1U6B_010:IL_4V9F_083 = 0.5613IL_1U6B_010:IL_5TBW_104 = 0.5974IL_1U6B_010:IL_8C3A_112 = 0.6566IL_1U6B_010:IL_7A0S_088 = 0.6116IL_1U6B_010:IL_8VTW_095 = 0.583IL_1U6B_010:IL_4WF9_094 = 0.5576IL_1U6B_010:IL_5TBW_107 = 0.5455IL_1U6B_010:IL_4V9F_086 = 0.5314IL_1U6B_010:IL_8C3A_115 = 0.5393IL_1U6B_010:IL_5XTM_004 = 0.2409IL_1U6B_010:IL_5DCV_005 = 0.1299IL_1U6B_010:IL_1U6B_010 = 0IL_1U6B_010:IL_5VCI_004 = 0.1684IL_1U6B_010:IL_4PCJ_004 = 0.1855IL_5VCI_004:IL_5J7L_393 = 0.6019IL_5VCI_004:IL_5J7L_394 = 0.4457IL_5VCI_004:IL_4V9F_083 = 0.5325IL_5VCI_004:IL_5TBW_104 = 0.5697IL_5VCI_004:IL_8C3A_112 = 0.636IL_5VCI_004:IL_7A0S_088 = 0.6032IL_5VCI_004:IL_8VTW_095 = 0.5721IL_5VCI_004:IL_4WF9_094 = 0.5613IL_5VCI_004:IL_5TBW_107 = 0.5474IL_5VCI_004:IL_4V9F_086 = 0.5369IL_5VCI_004:IL_8C3A_115 = 0.5529IL_5VCI_004:IL_5XTM_004 = 0.2313IL_5VCI_004:IL_5DCV_005 = 0.1917IL_5VCI_004:IL_1U6B_010 = 0.1684IL_5VCI_004:IL_5VCI_004 = 0IL_5VCI_004:IL_4PCJ_004 = 0.0603IL_4PCJ_004:IL_5J7L_393 = 0.6305IL_4PCJ_004:IL_5J7L_394 = 0.4744IL_4PCJ_004:IL_4V9F_083 = 0.5662IL_4PCJ_004:IL_5TBW_104 = 0.601IL_4PCJ_004:IL_8C3A_112 = 0.6674IL_4PCJ_004:IL_7A0S_088 = 0.6359IL_4PCJ_004:IL_8VTW_095 = 0.6047IL_4PCJ_004:IL_4WF9_094 = 0.594IL_4PCJ_004:IL_5TBW_107 = 0.5807IL_4PCJ_004:IL_4V9F_086 = 0.5706IL_4PCJ_004:IL_8C3A_115 = 0.5856IL_4PCJ_004:IL_5XTM_004 = 0.254IL_4PCJ_004:IL_5DCV_005 = 0.2123IL_4PCJ_004:IL_1U6B_010 = 0.1855IL_4PCJ_004:IL_5VCI_004 = 0.0603IL_4PCJ_004:IL_4PCJ_004 = 0IL_5J7L_393IL_5J7L_394IL_4V9F_083IL_5TBW_104IL_8C3A_112IL_7A0S_088IL_8VTW_095IL_4WF9_094IL_5TBW_107IL_4V9F_086IL_8C3A_115IL_5XTM_004IL_5DCV_005IL_1U6B_010IL_5VCI_004IL_4PCJ_004Discrepancy0.000.100.200.300.400.500.60
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