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
ACCGAGUAG*CGAAACU
Length
16 nucleotides
Bulged bases
8YLD|1|B|C|73
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_222 not in the Motif Atlas
Homologous match to IL_8P9A_369
Geometric discrepancy: 0.146
The information below is about IL_8P9A_369
Detailed Annotation
8x7 Sarcin-Ricin; G-bulge
Broad Annotation
Sarcin-Ricin; G-bulge
Motif group
IL_04346.10
Basepair signature
cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW
Number of instances in this motif group
15

Unit IDs

8YLD|1|B|A|72
8YLD|1|B|C|73
8YLD|1|B|C|74
8YLD|1|B|G|75
8YLD|1|B|A|76
8YLD|1|B|G|77
8YLD|1|B|U|78
8YLD|1|B|A|79
8YLD|1|B|G|80
*
8YLD|1|B|C|100
8YLD|1|B|G|101
8YLD|1|B|A|102
8YLD|1|B|A|103
8YLD|1|B|A|104
8YLD|1|B|C|105
8YLD|1|B|U|106

Current chains

Chain B
5S rRNA

Nearby chains

Chain A
Large subunit ribosomal RNA; LSU rRNA
Chain I
Large ribosomal subunit protein uL30A
Chain L
Large ribosomal subunit protein uL16
Chain U
Large ribosomal subunit protein eL20A

Coloring options:


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