#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3 4 5break 6 7 8 9 101-102-32-82-93-84-75-6
1 IL_2QWY_0012QWY0.54540ASAM-II riboswitchA46A47A48A49G50*C16G17U18A19U20cWWtSHtHScWW
2 IL_4BPP_0284BPP0.53250A18S RRNAU525U526A527G528C529*G509A510A511C512A513cWWcWWntSHtHScWW
3 IL_3U5H_1123U5H0.46860525S rRNAC2849G2850A2851C2852A2853*U2835C2836A2837A2838G2839cWWtSHntHScWW
4 IL_2QBG_0942QBG0.39450B23S rRNAC2480G2481A2482C2483G2484*C2466C2467A2468A2469G2470cWWtSHntHSncBWcWW
5 IL_4A1B_1104A1B0.38500126S RRNAC2837G2838A2839C2840G2841*C2823C2824A2825A2826G2827cWWtSHtHSncBWcWW
6 IL_4IOA_0894IOA0.40620Triple shearedX LSU rRNAC2459G2460G2461C2462G2463*C2445C2446G2447A2448G2449cWWtSHntHSncBWcWW
7 IL_4NVV_0914NVV0.41260A23S Ribosomal RNAC2492G2493G2494C2495G2496*C2478C2479G2480A2481G2482cWWtSHncBWcWW
8 IL_1U6B_0021U6B0.38250Triple shearedB197-MERG56A57A58A59C60*G84C85A86A87C88cWWtSHtHSncWWcWW
9 IL_1VW3_0831VW30.22390A21S ribosomal RNAC2902A2903A2904A2905U2906*A3112U3113A3114A3115G3116cWWtSHtHSntHScWW
10 IL_1S72_0831S720.33470Triple sheared (H)0 LSU rRNAC2515G2516A2517C2518C2519*G2501C2502A2503A2504G2505cWWtSHntHScBWcWW
11 IL_2AW7_0582AW70.43980A16S ribosomal RNAC1259G1260A1261C1262C1263*G1272C1273A1274A1275G1276cWWtSHtHSncBWcWW
12 IL_3U5F_0913U5F0.37380618S rRNAA1719G1720A1721A1722U1723*A1678G1679G1680A1681U1682cWWtHStHScWW
13 IL_3U5H_0323U5H0.39660525S rRNAU834G835A836A837G838*U855G856G857A858G859cWWtSHtHStHScWW
14 IL_1S72_0281S720.368800 LSU rRNAU794G795A796A797G798*U815G816G817A818A819cWWtSHtHStHScWW
15 IL_4NVV_0234NVV0.37440A23S Ribosomal RNAU750G751A752A753G754*U771G772G773A774G775cWWtSHtHStHScWW
16 IL_2QBG_0242QBG0.36910B23S rRNAU703G704A705A706G707*U724G725G726A727G728cWWtSHtHStHScWW
17 IL_2QBG_0682QBG0.31020B23S rRNAU1720G1721A1722G1723G1724*U1736G1737G1738A1739G1740cWWtSHtHSntHScWW
18 IL_4BPP_0904BPP0.24910A18S RRNAG1672A1673A1674A1675A1676*U1649G1650G1651A1652C1653cWWtSHtHStHScWW
19 IL_2A64_0052A640.26630Triple shearedAribonuclease P RNAC284G285A286A287G288*C297G298G299A300G301cWWtSHntHStHScWW
20 IL_3DHS_0043DHS0.28110Triple shearedARNase P RNAC284G285A286A287G288*C297G298G299A300G301cWWncSHtHScWW
21 IL_2A64_0062A640.22240Triple shearedAribonuclease P RNAC378G379A380A381G382*C347G348G349A350G351cWWtHStHScWW
22 IL_4IOA_0704IOA0.17400Triple shearedX LSU rRNAC1865G1866A1867A1868A1869*U1848G1849G1850A1851G1852cWWntSHtHStHScWW
23 IL_4NVV_0754NVV0.00000A23S Ribosomal RNAC1904G1905A1906A1907C1908*G1887G1888G1889A1890G1891cWWtSHtHStHScWW
24 IL_3U5H_0753U5H0.21860525S rRNAU1645G1646A1647A1648U1649*A1806G1807G1808A1809A1810cWWtSHtHStHScWW
25 IL_3IWN_0023IWN0.28170Triple shearedAC-di-GMP riboswitchC12A13A14A15C16*G31G32A33C34G35cWWntSHtHScWW
26 IL_4FAW_0024FAW0.24200AGroup II catalytic intron D1-D4-1C70U71A72A73C74*G113G114A115C116G117cWWtSHtHScWW
27 IL_4A1B_1254A1B0.30090126S RRNAU3217U3218A3219A3220C3221*G3189A3190G3191C3192G3193cWWntSHantHStHScWW
28 IL_3UCZ_0013UCZ0.36530RRNA (92-MER)C22A23A24A25C26*G41G42A43C44G45cWWntSHtHScWW
29 IL_1S72_0211S720.52780AAA cross-strand stack (H)0 LSU rRNAC663U664A665A666C667*G679G680G681A682G683cWWntWHtHScWW
30 IL_2QBG_0192QBG0.52390B23S rRNAU606U607A608A609C610*G618G619G620A621G622cWWntWHtHScWW
31 IL_4NVV_0174NVV0.53810A23S Ribosomal RNAU629U630A631A632G633*C643G644G645A646G647cWWntWHtHScWW
32 IL_4IOA_0124IOA0.65220AAA cross-strand stackX LSU rRNAU616U617A618A619G620*C629G630G631A632G633cWWtHScWW

3D structures

Complete motif including flanking bases
SequenceCounts
UGAAG*UGGAG3
CGAAG*CGGAG3
CGACG*CCAAG2
CGACC*GCAAG2
CAAAC*GGACG2
UUAAG*CGGAG2
AAAAG*CGUAU1
UUAGC*GAACA1
CGACA*UCAAG1
CGGCG*CCGAG1
CCGAG*CGGCG1
GAAAC*GCAAC1
CAAAU*AUAAG1
AGAAU*AGGAU1
UGAAG*UGGAA1
UGAGG*UGGAG1
GAAAA*UGGAC1
CGAAA*UGGAG1
GGGAG*CGAAC1
UGAAU*AGGAA1
CUAAC*GGACG1
UUAAC*GAGCG1
CUAAC*GGGAG1
UUAAC*GGGAG1
Non-Watson-Crick part of the motif
SequenceCounts
GAA*GGA10
GAC*CAA5
UAA*GGA4
AAA*GAC2
AAA*GUA1
UAG*AAC1
GGC*CGA1
CGA*GGC1
AAA*CAA1
AAA*UAA1
GAG*GGA1
AAA*GGA1
GGA*GAA1
UAA*GAC1
UAA*AGC1

Release history

Release1.14
Date2014-04-27
StatusUpdated, 1 parent

Parent motifs

Children motifs

Child motifCommon motif instancesOnly in IL_87904.6Only in the child motif
IL_87904.7
Compare
IL_2AW7_058, IL_4NVV_091, IL_1S72_083, IL_4A1B_110, IL_4IOA_070, IL_2QWY_001, IL_2QBG_068, IL_1S72_028, IL_2QBG_019, IL_1S72_021, IL_4NVV_023, IL_1VW3_083, IL_3IWN_002, IL_2A64_005, IL_2A64_006, IL_4BPP_090, IL_2QBG_024, IL_1U6B_002, IL_2QBG_094, IL_3U5F_091, IL_4IOA_089, IL_4FAW_002, IL_3U5H_112, IL_3U5H_032, IL_3UCZ_001, IL_4A1B_125, IL_3U5H_075, IL_4IOA_012, IL_4NVV_075, IL_4NVV_017, IL_3DHS_004IL_4BPP_028IL_4CUV_035, IL_4CUV_073, IL_4CUV_116, IL_4CUX_077
IL_49445.1
Compare
IL_4BPP_028IL_2AW7_058, IL_4NVV_091, IL_1S72_083, IL_4A1B_110, IL_4IOA_070, IL_2QWY_001, IL_2QBG_068, IL_1S72_028, IL_2QBG_019, IL_1S72_021, IL_4NVV_023, IL_1VW3_083, IL_3IWN_002, IL_2A64_005, IL_2A64_006, IL_4BPP_090, IL_2QBG_024, IL_1U6B_002, IL_2QBG_094, IL_3U5F_091, IL_4IOA_089, IL_4FAW_002, IL_3U5H_112, IL_3U5H_032, IL_3UCZ_001, IL_4A1B_125, IL_3U5H_075, IL_4IOA_012, IL_4NVV_075, IL_4NVV_017, IL_3DHS_004IL_4CUV_046
Annotations
  • (22)
  • Triple sheared (7)
  • AAA cross-strand stack (H) (1)
  • Triple sheared (H) (1)
  • AAA cross-strand stack (1)
  • Basepair signature
    cWW-tSH-tHS-tHS-cWW
    Heat map statistics
    Min 0.09 | Avg 0.45 | Max 0.84
    Help

    Coloring options:

    Copyright 2025 BGSU RNA group. Page generated in 3.6201 s