RNA 3D Hub //

Motif IL_97217.10 Version IL_97217.10 of this group appears in releases 1.10 to 1.12

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2break 3 41-42-32-4
1 IL_1FJG_0361FJG0.25861Single bulged G (H)A SSU rRNAU1390U1391*G925G927cWWcWW
2 IL_2AW7_0432AW70.26381A16S ribosomal RNAU1390U1391*G925G927cWWcWW
3 IL_4A1B_0564A1B0.23541126S RRNAU1351U1352*A1207G1209cWWcWW
4 IL_4BPP_0314BPP0.19661A18S RRNAA579G580*C552U554cWWcWW
5 IL_3U5H_1433U5H0.2093175S rRNAC15U16*A63G65cWWcWW
6 IL_3D2V_0013D2V0.15701Single bulged UATPP riboswitch (THI element)C5C6*G73G75cWWcWW
7 IL_1R3E_0021R3E0.16313Multiple bulged basesD+ERNA (17-mer)C415C416*G408G412cWWcWW
8 IL_3WBM_0013WBM0.18231Single bulged UY+XRNA (25-MER)U23C24*G2A4cWWcWW
9 IL_2AW7_0012AW70.00001A16S ribosomal RNAU552A553*U30A32cWWcWW
10 IL_1DQH_0011DQH0.07941Single bulged CA+BRNA (9-mer) + RNA (10-mer)C3A4*U15G17cWWcWW
11 IL_1S03_0061S030.11221Single bulged CB47-MERC39C40*G9G11cWWcWW
12 IL_1I9X_0021I9X0.13111Single bulged AA+BRNA (13-mer)U9A10*U4A6cWWcWW
13 IL_3SN2_0013SN20.15551Single bulged CBtransferrin receptor iron regulatory element B RNAC24A25*U7G9cWWcWW
14 IL_2PLY_0022PLY0.16511ERNA (23-mer)C21G22*C25G27cWWcWW
15 IL_1R3E_0011R3E0.19153Multiple bulged basesE+DRNA (17-mer)C415C416*G408G412cWWcWW
16 IL_3TZR_0023TZR0.24071Single bulged UA+BRNA (20-mer) + RNA (16-mer)U61C62*G105G107cWWcWW
17 IL_4ANG_0014ANG0.28381RRNA (20-mer)C15||A||P_1U16||A||P_1*A5||A||P_1G7||A||P_1cWWcWW
18 IL_4A1B_0314A1B0.25111126S RRNAC776C777*G804G806cWWcWW
19 IL_3U5H_0253U5H0.23741525S rRNAC752C753*G779G781cWWcWW
20 IL_4A1C_0034A1C0.2497135S RRNAU15A16*U62A64cWWcWW
21 IL_6MSF_0016MSF0.27271Single bulged ARRNA (14-mer)G12||||P_1G13||||P_1*C2||||P_1C4||||P_1cWWcWW
22 IL_4A1B_0104A1B0.28982126S RRNAC177U178*A240G243cWWcWW
23 IL_1S72_0741S720.26771Single bulged U (H)0 LSU rRNAC2477U2478*A2108G2110cWWcWW
24 IL_2QBG_0802QBG0.27841B23S rRNAC2442C2443*G2067G2069cWWcWW
25 IL_3V2F_0773V2F0.25361A23S Ribosomal RNAC2442C2443*G2067G2069cWWcWW
26 IL_4IOA_0754IOA0.27511Single bulged UX LSU rRNAC2421C2422*G2050G2052cWWcWW
27 IL_4FRG_0024FRG0.22441Single bulged UBcobalamin riboswitch aptamer domainC39C40*G23G25cWWcWW
28 IL_2BQ5_0012BQ50.19961RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
29 IL_2C4Z_0012C4Z0.23551RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
30 IL_2BU1_0012BU10.19851RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
31 IL_2IZM_0012IZM0.16331RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
32 IL_2C50_0012C500.18261RRNA (19-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
33 IL_3U5F_0013U5F0.18731618S rRNAU600A601*U24A26cWWcWW
34 IL_2IZN_0012IZN0.20311Single bulged GRRNA (19-mer)G14||||P_1G15||||P_1*C5||||P_1C7||||P_1cWWcWW
35 IL_1FJG_0011FJG0.11641Single bulged G (H)A SSU rRNAU552A553*U30A32cWWcWW
36 IL_2IZ9_0012IZ90.21921RRNA (18-mer)C14||||P_1C15||||P_1*G5||||P_1G7||||P_1cWWcWW
37 IL_3U5F_0563U5F0.21401618S rRNAC1066C1067*G1051G1053cWWcWW
38 IL_3U5H_1403U5H0.17031525S rRNAU3363C3364*G3340A3342cWWcWW
39 IL_2AW7_0172AW70.18441A16S ribosomal RNAC392A393*U367G369cWWcWW
40 IL_1X8W_0011X8W0.50691ATetrahymena ribozyme RNAG110G111*C209C211cWWcWW
41 IL_1MFQ_0051MFQ0.38441Single bulged AA SRP RNAC220C221*G175G177cWWcWW
42 IL_4BPP_0214BPP0.42121A18S RRNAC402A403*U412G414cWWcWW
43 IL_3U5H_0343U5H0.34821525S rRNAC886G887*C873G875cWWcWW
44 IL_4A1B_0394A1B0.37231126S RRNAC911G912*C898G900cWWcWW
45 IL_1FJG_0431FJG0.36791A SSU rRNAC1060G1061*C1195G1197cWWcWW
46 IL_4A1B_0764A1B0.25041126S RRNAC1733A1734*U1758G1760cWWncWW
47 IL_4BPP_0674BPP0.36571A18S RRNAC1252G1253*C1397G1399cWWcWW
48 IL_4A1B_1234A1B0.45721126S RRNAU3247C3248*G3144G3146cWWcWW
49 IL_2QBG_1042QBG0.50282B23S rRNAU2695U2696*A2711G2714cWWcWW
50 IL_4A1B_1214A1B0.52702126S RRNAU3052U3053*A3066G3069cWWcWW
51 IL_2NOK_0062NOK0.45001C+DRNA (24-mer) + RNA (20-mer)U61C62*G105G107cWWcWW
52 IL_2NOK_0032NOK0.34921A+BRNA (24-mer) + RNA (20-mer)U61C62*G105G107cWWcWW
53 IL_4LGT_0024LGT0.33071Single bulged AEstem-loop of 23S rRNAC2591G2592*C2601G2603cWWcWW
54 IL_2AW7_0512AW70.39211A16S ribosomal RNAU1060G1061*C1195A1197cWWcWW
55 IL_3DIR_0013DIR0.37921ARNA (174-MER)C78C79*G12G14cWWcWW
56 IL_3D0U_0013D0U0.35311Single bulged CALysine Riboswitch RNAC75C76*G9G11cWWcWW
57 IL_1S72_0401S720.323510 LSU rRNAC1253C1254*G1108G1110cWWcWW
58 IL_1S03_0051S030.31321Single bulged UB47-MERC41U42*A6G8cWWcWW
59 IL_397D_001397D0.35693Multiple bulged basesB+ARNA (12-mer)C39U40*A22G26cWWcWW
60 IL_3U5H_1253U5H0.46372525S rRNAC3063U3064*A3077G3080cWWcWW
61 IL_3U5H_0033U5H0.306318+55.8S rRNAG144U145*A13C15cWWcWW
62 IL_3U5H_1423U5H0.32902525S rRNAC3349C3350*G3353G3356cWWcWW
63 IL_3U5H_0983U5H0.25041525S rRNAA2811C2812*G2409U2411cWWcWW
64 IL_1S72_0301S720.24081Single bulged U (H)0 LSU rRNAC847C848*G834G836cWWcWW
65 IL_4A1B_0954A1B0.25411126S RRNAA2799C2800*G2404U2406cWWcWW
66 IL_4A1B_1244A1B0.33781126S RRNAU3179C3180*G3158A3160cWWcWW
67 IL_3V2F_0563V2F0.48131A23S Ribosomal RNAC1450|||AC1451*G1459G1461cWWcWW
68 IL_4IOA_0154IOA0.43451Single bulged AX LSU rRNAC710C711*G776G778cWWcWW
69 IL_4IOA_0344IOA0.38921Single bulged UX LSU rRNAC1160U1161*A1022G1024cWWcWW
70 IL_3OWZ_0013OWZ0.39791ADomain II of glycine riboswitchU27C28*G12A14cWWcWW
71 IL_3V2F_0193V2F0.38891A23S Ribosomal RNAC697C698*G763G765cWWcWW
72 IL_2QBG_0692QBG0.36351B23S rRNAC1727C1728*G1731G1733cWWcWW
73 IL_3U5H_0553U5H0.43251525S rRNAU1324U1325*A1180A1182cWWcWW
74 IL_3U5F_0183U5F0.53401618S rRNAC275C276*G279G281cWWcWW
75 IL_2QBG_0232QBG0.42541B23S rRNAU702U703*G728A730cWWcWW
76 IL_4IOA_0164IOA0.46781Single bulged GX LSU rRNAU715U716*G741A743cWWcWW
77 IL_3V2F_0203V2F0.55501A23S Ribosomal RNAG702U703*G728C730cWWcWW
78 IL_1S72_0271S720.48011Single bulged G (H)0 LSU rRNAA793U794*A819U821cWWcWW
79 IL_4C7O_0014C7O0.50201Single bulged UESRP RNAU7C8*G38A40cWWcWW
80 IL_3P49_0033P490.48981AGlycine riboswitchA30C31*G13U15cWWcWW
81 IL_1S72_0261S720.580010 LSU rRNAA788C789*G856U858cWWcWW
82 IL_3U5H_0303U5H0.57221525S rRNAA828U829*A895U897cWWcWW
83 IL_3V2F_0383V2F0.55001A23S Ribosomal RNAG1149C1150*G1011C1013cWWcWW
84 IL_2QBG_0382QBG0.57361B23S rRNAG1149C1150*G1011C1013cWWcWW
85 IL_3U5H_1363U5H0.52661525S rRNAU3387C3388*G3318A3320cWWcWW
86 IL_4A1B_0364A1B0.59111126S RRNAA853U854*A920U922cWWcWW
87 IL_3SUX_0013SUX0.49771Single bulged GX THF riboswitchG20C21*G76U78cWWcWW
88 IL_3SD3_0023SD30.50921ATetrahydrofolate riboswitchG17C18*G67U69cWWcWW
89 IL_3U5H_0943U5H0.46302525S rRNAG2276C2277*G2307U2310cWWcWW
90 IL_1S72_0701S720.465920 LSU rRNAG1974C1975*G2005U2008cWWcWW
91 IL_4A1B_1014A1B0.43531126S RRNAG2603U2604*A2614U2616cWWcWW
92 IL_2QBG_0702QBG0.47601B23S rRNAG1770C1771*G1980U1982cWWcWW
93 IL_4IOA_0644IOA0.52321Single bulged AX LSU rRNAG1761C1762*G1963U1965cWWcWW
94 IL_3V2F_0453V2F0.43171A23S Ribosomal RNAG1229C1230*G1219C1221cWWcWW
95 IL_3V2F_0663V2F0.44541A23S Ribosomal RNAG1770C1771*G1980C1982cWWcWW
96 IL_2XXA_0122XXA0.48471G SSRP RNAA26C27*G71U73cWWcWW
97 IL_3U5H_1053U5H0.54171525S rRNAA2740C2741*G2714U2716cWWcWW
98 IL_3R2D_0013R2D0.55022S+RRNA (12-mer)G10C11*G2C5cWWcWW
99 IL_4BPP_0164BPP0.46621A18S RRNAA279U280*G262U264cWWcWW
100 IL_1FJG_0021FJG0.48931Single bulged A (H)A SSU rRNAG44U45*G396C398cWWcWW
101 IL_3U5H_0143U5H0.433618+55.8S rRNAG25U26*G337C339cWWcWW
102 IL_4A1B_1004A1B0.40141126S RRNAA2557U2558*A2561U2563cWWcWW
103 IL_4BPP_0724BPP0.37141A18S RRNAU1322C1323*G1343A1345cWWcWW
104 IL_1S72_0451S720.41842Bulged stacked bases (H)0 LSU rRNAG1269U1270*A1286C1289cWWcWW
105 IL_1U9S_0011U9S0.39491Single bulged AARIBONUCLEASE PG95C96*G107C109cWWcWW
106 IL_2PJP_0012PJP0.35821Single bulged UBSECIS RNAA29C30*G16U18cWWcWW
107 IL_1DUQ_0021DUQ0.36341Single bulged AA+BTHE REV BINDING ELEMENTG108C109*G120C122cWWcWW
108 IL_1CSL_0021CSL0.38971Single bulged AA+BRNA (13-mer) + RNA (15-mer)G50C51*G67C69cWWcWW
109 IL_4BPP_0304BPP0.37941A18S RRNAG580C581*G550C552cWWcWW
110 IL_2OIU_0032OIU0.36751Single bulged UQL1 Ribozyme RNA LigaseA41C42*G18U20cWWcWW
111 IL_3W3S_0013W3S0.39561Single bulged CBSelenocysteine transfer RNAG23C24*G11C12cWWcWW
112 IL_4IOA_0114IOA0.41981Single bulged AX LSU rRNAG678C679*G600C602cWWcWW
113 IL_4A1C_0024A1C0.4200125.8S RRNAG71C72*G90C92cWWcWW
114 IL_3SNP_0013SNP0.43601Cferritin H IRE RNAA24C25*G7U9cWWcWW
115 IL_3U5H_1523U5H0.4492185.8S rRNAG68U69*A89C91cWWcWW
116 IL_1S72_0141S720.32531Single bulged U (H)0 LSU rRNAG322C323*G307C309cWWcWW
117 IL_3U5F_0313U5F0.38501618S rRNAG586C587*G557C559cWWcWW
118 IL_2OIU_0012OIU0.32541PL1 Ribozyme RNA LigaseA41C42*G18U20cWWcWW
119 IL_1NBS_0011NBS0.32621Single bulged A (H)A RNase P class BG113C114*G129C131cWWcWW
120 IL_3OWZ_0053OWZ0.29141BDomain II of glycine riboswitchU27C28*G12A14cWWcWW
121 IL_1NBS_0051NBS0.28031Single bulged AB RNase P class BG113C114*G129C131cWWcWW
122 IL_4IOA_0024IOA0.29581Single bulged AX LSU rRNAG36C37*G454C456cWWcWW
123 IL_3V2F_0023V2F0.28371A23S Ribosomal RNAG36C37*G442C444cWWcWW
124 IL_1GID_0091GID0.20381Single bulged ABP4-P6 RNA RIBOZYME DOMAING110G111*C209C211cWWcWW
125 IL_1GID_0021GID0.16351AP4-P6 RNA RIBOZYME DOMAING110G111*C209C211cWWcWW
126 IL_2QBG_0072QBG0.18961B23S rRNAG36C37*G442C444cWWcWW
127 IL_1FJG_0141FJG0.19631Single bulged U (H)A SSU rRNAG392A393*U367C369cWWcWW
128 IL_2VPL_0022VPL0.18851Single bulged ABFRAGMENT OF MRNA FOR L1-OPERON CONTAINING REGULATOR L1-BINDING SITEU16C17*G28A30cWWcWW
129 IL_3U5H_1313U5H0.26001525S rRNAC3193C3194*G3197G3199cWWcWW
130 IL_4IOA_0714IOA0.29612X LSU rRNAG1916C1917*G1947C1950cWWcWW
131 IL_2QBG_0762QBG0.26992B23S rRNAG1933C1934*G1964C1967cWWcWW
132 IL_3V2F_0733V2F0.31522A23S Ribosomal RNAG1933C1934*G1964C1967cWWcWW
133 IL_4A1B_0914A1B0.34912126S RRNAG2271C2272*G2302U2305cWWcWW
134 IL_3DHS_0023DHS0.22851ARNase P RNAG395C396*G51C53cWWcWW
135 IL_3U5H_0263U5H0.21221525S rRNAA755U756*A775U777cWWcWW
136 IL_4IOA_0574IOA0.24371Single bulged CX LSU rRNAA1534C1535*G1488U1490cWWcWW
137 IL_3U5H_1293U5H0.28861525S rRNAA3210C3211*G3177U3179cWWcWW
138 IL_3U5H_0133U5H0.35171525S rRNAA204C205*G189U191cWWcWW
139 IL_4A1B_0114A1B0.31441126S RRNAA204C205*G189U191cWWcWW
140 IL_3U5F_0593U5F0.32051618S rRNAU1627U1628*G1149A1151cWWcWW
141 IL_3U5H_0893U5H0.31631525S rRNAC2128U2129*G2323G2325cWWcWW
142 IL_4BPP_0554BPP0.32391A18S RRNAU1599U1600*G1122A1124cWWcWW
143 IL_4BPP_0254BPP0.33821A18S RRNAA473G474*C498U500cWWcWW
144 IL_3IVK_0033IVK0.50831Cclass I ligase productA112C113*G46U48cWWncWW
145 IL_4A1B_0444A1B0.41061126S RRNAA1126U1127*A1009U1011cWWcWW
146 IL_2A64_0022A640.40511Single bulged UAribonuclease P RNAG395C396*G51C53cWWcWW
147 IL_3U5F_0163U5F0.35451618S rRNAA288U289*A265U267cWWcWW
148 IL_3U5H_0393U5H0.44911525S rRNAA1099U1100*A983U985cWWcWW
149 IL_1S72_0021S720.36511Single bulged A (H)0 LSU rRNAG33C34*G448C450cWWcWW
150 IL_3U5F_0263U5F0.38991618S rRNAA481U482*A505U507cWWcWW
151 IL_4BPP_0244BPP0.36191A18S RRNAU439C440*G450A452cWWcWW
152 IL_2XXA_0102XXA0.41951G SSRP RNAG17C18*G82C84cWWcWWncWw
153 IL_1GID_0121GID0.47761Single bulged UBP4-P6 RNA RIBOZYME DOMAINA192C193*G129U131cWWcWW
154 IL_4BPP_0544BPP0.45721A18S RRNAG1119A1120*U1602C1604cWWcWW
155 IL_1FJG_0351FJG0.44871Single bulged A (H)A SSU rRNAG922A923*U1393C1395cWWcWW
156 IL_3U5F_0583U5F0.43551618S rRNAG1146A1147*U1630C1632cWWcWW
157 IL_2AW7_0422AW70.34481A16S ribosomal RNAG922A923*U1393C1395cWWcWW
158 IL_3U5F_0093U5F0.34432618S rRNAA300A301*U113U116cWWcWW
159 IL_3U5H_0503U5H0.43361525S rRNAG1083A1084*U1074C1076cWWcWW
160 IL_4A1B_0514A1B0.41312126S RRNAG1111A1112*U1101C1104cWWcWW
161 IL_1GID_0051GID0.40731AP4-P6 RNA RIBOZYME DOMAINA192C193*G129U131cWWcWW
162 IL_4FAW_0044FAW0.40421AGroup II catalytic intron D1-D4-1A99A100*U82U84cWWcWW
163 IL_1MJI_0011MJI0.39162C5S rRNA fragmentC30C31*G51G54cWWcWW
164 IL_1ET4_0021ET40.35211Major groove intercalationARNA APTAMER, 35-MERC218C219*G226G228cWWcWW
165 IL_1ET4_0041ET40.36641BRNA APTAMER, 35-MERC318C319*G326G328cWWcWW
166 IL_2AW7_0082AW70.30821A16S ribosomal RNAG75G76*U93C95cWWcWW
167 IL_1S72_0961S720.38911Single bulged A (H)0 LSU rRNAG2860G2861*C2895C2897cWWcWW
168 IL_3Q1Q_0043Q1Q0.29922BRNase P RNAG108G109*C205C208cWWcWW
169 IL_2AW7_0262AW70.24261A16S ribosomal RNAC470U471*A460G462cWWcWW
170 IL_3U5H_0583U5H0.20471525S rRNAC1296C1297*G1207G1209cWWcWW
171 IL_4A1B_0594A1B0.21081126S RRNAC1323C1324*G1234G1236cWWcWW
172 IL_2ZY6_0022ZY60.20251Single bulged UAphenylalanyl transfer RNAC24C25*G10G12cWWcWW
173 IL_4BPP_0754BPP0.14731A18S RRNAC1374C1375*G1364G1366cWWcWW
174 IL_1S72_1041S720.14251Single bulged U (H)9 5S rRNAC95C96*G86G88cWWcWW
175 IL_4BPP_0644BPP0.18301A18S RRNAC1411C1412*G1240G1242cWWcWW
176 IL_2AW7_0482AW70.13601A16S ribosomal RNAC1208C1209*G1048G1050cWWcWW
177 IL_3U5F_0663U5F0.17491618S rRNAC1440C1441*G1268G1270cWWcWW
178 IL_4B5R_0014B5R0.15071Single bulged A (H)A SAM-I riboswitchC40C41*G13G15cWWcWW
179 IL_3GX5_0013GX50.13791ARNA (94-MER)C40C41*G13G15cWWcWW
180 IL_1FJG_0401FJG0.12801Single bulged U (H)A SSU rRNAC1208C1209*G1048G1050cWWcWW
181 IL_4BPP_0134BPP0.09221A18S RRNAC192C193*G181G183cWWcWW
182 IL_3U5F_0243U5F0.09141618S rRNAU463A464*U439A441cWWcWW
183 IL_4BPP_0224BPP0.13221A18S RRNAC455A456*U431G433cWWcWW
184 IL_4AOB_0014AOB0.19041Single bulged AA SAM-I riboswitchC40C41*G13G15cWWcWW
185 IL_1JZV_0051JZV0.19961C+DRNA (8-mer) + RNA (9-mer)G24A25*U32C34cWWcWW
186 IL_1JZV_0021JZV0.18821Single bulged AA+BRNA (8-mer) + RNA (9-mer)G4A5*U12C14cWWcWW
187 IL_4L8H_0014L8H0.22701Single bulged ARRNA operator hairpinA16G17*C4U6cWWcWW
188 IL_2AW7_0022AW70.22221A16S ribosomal RNAA44G45*C396U398cWWcWW
189 IL_4C7O_0044C7O0.22971Single bulged GESRP RNAA15A16*U27U29cWWcWW
190 IL_4A1B_1314A1B0.16071126S RRNAC3320U3321*A3297G3299cWWcWW
191 IL_3U5H_1033U5H0.18751525S rRNAG2614G2615*C2625C2627cWWcWW
192 IL_1S72_0771S720.14641Single bulged A (H)0 LSU rRNAG2279A2280*U2290C2292cWWcWW
193 IL_4A1B_0844A1B0.22301126S RRNAC2124C2125*G2318G2320cWWcWW
194 IL_3U5H_0773U5H0.18181525S rRNAC1669C1670*G1778G1780cWWcWW
195 IL_4BPP_0534BPP0.14501A18S RRNAU1100C1101*G1091A1093cWWcWW
196 IL_1U63_0021U630.17841B49 NT FRAGMENT OF MRNA FOR L1U16C17*G28A30cWWcWW
197 IL_3W3S_0023W3S0.18191Single bulged UBSelenocysteine transfer RNAC26C27*G43G44cWWcWW
198 IL_2A64_0032A640.17801Single bulged UAribonuclease P RNAC77C78*G66G68cWWcWW
199 IL_3DHS_0033DHS0.22301ARNase P RNAC77C78*G66G68cWWcWW
200 IL_3U5H_0023U5H0.228415+825S rRNA + 5.8S rRNAC7C8*G150G152cWWcWW
201 IL_2PN4_0032PN40.24511A+BRNA (24-mer) + RNA (20-mer)U61C62*G105G107cWWcWW
202 IL_4A1B_0724A1B0.31521126S RRNAU1693C1694*G1804G1806cWWcWW
203 IL_4A1B_1054A1B0.37671126S RRNAA2774G2775*C2760U2762cWWcWW
204 IL_1NBS_0091NBS0.39502Major groove outside cWW, minor groove, intercalation pocketB RNase P class BU181G182*U228A231cWWcWW
205 IL_1NBS_0021NBS0.37372Major groove outside cWW, minor groove, intercalation pocket (H)A RNase P class BU181G182*U228A231cWWcWW
206 IL_3U5H_0933U5H0.41581525S rRNAC2237G2238*C2204G2206cWWcWW
207 IL_4A1B_0504A1B0.29861126S RRNAU1117C1118*G1094G1096cWWcWW
208 IL_1U9S_0031U9S0.30122Major groove outside cWW, minor groove, intercalation pocketARIBONUCLEASE PU116G117*C224A227cWWcWW
209 IL_2QBG_0352QBG0.26461B23S rRNAU1159G1160*C994A996cWWcWW
210 IL_4A1B_0884A1B0.30631126S RRNAC2232G2233*C2199G2201cWWcWW
211 IL_3V2F_0353V2F0.25791A23S Ribosomal RNAU1159G1160*C994A996cWWcWW
212 IL_4IOA_0314IOA0.24911Single bulged CX LSU rRNAU1170A1171*U1005A1007cWWcWW
213 IL_1I9X_0011I9X0.18121Single bulged AB+ARNA (13-mer)U9A10*U4A6cWWcWW
214 IL_1S72_0641S720.25161Single bulged A (H)0 LSU rRNAC1826G1827*C2021G2023cWWcWW
215 IL_3B31_0013B310.26731ARNA (29-MER)C6194G6195*C6181G6183cWWcWW
216 IL_2QUX_0022QUX0.28561Single bulged AFRNA (25-MER)C20G21*C5G7cWWcWW
217 IL_3U5F_0693U5F0.27061618S rRNAC1280G1281*C1426G1428cWWcWW
218 IL_2QBG_0992QBG0.20551B23S rRNAC2591G2592*C2601G2603cWWcWW
219 IL_3MEI_0013MEI0.20851Single bulged UA+BRNA (23-mer)C7G8*C15G17cWWcWW
220 IL_1S72_0881S720.187410 LSU rRNAC2626G2627*C2636G2638cWWcWW
221 IL_3U5H_1193U5H0.21331525S rRNAC2960G2961*C2970G2972cWWcWW
222 IL_4A1B_1164A1B0.17511126S RRNAC2948G2949*C2958G2960cWWcWW
223 IL_1F7Y_0021F7Y0.22351B16S RIBOSOMAL RNA FRAGMENTG21G22*C46C48cWWcWW
224 IL_4BPP_0094BPP0.35542A18S RRNAA291G292*U109U112cWWcWW
225 IL_4A1B_0064A1B0.35291126S RRNAG158G159*U260C262cWWcWW
226 IL_1FJG_0071FJG0.33772Multiple bulged bases (H)A SSU rRNAG231G232*U129C131cWWcWW
227 IL_3U5H_0653U5H0.44401525S rRNAC1411G1412*U1398G1400cWWcWW
228 IL_1S72_0671S720.44792Major groove outside cWW, minor groove, intercalation pocket (H)0 LSU rRNAU1897G1898*U1939A1942cWWcWW
229 IL_3D0U_0053D0U0.46281Single bulged GALysine Riboswitch RNAC81G82*U106G108ncWWcWW
230 IL_2QBG_0732QBG0.43932B23S rRNAU1841G1842*U1898A1901cWWcWW
231 IL_3U5H_0923U5H0.43382525S rRNAU2200G2201*U2241A2244cWWcWW
232 IL_3UCZ_0033UCZ0.35172RRNA (92-MER)G56G57*U81C84cWWcWW
233 IL_1FUF_0031FUF0.40322Multiple bulged basesA+BRNA (14-mer)G9G10*U19C22cWWcWW
234 IL_1FUF_0021FUF0.39522Multiple bulged basesB+ARNA (14-mer)G23G24*U5C8cWWcWW
235 IL_2QBG_0892QBG0.37741B23S rRNAG2414G2415*U2401C2403cWWcWW
236 IL_3V2F_0333V2F0.36561A23S Ribosomal RNAG880G881*U895C897cWWcWW
237 IL_2AW7_0192AW70.34391A16S ribosomal RNAU375G376*U387A389cWWcWW
238 IL_1FJG_0161FJG0.29791A SSU rRNAU375G376*U387A389cWWcWW
239 IL_4A1B_0234A1B0.41821126S RRNAG493G494*U484C486cWWcWW
240 IL_3IWN_0043IWN0.38162Multiple bulged basesAC-di-GMP riboswitchG46G47*U76C79cWWcWW
241 IL_1S72_0101S720.38481Single bulged G (H)0 LSU rRNAG274G275*U374C376cWWcWW
242 IL_3DIR_0053DIR0.42181ARNA (174-MER)G84G85*U109C111cWWcWW
243 IL_3V2F_1043V2F0.46341A23S Ribosomal RNAG2838G2839*U2878C2880cWWcWW
244 IL_4IOA_1014IOA0.52121Single bulged GX LSU rRNAG2813G2814*U2853C2855cWWcWW
245 IL_2QBG_1072QBG0.52571B23S rRNAG2838G2839*U2878C2880cWWcWW
246 IL_3UCZ_0023UCZ0.50541RRNA (92-MER)G86G87*C52C54cWWcWW
247 IL_1U9S_0061U9S0.56821Major groove intercalationARIBONUCLEASE PG140G141*U158C160cWWncWW
248 IL_3IWN_0033IWN0.54921Major groove intercalationAC-di-GMP riboswitchG81G82*C42C44cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
CC*GUG24
CC*GAG15
GC*GAC11
CG*CAG10
AC*GUU9
GA*UAC8
CC*GCG7
CG*CUG7
GC*GUC7
UC*GUA6
UC*GUG5
GG*CAC5
UC*GAA5
GG*UGC5
AG*CAU4
CA*UCG4
CU*AUG4
UU*GGA4
AC*GAU4
AU*AAU4
AC*GCU4
UG*UAAA4
CU*AAG3
UA*UAA3
AU*AGU3
GC*GCAU3
GC*GCAC3
GG*UAC3
UU*GGG2
CC*GUUCG2
UA*UGA2
UA*UCA2
GG*CGC2
CA*UUG2
GU*AUC2
GC*GGU2
GC*GAU2
GU*GAC2
AU*AUU2
GC*GCC2
AA*UGU2
UC*GCG2
GG*UUC2
GG*UAGC2
GG*UUUC2
UG*UGA2
GG*CUC2
UU*AUG1
CU*AAGG1
GUG*CC1
UU*ACUG1
UU*AAUG1
UG*CAA1
CU*AUCUG1
CU*AUUG1
CC*GUUG1
UU*AUA1
GU*GGC1
GUC*GC1
GU*AAU1
GAC*GC1
GC*GCUC1
AU*GAU1
GU*AAUC1
GA*UUC1
CU*GAG1
UC*GGA1
AA*UCGU1
GA*UUAC1
CC*GAAG1
GG*CAAC1
UA*UUA1
AG*CUU1
UG*CAAA1
UG*CCA1
CCA*UG1
GG*CCC1
AG*UAGU1
GG*UGAC1
CG*UAG1
UG*UCAA1
CG*UGG1
GG*UCC1
Non-Watson-Crick part of the motif
SequenceCounts
*A84
*U77
*G27
*C24
*CA7
*AA7
*AG4
*UU4
*UUC2
U*2
*CU2
*AU2
*UCU1
A*1
*CG1
*UA1
C*1
*GA1

Release history

Release1.101.111.12
Date2014-01-042014-02-012014-03-01
StatusUpdated, 1 parentExact matchExact match

Parent motifs

Parent motifCommon motif instancesOnly in IL_97217.10Only in the parent motif
IL_97217.9
Compare		IL_4IOA_002, IL_4FAW_004, IL_4L8H_001, IL_4BPP_022, IL_3SN2_001, IL_4BPP_024, IL_4ANG_001, IL_2AW7_051, IL_4IOA_075, IL_4A1B_059, IL_3U5H_105, IL_4A1B_116, IL_3U5H_103, IL_3DIR_001, IL_4A1B_051, IL_4A1B_050, IL_4A1B_056, IL_2C50_001, IL_3U5H_065, IL_1S72_045, IL_3V2F_002, IL_3D2V_001, IL_2BQ5_001, IL_1U9S_001, IL_1S72_040, IL_4A1B_044, IL_3Q1Q_004, IL_2AW7_026, IL_3TZR_002, IL_4BPP_021, IL_4A1B_124, IL_2PN4_003, IL_1CSL_002, IL_2QBG_099, IL_4BPP_016, IL_2QBG_069, IL_4BPP_013, IL_4BPP_025, IL_3V2F_056, IL_1GID_009, IL_3U5F_059, IL_3U5F_056, IL_1GID_005, IL_1ET4_002, IL_3U5H_077, IL_4A1B_131, IL_1S72_030, IL_1S72_096, IL_3V2F_045, IL_3B31_001, IL_2XXA_010, IL_3U5H_025, IL_2XXA_012, IL_1S72_002, IL_4IOA_071, IL_2NOK_006, IL_1I9X_001, IL_2NOK_003, IL_2QBG_080, IL_1I9X_002, IL_4IOA_057, IL_3U5H_026, IL_4BPP_075, IL_2QBG_089, IL_3SNP_001, IL_3V2F_104, IL_4IOA_031, IL_1FJG_040, IL_2QBG_007, IL_4A1B_076, IL_3U5H_003, IL_3U5H_002, IL_1S72_067, IL_4A1B_072, IL_1S72_088, IL_2PLY_002, IL_1S72_104, IL_1U9S_006, IL_6MSF_001, IL_3U5F_026, IL_1U9S_003, IL_3U5F_024, IL_3GX5_001, IL_3IWN_004, IL_3IWN_003, IL_4BPP_031, IL_3U5H_089, IL_2OIU_003, IL_2OIU_001, IL_2AW7_042, IL_4BPP_072, IL_4LGT_002, IL_3V2F_077, IL_3V2F_073, IL_2AW7_008, IL_2C4Z_001, IL_3U5H_014, IL_1S72_077, IL_1S72_074, IL_2AW7_001, IL_1S72_070, IL_2AW7_002, IL_3U5H_119, IL_3U5H_152, IL_2QBG_073, IL_3U5F_031, IL_2QBG_023, IL_2QBG_076, IL_3U5H_094, IL_1JZV_002, IL_3OWZ_001, IL_3U5H_092, IL_3U5H_093, IL_3SUX_001, IL_1R3E_001, IL_3U5H_098, IL_4IOA_101, IL_4BPP_064, IL_4BPP_067, IL_4A1C_003, IL_4A1C_002, IL_2BU1_001, IL_3R2D_001, IL_1DUQ_002, IL_1MJI_001, IL_2AW7_017, IL_4A1B_011, IL_4A1B_010, IL_3U5H_142, IL_3U5H_143, IL_3U5H_140, IL_2AW7_019, IL_4IOA_034, IL_3UCZ_002, IL_2QBG_107, IL_3W3S_001, IL_3W3S_002, IL_2QBG_104, IL_3U5F_009, IL_1FJG_001, IL_3D0U_005, IL_3DHS_003, IL_3U5F_001, IL_3D0U_001, IL_3SD3_002, IL_2IZN_001, IL_3U5H_013, IL_2A64_003, IL_2A64_002, IL_2IZM_001, IL_4BPP_009, IL_1MFQ_005, IL_1U63_002, IL_4C7O_004, IL_4C7O_001, IL_2QBG_035, IL_1FJG_016, IL_3U5H_034, IL_1FJG_014, IL_3U5H_030, IL_2PJP_001, IL_4A1B_123, IL_3U5H_136, IL_4A1B_121, IL_3V2F_066, IL_3DIR_005, IL_3U5H_131, IL_3U5H_039, IL_3U5F_016, IL_1S03_006, IL_1S03_005, IL_1S72_010, IL_3U5F_018, IL_1S72_014, IL_4B5R_001, IL_1R3E_002, IL_1FJG_007, IL_3IVK_003, IL_4A1B_095, IL_2IZ9_001, IL_4A1B_091, IL_2ZY6_002, IL_4A1B_039, IL_2QBG_070, IL_1ET4_004, IL_4A1B_031, IL_4A1B_036, IL_4IOA_011, IL_4IOA_016, IL_3U5H_129, IL_1FJG_002, IL_4IOA_015, IL_397D_001, IL_3U5H_125, IL_3V2F_020, IL_3OWZ_005, IL_1FJG_043, IL_4FRG_002, IL_3MEI_001, IL_1S72_027, IL_1S72_026, IL_3U5F_069, IL_1S72_064, IL_3P49_003, IL_4A1B_088, IL_1GID_012, IL_1X8W_001, IL_4A1B_084, IL_4BPP_053, IL_4BPP_055, IL_4BPP_054, IL_3U5F_058, IL_2AW7_048, IL_1DQH_001, IL_3U5F_066, IL_2AW7_043, IL_4BPP_030, IL_1FJG_035, IL_4A1B_023, IL_1FJG_036, IL_3V2F_033, IL_4IOA_064, IL_4A1B_105, IL_2QUX_002, IL_3V2F_035, IL_3UCZ_003, IL_2VPL_002, IL_3V2F_038, IL_1GID_002, IL_4A1B_101, IL_4A1B_100, IL_3U5H_050, IL_1FUF_002, IL_1FUF_003, IL_3U5H_055, IL_3V2F_019, IL_3U5H_058, IL_4A1B_006, IL_2QBG_038, IL_1NBS_009, IL_1F7Y_002, IL_1NBS_001, IL_1NBS_002, IL_4AOB_001, IL_3DHS_002, IL_1NBS_005, IL_1JZV_005IL_3WBM_001

Children motifs

Child motifCommon motif instancesOnly in IL_97217.10Only in the child motif
IL_97217.11
Compare		IL_4IOA_002, IL_4FAW_004, IL_4L8H_001, IL_4BPP_022, IL_3SN2_001, IL_4BPP_024, IL_4ANG_001, IL_2AW7_051, IL_4IOA_075, IL_4A1B_059, IL_3U5H_105, IL_4A1B_116, IL_3U5H_103, IL_3DIR_001, IL_4A1B_051, IL_4A1B_050, IL_4A1B_056, IL_2C50_001, IL_3U5H_065, IL_1S72_045, IL_3V2F_002, IL_3D2V_001, IL_2BQ5_001, IL_1U9S_001, IL_1S72_040, IL_4A1B_044, IL_3Q1Q_004, IL_2AW7_026, IL_3TZR_002, IL_4BPP_021, IL_4A1B_124, IL_2PN4_003, IL_1CSL_002, IL_2QBG_099, IL_4BPP_016, IL_2QBG_069, IL_4BPP_013, IL_4BPP_025, IL_3V2F_056, IL_1GID_009, IL_3U5F_059, IL_3U5F_056, IL_1GID_005, IL_1ET4_002, IL_3U5H_077, IL_4A1B_131, IL_1S72_030, IL_1S72_096, IL_3V2F_045, IL_3B31_001, IL_2XXA_010, IL_3U5H_025, IL_2XXA_012, IL_1S72_002, IL_4IOA_071, IL_2NOK_006, IL_1I9X_001, IL_2NOK_003, IL_2QBG_080, IL_1I9X_002, IL_4IOA_057, IL_3U5H_026, IL_4BPP_075, IL_2QBG_089, IL_3SNP_001, IL_3V2F_104, IL_4IOA_031, IL_1FJG_040, IL_2QBG_007, IL_4A1B_076, IL_3U5H_003, IL_3U5H_002, IL_1S72_067, IL_4A1B_072, IL_1S72_088, IL_2PLY_002, IL_1S72_104, IL_1U9S_006, IL_6MSF_001, IL_3U5F_026, IL_1U9S_003, IL_3U5F_024, IL_3GX5_001, IL_3IWN_004, IL_3IWN_003, IL_4BPP_031, IL_3U5H_089, IL_2OIU_003, IL_2OIU_001, IL_2AW7_042, IL_4BPP_072, IL_4LGT_002, IL_3V2F_077, IL_3V2F_073, IL_2AW7_008, IL_2C4Z_001, IL_3U5H_014, IL_1S72_077, IL_1S72_074, IL_2AW7_001, IL_1S72_070, IL_2AW7_002, IL_3U5H_119, IL_3U5H_152, IL_2QBG_073, IL_3U5F_031, IL_2QBG_023, IL_2QBG_076, IL_3U5H_094, IL_1JZV_002, IL_3OWZ_001, IL_3U5H_092, IL_3U5H_093, IL_3SUX_001, IL_1R3E_001, IL_3U5H_098, IL_4IOA_101, IL_4BPP_064, IL_4BPP_067, IL_4A1C_003, IL_4A1C_002, IL_2BU1_001, IL_3R2D_001, IL_1DUQ_002, IL_1MJI_001, IL_2AW7_017, IL_4A1B_011, IL_4A1B_010, IL_3U5H_142, IL_3U5H_143, IL_3U5H_140, IL_2AW7_019, IL_4IOA_034, IL_3UCZ_002, IL_2QBG_107, IL_3W3S_001, IL_3W3S_002, IL_2QBG_104, IL_3U5F_009, IL_1FJG_001, IL_3D0U_005, IL_3DHS_003, IL_3U5F_001, IL_3D0U_001, IL_2IZN_001, IL_3U5H_013, IL_2A64_003, IL_2A64_002, IL_2IZM_001, IL_4BPP_009, IL_1MFQ_005, IL_1U63_002, IL_4C7O_004, IL_4C7O_001, IL_2QBG_035, IL_1FJG_016, IL_3U5H_034, IL_1FJG_014, IL_3U5H_030, IL_2PJP_001, IL_4A1B_123, IL_3U5H_136, IL_4A1B_121, IL_3V2F_066, IL_3DIR_005, IL_3U5H_131, IL_3U5H_039, IL_3U5F_016, IL_1S03_006, IL_1S03_005, IL_1S72_010, IL_3U5F_018, IL_1S72_014, IL_4B5R_001, IL_1R3E_002, IL_1FJG_007, IL_3IVK_003, IL_4A1B_095, IL_2IZ9_001, IL_4A1B_091, IL_2ZY6_002, IL_4A1B_039, IL_2QBG_070, IL_1ET4_004, IL_4A1B_031, IL_4A1B_036, IL_4IOA_011, IL_4IOA_016, IL_3U5H_129, IL_1FJG_002, IL_4IOA_015, IL_397D_001, IL_3U5H_125, IL_3V2F_020, IL_3OWZ_005, IL_1FJG_043, IL_4FRG_002, IL_3MEI_001, IL_1S72_027, IL_1S72_026, IL_3U5F_069, IL_1S72_064, IL_3P49_003, IL_4A1B_088, IL_1GID_012, IL_1X8W_001, IL_4A1B_084, IL_4BPP_053, IL_4BPP_055, IL_4BPP_054, IL_3U5F_058, IL_2AW7_048, IL_1DQH_001, IL_3U5F_066, IL_2AW7_043, IL_4BPP_030, IL_1FJG_035, IL_4A1B_023, IL_1FJG_036, IL_3WBM_001, IL_3V2F_033, IL_4IOA_064, IL_4A1B_105, IL_2QUX_002, IL_3V2F_035, IL_3UCZ_003, IL_2VPL_002, IL_3V2F_038, IL_1GID_002, IL_4A1B_101, IL_4A1B_100, IL_3U5H_050, IL_1FUF_002, IL_1FUF_003, IL_3U5H_055, IL_3V2F_019, IL_3U5H_058, IL_4A1B_006, IL_2QBG_038, IL_1NBS_009, IL_1F7Y_002, IL_1NBS_001, IL_1NBS_002, IL_4AOB_001, IL_3DHS_002, IL_1NBS_005, IL_1JZV_005IL_3SD3_002IL_4LVZ_002
Annotations
  • (167)
  • Single bulged A (19)
  • Single bulged U (16)
  • Single bulged A (H) (8)
  • Single bulged C (7)
  • Single bulged U (H) (6)
  • Multiple bulged bases (6)
  • Single bulged G (6)
  • Single bulged G (H) (4)
  • Major groove intercalation (3)
  • Major groove outside cWW, minor groove, intercalation pocket (H) (2)
  • Major groove outside cWW, minor groove, intercalation pocket (2)
  • Multiple bulged bases (H) (1)
  • Bulged stacked bases (H) (1)
    • Basepair signature
    cWW-cWW
    Heat map statistics
    Min 0.04 | Avg 0.43 | Max 0.99
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