RNA 3D Hub

JAR3D Query RF01714-3.98 completed
Run on Motif Atlas Version 3.98 using the Rfam secondary structure. Run with the CaCoFold secondary structure.

RF01714 Ocean-V RNA

Input Summary

      0000000001111111111222222222233333333334444444444555555555566666666667777
1234567890123456789012345678901234567890123456789012345678901234567890123
.........(((((((......))))))).............((((................)))).......
>ABEF01002814.1/681-753
AUAUUUUAUGACUUCAUUCAAUUGAAGUCCUCAAAGUGAGUACGUCGUAAGAUCGAAGCGCUGACGGAAAACU
>ABEF01002040.1/258-187
ACUCUUUUUGGUUUCAUUCAGUUGAAACCCUCA-AGCGAGUACGCCGUAAGACGCAAGCGCAGGCGGAAAACU
>ABEF01025170.1/751-680
ACUCUUUUUGAUUUCAUUCAGUUGAAAUCCUCA-CGCAAGUACGCCGUAAGACGCAAGCACAGGCGGAAAGCU

There are no chains in PDB that we map to Rfam family RF01714.

Jump to results for:

  • Loop 1HL Column numbers: 16-23
  • Loop 2HL Column numbers: 46-63

Loop 1 Hairpin loop

Column numbers: 16-23 
    Scored sequences and counts

    
    AUUCAGUU    2

    
    AUUCAAUU    1
Click on headings to reorder table - View All Results for this Loop
# Matching motif group Acceptance Rate Mean Cutoff Score Full Edit Distance Interior Edit Distance Basepair Diagram and most common annotation
1

Motif group HL_77436.5

Basepair signature:
cWW-F-F-F-F-F

100.00 50.45 1 1

T-loop related

2

Motif group HL_97917.2

Basepair signature:
cWW-F-F-F-F

100.00 41.31 4 2

3

Motif group HL_20167.2

Basepair signature:
cWW-F-F-F-F-F-F

100.00 35.53 4 2

4

Motif group HL_20535.2

Basepair signature:
cWW-F-F-F-F

100.00 34.91 4 2

5

Motif group HL_25967.2

Basepair signature:
cWW-cWW-F-F-F

100.00 26.38 4 2

6

Motif group HL_50318.1

Basepair signature:
cWW-cSH-F-F

100.00 13.26 5 3

7

Motif group HL_28252.8

Basepair signature:
cWW-tWH-F-F-F-F-F

100.00 9.87 3 1

T-loop with 2 stacked bulged bases

8

Motif group HL_27670.2

Basepair signature:
cWW-tWH-F-F

66.67 7.07 4 2

T-loop with unstacked turn

9

Motif group HL_21372.1

Basepair signature:
cWW-F-cSH-F-F

66.67 4.73 3 2

10

Motif group HL_66103.1

Basepair signature:
cWW-F-F

66.67 0.57 3 1

Loop 2 Hairpin loop

Column numbers: 46-63 
    Scored sequences and counts

    
    CGUAAGACGCAAGCACAG    1

    
    CGUAAGACGCAAGCGCAG    1

    
    CGUAAGAUCGAAGCGCUG    1
No Matches Found View All Results for this Loop

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