3D structure

PDB id
8YLD (explore in PDB, NAKB, or RNA 3D Hub)
Description
State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation
Experimental method
ELECTRON MICROSCOPY
Resolution
3.9 Å

Loop

Sequence
GUGAAAU*ACGGAUC
Length
14 nucleotides
Bulged bases
None detected
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_8YLD_102 not in the Motif Atlas
Homologous match to IL_8C3A_016
Geometric discrepancy: 0.2485
The information below is about IL_8C3A_016
Detailed Annotation
Triple sheared with non-canonical cWW
Broad Annotation
Triple sheared
Motif group
IL_66414.7
Basepair signature
cWW-L-R-tSH-tSH-tHS-cWW-cWW
Number of instances in this motif group
7

Unit IDs

8YLD|1|A|G|404
8YLD|1|A|U|405
8YLD|1|A|G|406
8YLD|1|A|A|407
8YLD|1|A|A|408
8YLD|1|A|A|409
8YLD|1|A|U|410
*
8YLD|1|C|A|13
8YLD|1|C|C|14
8YLD|1|C|G|15
8YLD|1|C|G|16
8YLD|1|C|A|17
8YLD|1|C|U|18
8YLD|1|C|C|19

Current chains

Chain A
25S rRNA
Chain C
5.8S rRNA

Nearby chains

Chain F
Large ribosomal subunit protein uL4A
Chain R
Large ribosomal subunit protein uL22A
Chain g
Large ribosomal subunit protein eL32

Coloring options:


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