RNA 3D Hub //

Motif IL_11363.2 Version IL_11363.2 of this group appears in releases 0.4 to 0.4

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3break 4 51-53-4
1 IL_3MOJ_0043MOJ1.20940Single stack bendA LSU rRNAC2540A2541A2542*U2522G2523cWWcWW
2 IL_3G78_0123G781.18540AGroup II catalytic intron D1-D4-1C296A297U298*G320G321cWWcWW
3 IL_3F1H_0883F1H1.14150A23S RRNAC2498C2499U2500*A2453G2454cWWcWW
4 IL_2ZJR_0842ZJR1.10070X LSU rRNAC2477C2478U2479*A2432G2433cWWcWW
5 IL_3F1H_0233F1H1.14000A23S RRNAG940A941G942*C837C838cWWcWW
6 IL_2ZJR_0212ZJR1.00810Single stack bend (H)X LSU rRNAG951A952G953*C850C851cWWcWW
7 IL_2QWY_0022QWY0.97530ASAM-II riboswitchC43U44A45*U21G22cWWcWW
8 IL_2O3X_0022O3X0.95542Decoding loop relatedA+BRNA (23-mer)C7A8C9*G39G42cWWcWW
9 IL_2ZJR_0442ZJR1.01701Intercalated cWW (H)X LSU rRNAG1241A1242G1243*U1232C1234cWWcWW
10 IL_2O3X_0012O3X0.94801Stack and bulgeB+ARNA (23-mer)G42U43C44*G5C7cWWcWW
11 IL_1ZX7_0071ZX70.94382H+GRNA (14-mer)C26A27C28*G7G10cWWcWW
12 IL_2QWY_0082QWY0.99240Single stack bendCSAM-II riboswitchC43U44A45*U21G22cWWcWW
13 IL_1O9M_0011O9M0.86371B+AEUBACTERIAL A-SITEG1494U1495C1496*G1405C1407cWWcWW
14 IL_1FJG_0571FJG0.81862A SSU rRNAC1407A1408C1409*G1491G1494cWWcWW
15 IL_1ZX7_0031ZX70.94002Decoding loop relatedD+CRNA (14-mer)C26A27C28*G7G10cWWcWW
16 IL_1MWL_0031MWL0.85452B+ARNA (22-mer)C28A29C30*G15G18||AcWWcWW
17 IL_1O9M_0021O9M0.87802A+BEUBACTERIAL A-SITEC1407A1408C1409*G1491G1494cWWcWW
18 IL_1FJG_0461FJG0.80780A SSU rRNAG1143G1144C1145*G1127C1128cWWncWW
19 IL_1ZX7_0051ZX70.94072Decoding loop relatedF+ERNA (14-mer)C26A27C28*G7G10cWWcWW
20 IL_1MWL_0021MWL0.84342A+BRNA (22-mer)C6A7C8*G37G40cWWcWW
21 IL_1S72_0791S720.90040Single stack bend (H)0 LSU rRNAU2436A2437G2438*C2454A2455cWWcWW
22 IL_1T0E_0011T0E0.91502Decoding loop relatedC+ARNA (17-mer)C16A17C18*G7G10||AcWWcWW
23 IL_2ZJR_0552ZJR1.02850Single stack bend (H)X LSU rRNAA1463A1464G1465*C1477U1478cWWcWW
24 IL_3F1H_0053F1H1.12430A23S RRNAG212A213G214*C183C184cWWcWW
25 IL_1S72_0051S720.90030Single stack bend (H)0 LSU rRNAG182A183G184*C153C154cWWcWW
26 IL_1ZX7_0011ZX70.92662B+ARNA (14-mer)C26A27C28*G7G10cWWcWW
27 IL_2ZJR_0052ZJR0.99340Single stack bend (H)X LSU rRNAA189A190G191*C160U161cWWcWW
28 IL_2O3X_0032O3X0.96052Decoding loop relatedB+ARNA (23-mer)C30A31C32*G16G19cWWcWW
29 IL_2QWY_0052QWY0.98320BSAM-II riboswitchC43U44A45*U21G22cWWcWW
30 IL_1FJG_0121FJG0.00001A SSU rRNAU249A250U252*A274G275cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
CAC*GAAG9
GAG*CC4
CUA*UG3
CCU*AG2
GUC*GUC2
GAAG*CAC2
AAG*CU2
CAA*UG1
CAU*GG1
GAG*UAC1
GGC*GC1
UAG*CA1
UAGU*AG1
Non-Watson-Crick part of the motif
SequenceCounts
A*9
A*AA9
U*3
C*2
U*U2
AA*A2
A*A1
G*1
AG*1

Release history

Release0.4
Date2011-12-08
StatusUpdated, 2 parents

Parent motifs

Parent motifCommon motif instancesOnly in IL_11363.2Only in the parent motif
IL_11363.1
Compare		IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_001, IL_3G78_012, IL_3MOJ_004, IL_1S72_079, IL_1ZX7_003, IL_1T0E_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005IL_1FJG_012IL_2ZJR_101, IL_2QEK_002
IL_20796.2
Compare		IL_1FJG_012IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_001, IL_3G78_012, IL_3MOJ_004, IL_1S72_079, IL_1ZX7_003, IL_1T0E_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005IL_1FJG_050, IL_1XJR_004

Children motifs

Child motifCommon motif instancesOnly in IL_11363.2Only in the child motif
IL_78918.1
Compare		IL_2ZJR_055, IL_2QWY_008, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_003, IL_3MOJ_004, IL_1ZX7_001, IL_1S72_079, IL_1T0E_001, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003IL_3F1H_023, IL_3F1H_005, IL_3F1H_088, IL_3G78_012, IL_1FJG_012, IL_2QWY_005, IL_1FJG_057IL_3O58_049, IL_2QBG_084, IL_3O58_081, IL_1DUH_005, IL_3O58_149, IL_3O58_107, IL_3O58_023, IL_3O58_004, IL_3O58_025, IL_3O58_147, IL_2QBG_027, IL_1DUH_001, IL_2QBG_029, IL_2XXA_006, IL_2QBG_090, IL_3O58_058, IL_3PYO_079, IL_3O30_016, IL_2AW7_047, IL_3O58_010, IL_3O58_153, IL_2QBG_010, IL_3O58_156, IL_3O58_036, IL_2AW7_024, IL_3PYO_005, IL_2XXA_013, IL_3PYO_023
IL_87608.1
Compare		IL_2QWY_005, IL_1FJG_012IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_003, IL_3G78_012, IL_3MOJ_004, IL_1ZX7_001, IL_1S72_079, IL_1T0E_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005IL_3O58_135, IL_2ZJR_023, IL_3O58_124, IL_3O30_018
IL_01239.1
Compare		IL_1FJG_057IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1T0E_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_003, IL_3G78_012, IL_3MOJ_004, IL_1FJG_012, IL_1S72_079, IL_1ZX7_001, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005IL_2ZJR_101, IL_2PXV_001, IL_2AW7_068, IL_1LNG_001
IL_68486.1
Compare		IL_3G78_012IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1T0E_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_003, IL_3MOJ_004, IL_1FJG_012, IL_1S72_079, IL_1ZX7_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005IL_1S72_017
Annotations
  • (16)
  • Single stack bend (H) (5)
  • Decoding loop related (5)
  • Single stack bend (2)
  • Stack and bulge (1)
  • Intercalated cWW (H) (1)
    • Basepair signature
    Heat map statistics
    Min 0.09 | Avg 0.58 | Max 1.21
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