RNA 3D Hub //

Motif HL_32512.4 Version HL_32512.4 of this group appears in releases 3.33 to 3.45

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3 4 5 6 71-7
1 HL_6VMY_0036VMY0.50980Pseudoknot geometryACobalamin riboswitchG268U269C270C271C272G273C274cWW
2 HL_5U30_0025U300.46430Pseudoknot geometryBsgRNAU43U44U45C46C47A48G49cWW
3 HL_6MWN_0046MWN0.32170Pseudoknot geometryB IRESG650C651U652G653G654A655C656cWW
4 HL_2YGH_0012YGH0.14690Pseudoknot geometry (H)A SAM-I riboswitchG23A24C25U26G27G28C29cWW
5 HL_2YGH_0042YGH0.14690A SAM-I riboswitchG23||||8_554A24||||8_554C25||||8_554U26||||8_554G27||||8_554G28||||8_554C29||||8_554cWW
6 HL_5FJC_0015FJC0.14890Pseudoknot geometryA SAM-I riboswitchG23A24C25U26G27G28C29cWW
7 HL_4AOB_0014AOB0.00000Pseudoknot geometryA SAM-I riboswitchG23A24C25U26G27G28C29cWW
8 HL_4AOB_0044AOB0.00000A SAM-I riboswitchG23||||7_555A24||||7_555C25||||7_555U26||||7_555G27||||7_555G28||||7_555C29||||7_555cWW
9 HL_4KQY_0014KQY0.17880Pseudoknot geometryA SAM-I riboswitchG23A24C25U26G27G28C29cWW
10 HL_4KQY_0044KQY0.17880A SAM-I riboswitchG23||||4_555A24||||4_555C25||||4_555U26||||4_555G27||||4_555G28||||4_555C29||||4_555cWW
11 HL_3V7E_0013V7E0.25440Pseudoknot geometryC SAM-I riboswitchG23A24C25U26G27G28C29cWW
12 HL_3HHN_0093HHN0.45501Pseudoknot geometryEClass I ligase ribozyme, self-ligation productG75G77G78C79A80G81C82cWW
13 HL_3IVK_0043IVK0.46151Pseudoknot geometryMclass I ligase productG75G77G78C79A80G81C82cWW
14 HL_4OQU_0024OQU0.62032Pseudoknot geometryASAM-I/IV riboswitchG32C34G35G36A37C38C40cWW
15 HL_4WF9_0144WF90.56821Pseudoknot geometryX LSU rRNAG456A458C459C460A461U462C463cWW
16 HL_5J7L_1465J7L0.60701Pseudoknot geometryDA LSU rRNAG410A412C413C414A415U416C417cWW
17 HL_4Y4O_1164Y4O0.575712A LSU rRNAG410A412C413C414A415C416C417cWW
18 HL_4IOA_0134IOA0.62771Pseudoknot geometry (H)X LSU rRNAG423A425C426C427A428C429C430cWW

3D structures

Complete motif including flanking bases
SequenceCounts
GACUGGC8
GUGGCAGC2
GGACCAUC2
GGACCACC2
GUCCCGC1
UUUCCAG1
GCUGGAC1
GACGGACAC1
Non-Watson-Crick part of the motif
SequenceCounts
ACUGG8
UGGCAG2
GACCAU2
GACCAC2
UCCCG1
UUCCA1
CUGGA1
ACGGACA1

Release history

Release3.333.343.353.363.373.383.393.403.413.423.433.443.45
Date2020-06-242020-07-222020-08-192020-09-162020-10-142020-11-112020-12-092021-01-062021-02-032021-03-032021-03-312021-04-282021-05-26
StatusUpdated, 1 parentExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.
Annotations
  • Pseudoknot geometry (12)
  • (4)
  • Pseudoknot geometry (H) (2)
    • Basepair signature
    cWW-R-R-R-R
    Heat map statistics
    Min 0.08 | Avg 0.46 | Max 0.94
    Help

    Coloring options:

    HL_6VMY_003:HL_6VMY_003 = 0HL_6VMY_003:HL_5U30_002 = 0.6067HL_6VMY_003:HL_6MWN_004 = 0.5805HL_6VMY_003:HL_2YGH_001 = 0.5415HL_6VMY_003:HL_2YGH_004 = 0.5415HL_6VMY_003:HL_5FJC_001 = 0.5411HL_6VMY_003:HL_4AOB_001 = 0.5098HL_6VMY_003:HL_4AOB_004 = 0.5098HL_6VMY_003:HL_4KQY_001 = 0.5291HL_6VMY_003:HL_4KQY_004 = 0.5291HL_6VMY_003:HL_3V7E_001 = 0.5518HL_6VMY_003:HL_3HHN_009 = 0.7019HL_6VMY_003:HL_3IVK_004 = 0.7038HL_6VMY_003:HL_4OQU_002 = 0.8026HL_6VMY_003:HL_4WF9_014 = 0.8366HL_6VMY_003:HL_5J7L_146 = 0.884HL_6VMY_003:HL_4Y4O_116 = 0.8515HL_6VMY_003:HL_4IOA_013 = 0.9103HL_5U30_002:HL_6VMY_003 = 0.6067HL_5U30_002:HL_5U30_002 = 0HL_5U30_002:HL_6MWN_004 = 0.552HL_5U30_002:HL_2YGH_001 = 0.5267HL_5U30_002:HL_2YGH_004 = 0.5267HL_5U30_002:HL_5FJC_001 = 0.539HL_5U30_002:HL_4AOB_001 = 0.4643HL_5U30_002:HL_4AOB_004 = 0.4643HL_5U30_002:HL_4KQY_001 = 0.4927HL_5U30_002:HL_4KQY_004 = 0.4927HL_5U30_002:HL_3V7E_001 = 0.626HL_5U30_002:HL_3HHN_009 = 0.7891HL_5U30_002:HL_3IVK_004 = 0.787HL_5U30_002:HL_4OQU_002 = 0.8877HL_5U30_002:HL_4WF9_014 = 0.8828HL_5U30_002:HL_5J7L_146 = 0.9382HL_5U30_002:HL_4Y4O_116 = 0.9085HL_5U30_002:HL_4IOA_013 = 0.9321HL_6MWN_004:HL_6VMY_003 = 0.5805HL_6MWN_004:HL_5U30_002 = 0.552HL_6MWN_004:HL_6MWN_004 = 0HL_6MWN_004:HL_2YGH_001 = 0.2957HL_6MWN_004:HL_2YGH_004 = 0.2957HL_6MWN_004:HL_5FJC_001 = 0.3142HL_6MWN_004:HL_4AOB_001 = 0.3217HL_6MWN_004:HL_4AOB_004 = 0.3217HL_6MWN_004:HL_4KQY_001 = 0.386HL_6MWN_004:HL_4KQY_004 = 0.386HL_6MWN_004:HL_3V7E_001 = 0.4873HL_6MWN_004:HL_3HHN_009 = 0.682HL_6MWN_004:HL_3IVK_004 = 0.6872HL_6MWN_004:HL_4OQU_002 = 0.8378HL_6MWN_004:HL_4WF9_014 = 0.7393HL_6MWN_004:HL_5J7L_146 = 0.7705HL_6MWN_004:HL_4Y4O_116 = 0.7366HL_6MWN_004:HL_4IOA_013 = 0.8115HL_2YGH_001:HL_6VMY_003 = 0.5415HL_2YGH_001:HL_5U30_002 = 0.5267HL_2YGH_001:HL_6MWN_004 = 0.2957HL_2YGH_001:HL_2YGH_001 = 0HL_2YGH_001:HL_2YGH_004 = 0HL_2YGH_001:HL_5FJC_001 = 0.0835HL_2YGH_001:HL_4AOB_001 = 0.1469HL_2YGH_001:HL_4AOB_004 = 0.1469HL_2YGH_001:HL_4KQY_001 = 0.2755HL_2YGH_001:HL_4KQY_004 = 0.2755HL_2YGH_001:HL_3V7E_001 = 0.2713HL_2YGH_001:HL_3HHN_009 = 0.4507HL_2YGH_001:HL_3IVK_004 = 0.4583HL_2YGH_001:HL_4OQU_002 = 0.6443HL_2YGH_001:HL_4WF9_014 = 0.5326HL_2YGH_001:HL_5J7L_146 = 0.5619HL_2YGH_001:HL_4Y4O_116 = 0.525HL_2YGH_001:HL_4IOA_013 = 0.5933HL_2YGH_004:HL_6VMY_003 = 0.5415HL_2YGH_004:HL_5U30_002 = 0.5267HL_2YGH_004:HL_6MWN_004 = 0.2957HL_2YGH_004:HL_2YGH_001 = 0HL_2YGH_004:HL_2YGH_004 = 0HL_2YGH_004:HL_5FJC_001 = 0.0835HL_2YGH_004:HL_4AOB_001 = 0.1469HL_2YGH_004:HL_4AOB_004 = 0.1469HL_2YGH_004:HL_4KQY_001 = 0.2755HL_2YGH_004:HL_4KQY_004 = 0.2755HL_2YGH_004:HL_3V7E_001 = 0.2713HL_2YGH_004:HL_3HHN_009 = 0.4507HL_2YGH_004:HL_3IVK_004 = 0.4583HL_2YGH_004:HL_4OQU_002 = 0.6443HL_2YGH_004:HL_4WF9_014 = 0.5326HL_2YGH_004:HL_5J7L_146 = 0.5619HL_2YGH_004:HL_4Y4O_116 = 0.525HL_2YGH_004:HL_4IOA_013 = 0.5933HL_5FJC_001:HL_6VMY_003 = 0.5411HL_5FJC_001:HL_5U30_002 = 0.539HL_5FJC_001:HL_6MWN_004 = 0.3142HL_5FJC_001:HL_2YGH_001 = 0.0835HL_5FJC_001:HL_2YGH_004 = 0.0835HL_5FJC_001:HL_5FJC_001 = 0HL_5FJC_001:HL_4AOB_001 = 0.1489HL_5FJC_001:HL_4AOB_004 = 0.1489HL_5FJC_001:HL_4KQY_001 = 0.2541HL_5FJC_001:HL_4KQY_004 = 0.2541HL_5FJC_001:HL_3V7E_001 = 0.2471HL_5FJC_001:HL_3HHN_009 = 0.4535HL_5FJC_001:HL_3IVK_004 = 0.4661HL_5FJC_001:HL_4OQU_002 = 0.6422HL_5FJC_001:HL_4WF9_014 = 0.5096HL_5FJC_001:HL_5J7L_146 = 0.5422HL_5FJC_001:HL_4Y4O_116 = 0.5088HL_5FJC_001:HL_4IOA_013 = 0.5747HL_4AOB_001:HL_6VMY_003 = 0.5098HL_4AOB_001:HL_5U30_002 = 0.4643HL_4AOB_001:HL_6MWN_004 = 0.3217HL_4AOB_001:HL_2YGH_001 = 0.1469HL_4AOB_001:HL_2YGH_004 = 0.1469HL_4AOB_001:HL_5FJC_001 = 0.1489HL_4AOB_001:HL_4AOB_001 = 0HL_4AOB_001:HL_4AOB_004 = 0HL_4AOB_001:HL_4KQY_001 = 0.1788HL_4AOB_001:HL_4KQY_004 = 0.1788HL_4AOB_001:HL_3V7E_001 = 0.2544HL_4AOB_001:HL_3HHN_009 = 0.455HL_4AOB_001:HL_3IVK_004 = 0.4615HL_4AOB_001:HL_4OQU_002 = 0.6203HL_4AOB_001:HL_4WF9_014 = 0.5682HL_4AOB_001:HL_5J7L_146 = 0.607HL_4AOB_001:HL_4Y4O_116 = 0.5757HL_4AOB_001:HL_4IOA_013 = 0.6277HL_4AOB_004:HL_6VMY_003 = 0.5098HL_4AOB_004:HL_5U30_002 = 0.4643HL_4AOB_004:HL_6MWN_004 = 0.3217HL_4AOB_004:HL_2YGH_001 = 0.1469HL_4AOB_004:HL_2YGH_004 = 0.1469HL_4AOB_004:HL_5FJC_001 = 0.1489HL_4AOB_004:HL_4AOB_001 = 0HL_4AOB_004:HL_4AOB_004 = 0HL_4AOB_004:HL_4KQY_001 = 0.1788HL_4AOB_004:HL_4KQY_004 = 0.1788HL_4AOB_004:HL_3V7E_001 = 0.2544HL_4AOB_004:HL_3HHN_009 = 0.455HL_4AOB_004:HL_3IVK_004 = 0.4615HL_4AOB_004:HL_4OQU_002 = 0.6203HL_4AOB_004:HL_4WF9_014 = 0.5682HL_4AOB_004:HL_5J7L_146 = 0.607HL_4AOB_004:HL_4Y4O_116 = 0.5757HL_4AOB_004:HL_4IOA_013 = 0.6277HL_4KQY_001:HL_6VMY_003 = 0.5291HL_4KQY_001:HL_5U30_002 = 0.4927HL_4KQY_001:HL_6MWN_004 = 0.386HL_4KQY_001:HL_2YGH_001 = 0.2755HL_4KQY_001:HL_2YGH_004 = 0.2755HL_4KQY_001:HL_5FJC_001 = 0.2541HL_4KQY_001:HL_4AOB_001 = 0.1788HL_4KQY_001:HL_4AOB_004 = 0.1788HL_4KQY_001:HL_4KQY_001 = 0HL_4KQY_001:HL_4KQY_004 = 0HL_4KQY_001:HL_3V7E_001 = 0.2993HL_4KQY_001:HL_3HHN_009 = 0.4849HL_4KQY_001:HL_3IVK_004 = 0.5134HL_4KQY_001:HL_4OQU_002 = 0.6599HL_4KQY_001:HL_4WF9_014 = 0.6HL_4KQY_001:HL_5J7L_146 = 0.6394HL_4KQY_001:HL_4Y4O_116 = 0.6198HL_4KQY_001:HL_4IOA_013 = 0.6703HL_4KQY_004:HL_6VMY_003 = 0.5291HL_4KQY_004:HL_5U30_002 = 0.4927HL_4KQY_004:HL_6MWN_004 = 0.386HL_4KQY_004:HL_2YGH_001 = 0.2755HL_4KQY_004:HL_2YGH_004 = 0.2755HL_4KQY_004:HL_5FJC_001 = 0.2541HL_4KQY_004:HL_4AOB_001 = 0.1788HL_4KQY_004:HL_4AOB_004 = 0.1788HL_4KQY_004:HL_4KQY_001 = 0HL_4KQY_004:HL_4KQY_004 = 0HL_4KQY_004:HL_3V7E_001 = 0.2993HL_4KQY_004:HL_3HHN_009 = 0.4849HL_4KQY_004:HL_3IVK_004 = 0.5134HL_4KQY_004:HL_4OQU_002 = 0.6599HL_4KQY_004:HL_4WF9_014 = 0.6HL_4KQY_004:HL_5J7L_146 = 0.6394HL_4KQY_004:HL_4Y4O_116 = 0.6198HL_4KQY_004:HL_4IOA_013 = 0.6703HL_3V7E_001:HL_6VMY_003 = 0.5518HL_3V7E_001:HL_5U30_002 = 0.626HL_3V7E_001:HL_6MWN_004 = 0.4873HL_3V7E_001:HL_2YGH_001 = 0.2713HL_3V7E_001:HL_2YGH_004 = 0.2713HL_3V7E_001:HL_5FJC_001 = 0.2471HL_3V7E_001:HL_4AOB_001 = 0.2544HL_3V7E_001:HL_4AOB_004 = 0.2544HL_3V7E_001:HL_4KQY_001 = 0.2993HL_3V7E_001:HL_4KQY_004 = 0.2993HL_3V7E_001:HL_3V7E_001 = 0HL_3V7E_001:HL_3HHN_009 = 0.4078HL_3V7E_001:HL_3IVK_004 = 0.4277HL_3V7E_001:HL_4OQU_002 = 0.6146HL_3V7E_001:HL_4WF9_014 = 0.5683HL_3V7E_001:HL_5J7L_146 = 0.5913HL_3V7E_001:HL_4Y4O_116 = 0.5664HL_3V7E_001:HL_4IOA_013 = 0.6125HL_3HHN_009:HL_6VMY_003 = 0.7019HL_3HHN_009:HL_5U30_002 = 0.7891HL_3HHN_009:HL_6MWN_004 = 0.682HL_3HHN_009:HL_2YGH_001 = 0.4507HL_3HHN_009:HL_2YGH_004 = 0.4507HL_3HHN_009:HL_5FJC_001 = 0.4535HL_3HHN_009:HL_4AOB_001 = 0.455HL_3HHN_009:HL_4AOB_004 = 0.455HL_3HHN_009:HL_4KQY_001 = 0.4849HL_3HHN_009:HL_4KQY_004 = 0.4849HL_3HHN_009:HL_3V7E_001 = 0.4078HL_3HHN_009:HL_3HHN_009 = 0HL_3HHN_009:HL_3IVK_004 = 0.0999HL_3HHN_009:HL_4OQU_002 = 0.4678HL_3HHN_009:HL_4WF9_014 = 0.5114HL_3HHN_009:HL_5J7L_146 = 0.5051HL_3HHN_009:HL_4Y4O_116 = 0.473HL_3HHN_009:HL_4IOA_013 = 0.525HL_3IVK_004:HL_6VMY_003 = 0.7038HL_3IVK_004:HL_5U30_002 = 0.787HL_3IVK_004:HL_6MWN_004 = 0.6872HL_3IVK_004:HL_2YGH_001 = 0.4583HL_3IVK_004:HL_2YGH_004 = 0.4583HL_3IVK_004:HL_5FJC_001 = 0.4661HL_3IVK_004:HL_4AOB_001 = 0.4615HL_3IVK_004:HL_4AOB_004 = 0.4615HL_3IVK_004:HL_4KQY_001 = 0.5134HL_3IVK_004:HL_4KQY_004 = 0.5134HL_3IVK_004:HL_3V7E_001 = 0.4277HL_3IVK_004:HL_3HHN_009 = 0.0999HL_3IVK_004:HL_3IVK_004 = 0HL_3IVK_004:HL_4OQU_002 = 0.4505HL_3IVK_004:HL_4WF9_014 = 0.5257HL_3IVK_004:HL_5J7L_146 = 0.5246HL_3IVK_004:HL_4Y4O_116 = 0.4868HL_3IVK_004:HL_4IOA_013 = 0.5337HL_4OQU_002:HL_6VMY_003 = 0.8026HL_4OQU_002:HL_5U30_002 = 0.8877HL_4OQU_002:HL_6MWN_004 = 0.8378HL_4OQU_002:HL_2YGH_001 = 0.6443HL_4OQU_002:HL_2YGH_004 = 0.6443HL_4OQU_002:HL_5FJC_001 = 0.6422HL_4OQU_002:HL_4AOB_001 = 0.6203HL_4OQU_002:HL_4AOB_004 = 0.6203HL_4OQU_002:HL_4KQY_001 = 0.6599HL_4OQU_002:HL_4KQY_004 = 0.6599HL_4OQU_002:HL_3V7E_001 = 0.6146HL_4OQU_002:HL_3HHN_009 = 0.4678HL_4OQU_002:HL_3IVK_004 = 0.4505HL_4OQU_002:HL_4OQU_002 = 0HL_4OQU_002:HL_4WF9_014 = 0.5577HL_4OQU_002:HL_5J7L_146 = 0.5736HL_4OQU_002:HL_4Y4O_116 = 0.5527HL_4OQU_002:HL_4IOA_013 = 0.5659HL_4WF9_014:HL_6VMY_003 = 0.8366HL_4WF9_014:HL_5U30_002 = 0.8828HL_4WF9_014:HL_6MWN_004 = 0.7393HL_4WF9_014:HL_2YGH_001 = 0.5326HL_4WF9_014:HL_2YGH_004 = 0.5326HL_4WF9_014:HL_5FJC_001 = 0.5096HL_4WF9_014:HL_4AOB_001 = 0.5682HL_4WF9_014:HL_4AOB_004 = 0.5682HL_4WF9_014:HL_4KQY_001 = 0.6HL_4WF9_014:HL_4KQY_004 = 0.6HL_4WF9_014:HL_3V7E_001 = 0.5683HL_4WF9_014:HL_3HHN_009 = 0.5114HL_4WF9_014:HL_3IVK_004 = 0.5257HL_4WF9_014:HL_4OQU_002 = 0.5577HL_4WF9_014:HL_4WF9_014 = 0HL_4WF9_014:HL_5J7L_146 = 0.1127HL_4WF9_014:HL_4Y4O_116 = 0.1396HL_4WF9_014:HL_4IOA_013 = 0.1681HL_5J7L_146:HL_6VMY_003 = 0.884HL_5J7L_146:HL_5U30_002 = 0.9382HL_5J7L_146:HL_6MWN_004 = 0.7705HL_5J7L_146:HL_2YGH_001 = 0.5619HL_5J7L_146:HL_2YGH_004 = 0.5619HL_5J7L_146:HL_5FJC_001 = 0.5422HL_5J7L_146:HL_4AOB_001 = 0.607HL_5J7L_146:HL_4AOB_004 = 0.607HL_5J7L_146:HL_4KQY_001 = 0.6394HL_5J7L_146:HL_4KQY_004 = 0.6394HL_5J7L_146:HL_3V7E_001 = 0.5913HL_5J7L_146:HL_3HHN_009 = 0.5051HL_5J7L_146:HL_3IVK_004 = 0.5246HL_5J7L_146:HL_4OQU_002 = 0.5736HL_5J7L_146:HL_4WF9_014 = 0.1127HL_5J7L_146:HL_5J7L_146 = 0HL_5J7L_146:HL_4Y4O_116 = 0.0797HL_5J7L_146:HL_4IOA_013 = 0.1362HL_4Y4O_116:HL_6VMY_003 = 0.8515HL_4Y4O_116:HL_5U30_002 = 0.9085HL_4Y4O_116:HL_6MWN_004 = 0.7366HL_4Y4O_116:HL_2YGH_001 = 0.525HL_4Y4O_116:HL_2YGH_004 = 0.525HL_4Y4O_116:HL_5FJC_001 = 0.5088HL_4Y4O_116:HL_4AOB_001 = 0.5757HL_4Y4O_116:HL_4AOB_004 = 0.5757HL_4Y4O_116:HL_4KQY_001 = 0.6198HL_4Y4O_116:HL_4KQY_004 = 0.6198HL_4Y4O_116:HL_3V7E_001 = 0.5664HL_4Y4O_116:HL_3HHN_009 = 0.473HL_4Y4O_116:HL_3IVK_004 = 0.4868HL_4Y4O_116:HL_4OQU_002 = 0.5527HL_4Y4O_116:HL_4WF9_014 = 0.1396HL_4Y4O_116:HL_5J7L_146 = 0.0797HL_4Y4O_116:HL_4Y4O_116 = 0HL_4Y4O_116:HL_4IOA_013 = 0.1422HL_4IOA_013:HL_6VMY_003 = 0.9103HL_4IOA_013:HL_5U30_002 = 0.9321HL_4IOA_013:HL_6MWN_004 = 0.8115HL_4IOA_013:HL_2YGH_001 = 0.5933HL_4IOA_013:HL_2YGH_004 = 0.5933HL_4IOA_013:HL_5FJC_001 = 0.5747HL_4IOA_013:HL_4AOB_001 = 0.6277HL_4IOA_013:HL_4AOB_004 = 0.6277HL_4IOA_013:HL_4KQY_001 = 0.6703HL_4IOA_013:HL_4KQY_004 = 0.6703HL_4IOA_013:HL_3V7E_001 = 0.6125HL_4IOA_013:HL_3HHN_009 = 0.525HL_4IOA_013:HL_3IVK_004 = 0.5337HL_4IOA_013:HL_4OQU_002 = 0.5659HL_4IOA_013:HL_4WF9_014 = 0.1681HL_4IOA_013:HL_5J7L_146 = 0.1362HL_4IOA_013:HL_4Y4O_116 = 0.1422HL_4IOA_013:HL_4IOA_013 = 0HL_6VMY_003HL_5U30_002HL_6MWN_004HL_2YGH_001HL_2YGH_004HL_5FJC_001HL_4AOB_001HL_4AOB_004HL_4KQY_001HL_4KQY_004HL_3V7E_001HL_3HHN_009HL_3IVK_004HL_4OQU_002HL_4WF9_014HL_5J7L_146HL_4Y4O_116HL_4IOA_013Discrepancy0.000.200.400.600.80
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