3D structure

PDB id
5LYB (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn
Experimental method
X-RAY DIFFRACTION
Resolution
3.25 Å

Loop

Sequence
UGAAU*GAAUUCCGUGAA
Length
17 nucleotides
Bulged bases
5LYB|1|4|U|81, 5LYB|1|4|C|84, 5LYB|1|4|U|86
QA status
Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.
R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.
R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.
R3DMCS Rfam
IL_5LYB_232 not in the Motif Atlas
Geometric match to IL_5TBW_147
Geometric discrepancy: 0.0878
The information below is about IL_5TBW_147
Detailed Annotation
Kink-turn related
Broad Annotation
No text annotation
Motif group
IL_39287.1
Basepair signature
cWW-L-R-L-tSH-tSS-L-tHS-cWW-L-L
Number of instances in this motif group
1

Unit IDs

5LYB|1|4|U|69
5LYB|1|4|G|70
5LYB|1|4|A|71
5LYB|1|4|A|72
5LYB|1|4|U|73
*
5LYB|1|4|G|78
5LYB|1|4|A|79
5LYB|1|4|A|80
5LYB|1|4|U|81
5LYB|1|4|U|82
5LYB|1|4|C|83
5LYB|1|4|C|84
5LYB|1|4|G|85
5LYB|1|4|U|86
5LYB|1|4|G|87
5LYB|1|4|A|88
5LYB|1|4|A|89

Current chains

Chain 4
5.8S rRNA

Nearby chains

Chain 1
Large subunit ribosomal RNA; LSU rRNA
Chain 8
5.8S ribosomal RNA; 5.8S rRNA
Chain N6
60S ribosomal protein L26-A
Chain O5
60S ribosomal protein L35-A
Chain O7
60S ribosomal protein L37-A
Chain o5
60S ribosomal protein L35-A

Coloring options:


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