3D structure

PDB id
4D5Y (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state
Experimental method
ELECTRON MICROSCOPY
Resolution
9 Å

Loop

Sequence
GCGAAG*UGGAGGU
Length
13 nucleotides
Bulged bases
4D5Y|1|2|G|1556
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_4D5Y_043 not in the Motif Atlas
Geometric match to IL_4V88_462
Geometric discrepancy: 0.2777
The information below is about IL_4V88_462
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
IL_82488.1
Basepair signature
cWW-tSH-tSH-tHS-cWW-cWW
Number of instances in this motif group
7

Unit IDs

4D5Y|1|2|G|1529
4D5Y|1|2|C|1530
4D5Y|1|2|G|1531
4D5Y|1|2|A|1532
4D5Y|1|2|A|1533
4D5Y|1|2|G|1534
*
4D5Y|1|2|U|1551
4D5Y|1|2|G|1552
4D5Y|1|2|G|1553
4D5Y|1|2|A|1554
4D5Y|1|2|G|1555
4D5Y|1|2|G|1556
4D5Y|1|2|U|1557

Current chains

Chain 2
28S Ribosomal RNA

Nearby chains

Chain A
60S RIBOSOMAL PROTEIN UL2
Chain R
60S RIBOSOMAL PROTEIN UL19
Chain p
60S RIBOSOMAL PROTEIN EL43

Coloring options:


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