#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2break 3 41-42-3
1 IL_3IWN_0033IWN0.58941Major groove intercalationAC-di-GMP riboswitchG81G82*C42C44cWWcWW
2 IL_3MXH_0033MXH0.52571Major groove intercalationRc-di-GMP riboswitchG86G87*C52C54cWWcWW
3 IL_1MJI_0031MJI0.41692Multiple bulged basesD5S rRNA fragmentC30C31*G51G54cWWcWW
4 IL_1ET4_0021ET40.40121Major groove intercalationARNA APTAMER, 35-MERC218C219*G226G228cWWcWW
5 IL_5TBW_1315TBW0.66731Single bulged U1 LSU rRNAC3324G3325*U3381G3383cWWcWW
6 IL_5LYS_0085LYS0.56711Single bulged UB7SK RNAC45G46*C62G64cWWcWW
7 IL_5J7L_3345J7L0.48101Single bulged UDA LSU rRNAG2414G2415*U2401C2403cWWcWW
8 IL_4WF9_0884WF90.41381Single bulged UX LSU rRNAG2441G2442*U2428C2430cWWcWW
9 IL_5TBW_0865TBW0.45251Single bulged U1 LSU rRNAC2237G2238*C2204G2206cWWcWW
10 IL_4KZD_0014KZD0.38641Single bulged URRNA (84-MER)C10G11*C74G76cWWcWW
11 IL_5J7L_0175J7L0.34651Single bulged UAA SSU rRNAC392A393*U367G369cWWcWW
12 IL_4V88_4394V880.30671Single bulged UA6 SSU rRNAC1066C1067*G1051G1053cWWcWW
13 IL_5TBW_0325TBW0.34321Single bulged U1 LSU rRNAC873G875*C886G887cWWcWW
14 IL_4LFB_0464LFB0.38861Single bulged UA SSU rRNAC1195G1197*C1060G1061cWWcWW
15 IL_6CZR_1566CZR0.43321Single bulged U1a SSU rRNAC1177G1179*C1043G1044cWWcWW
16 IL_4V9F_0394V9F0.23331Single bulged U0 LSU rRNAG1108G1110*C1253C1254cWWcWW
17 IL_397D_001397D0.20903Multiple bulged basesA+BRNA (15-mer) + RNA (12-mer)A22G26*C39U40cWWcWW
18 IL_1S03_0051S030.20411Single bulged UB47-MERA6G8*C41U42cWWcWW
19 IL_4Y4O_2534Y4O0.18431Single bulged U2A LSU rRNAG2067G2069*C2442C2443cWWcWW
20 IL_4IOA_0754IOA0.25071Single bulged UX LSU rRNAG2050G2052*C2421C2422cWWcWW
21 IL_4WF9_0804WF90.23051Single bulged UX LSU rRNAG2094G2096*C2469C2470cWWcWW
22 IL_4V9F_0744V9F0.27691Single bulged U0 LSU rRNAA2108G2110*C2477U2478cWWcWW
23 IL_3NDB_0053NDB0.30081Single bulged UM SRP RNAG237G238*C139C141cWWcWW
24 IL_4FRG_0024FRG0.25131Single bulged UBcobalamin riboswitch aptamer domainG23G25*C39C40cWWcWW
25 IL_3TZR_0023TZR0.30371Single bulged UB+ARNA (16-mer)G105G107*U61C62cWWcWW
26 IL_3MEI_0013MEI0.34341Single bulged UA+BRNA (23-mer)C7G8*C15G17cWWcWW
27 IL_2ZY6_0022ZY60.30601Single bulged UAphenylalanyl transfer RNAC24C25*G10G12cWWcWW
28 IL_5TBW_0535TBW0.31141Single bulged U1 LSU rRNAC1296C1297*G1207G1209cWWcWW
29 IL_2A64_0032A640.19541Single bulged UAribonuclease P RNAC77C78*G66G68cWWcWW
30 IL_5J7L_0465J7L0.18961Single bulged UAA SSU rRNAC1208C1209*G1048G1050cWWcWW
31 IL_3W3S_0053W3S0.22511Single bulged UBSelenocysteine transfer RNAC26||||43_455C27||||43_455*G43||||43_455G44||||43_455cWWcWW
32 IL_3W3S_0023W3S0.22511Single bulged UBSelenocysteine transfer RNAC26C27*G43G44cWWcWW
33 IL_2PN3_0032PN30.25411Single bulged UA+BRNA (24-mer) + RNA (20-mer)U61C62*G105G107cWWcWW
34 IL_5TBW_1345TBW0.26441Single bulged U1 LSU rRNAU3363C3364*G3340A3342cWWcWW
35 IL_4V88_4494V880.24651Single bulged UA6 SSU rRNAC1440C1441*G1268G1270cWWcWW
36 IL_4V9F_1074V9F0.23571Single bulged U9 5S rRNAC95C96*G86G88cWWcWW
37 IL_4LFB_0424LFB0.22801Single bulged UA SSU rRNAC1208C1209*G1048G1050cWWcWW
38 IL_4V88_4074V880.17421Single bulged UA6 SSU rRNAU463A464*U439A441cWWcWW
39 IL_6CZR_1266CZR0.23271Single bulged U1a SSU rRNAG388A389*U363C365cWWcWW
40 IL_2UWM_0032UWM0.23131Single bulged UDRNA (23-mer)C25G27*C21G22cWWcWW
41 IL_3D2V_0013D2V0.17011Single bulged UATPP riboswitch (THI element)C5C6*G73G75cWWcWW
42 IL_3WBM_0013WBM0.20741Single bulged UY+XRNA (25-MER)U23C24*G2A4cWWcWW
43 IL_5TBW_0935TBW0.14511Single bulged U1 LSU rRNAG2409U2411*A2811C2812cWWcWW
44 IL_4V9F_0294V9F0.15881Single bulged U0 LSU rRNAG834G836*C847C848cWWcWW
45 IL_4LFB_0144LFB0.00001Single bulged UA SSU rRNAG392A393*U367C369cWWcWW
46 IL_4IOA_0344IOA0.16291Single bulged UX LSU rRNAA1022G1024*C1160U1161cWWcWW
47 IL_1S03_0011S030.35241Single bulged UA47-MERA6G8*C41U42cWWcWW
48 IL_5TBW_1255TBW0.30771Single bulged U1 LSU rRNAG3197G3199*C3193C3194cWWcWW
49 IL_5TBW_0505TBW0.27631Single bulged U1 LSU rRNAA1180A1182*U1324U1325cWWcWW
50 IL_4V88_4014V880.34021Single bulged UA6 SSU rRNAG279G281*C275C276cWWcWW
51 IL_5TBW_1305TBW0.29541Single bulged U1 LSU rRNAG3318A3320*U3387C3388ncWWcWW
52 IL_5TBW_0895TBW0.30452Bulged stacked bases1 LSU rRNAG2276C2277*G2307U2310cWWcWW
53 IL_5J7L_3185J7L0.21412Bulged stacked basesDA LSU rRNAG1933C1934*G1964C1967cWWcWW
54 IL_4IOA_0714IOA0.17922X LSU rRNAG1916C1917*G1947C1950cWWcWW
55 IL_5TBW_0035TBW0.20511Single bulged U1+4 LSU rRNA + 5.8S rRNAA13C15*G144U145cWWcWW
56 IL_4WF9_0384WF90.19921Single bulged UX LSU rRNAA1055A1057*U1193U1194cWWcWW
57 IL_2OIU_0032OIU0.26931Single bulged UQL1 Ribozyme RNA LigaseA41C42*G18U20cWWcWW
58 IL_2PJP_0012PJP0.27621Single bulged UBSECIS RNAA29C30*G16U18cWWcWW
59 IL_5TBW_0125TBW0.27241Single bulged U1 LSU rRNAA204C205*G189U191cWWcWW
60 IL_4V9F_0134V9F0.20871Single bulged U0 LSU rRNAG322C323*G307C309cWWcWW
61 IL_4V88_4144V880.26761Single bulged UA6 SSU rRNAG586C587*G557C559cWWcWW
62 IL_5TBW_1465TBW0.30821Single bulged U4 5.8S rRNAG68U69*A89C91cWWcWW
63 IL_4Y4O_2154Y4O0.36851Single bulged U2A LSU rRNAG1011C1013*G1149C1150cWWcWW
64 IL_5J7L_2795J7L0.37351Single bulged UDA LSU rRNAG1011C1013*G1149C1150cWWcWW
65 IL_5J7L_2985J7L0.43631Single bulged UDA LSU rRNAG1459C1461*G1450C1451cWWcWW
66 IL_4C7O_0014C7O0.41031Single bulged UESRP RNAG38A40*U7C8cWWcWW
67 IL_4WF9_0304WF90.40131Single bulged UX LSU rRNAA897U898*A969U971cWWcWW
68 IL_4O26_0014O260.38341Single bulged UETelomerase TRG193C194*G181C183cWWcWW
69 IL_6JQ6_0066JQ60.39701Single bulged UURNA (81-MER)G55U56*A38C40cWWcWW
70 IL_6JQ6_0036JQ60.39701Single bulged UURNA (81-MER)G55||||11_555U56||||11_555*A38||||11_555C40||||11_555cWWcWW
71 IL_6JQ5_0036JQ50.38711Single bulged UARNA (82-MER)G55U56*A38C40cWWcWW
72 IL_6JQ5_0066JQ50.40741Single bulged UBRNA (82-MER)G55U56*A38C40cWWcWW
73 IL_2A64_0022A640.36751Single bulged UAribonuclease P RNAG395C396*G51C53cWWcWW
74 IL_2R8S_0042R8S0.30741Single bulged URP4-P6 RNA RIBOZYME DOMAINA192C193*G129U131cWWcWW
75 IL_6MWN_0066MWN0.30051Single bulged UB IRESG646A647*U659C661cWWcWW
76 IL_5TBW_0255TBW0.18401Single bulged U1 LSU rRNAA755U756*A775U777cWWcWW

3D structures

Complete motif including flanking bases
SequenceCounts
CC*GUG12
GUG*CC8
GU*AUC5
CG*CUG4
CUG*CG4
AUG*CU4
AC*GUU4
GC*GUC4
GG*CUC3
GA*UUC3
GUC*GC3
GG*UUC2
UC*GUA2
AUA*UU2
GUA*UC2
GC*GCAC2
AU*AUU2
CC*GAAG1
CG*UUG1
CA*UUG1
AUCUG*CU1
GUG*UC1
UC*GUG1
UA*UUA1
GUU*AC1
GC*GCAU1
AUC*GU1
Non-Watson-Crick part of the motif
SequenceCounts
*U45
U*26
*CA3
*AA1
UCU*1

Release history

Release3.223.233.24
Date2019-08-232019-09-192019-10-16
StatusUpdated, 1 parentExact matchExact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.
Annotations
  • Single bulged U (68)
  • Major groove intercalation (3)
  • Multiple bulged bases (2)
  • Bulged stacked bases (2)
  • (1)
  • Basepair signature
    cWW-cWW
    Heat map statistics
    Min 0.05 | Avg 0.39 | Max 0.95
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