IL_4D5Y_121

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

CUC*GUGAG

Length

8 nucleotides

Bulged bases

4D5Y|1|2|G|4482, 4D5Y|1|2|A|4483

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_121 not in the Motif Atlas

Geometric match to IL_5TBW_108

Geometric discrepancy: 0.1981

The information below is about IL_5TBW_108

Detailed Annotation

Isolated non-canonical cWW with bulges

Broad Annotation

Isolated non-canonical cWW with bulges

Motif group

IL_54650.3

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

16

Unit IDs

4D5Y|1|2|C|4416
4D5Y|1|2|U|4417
4D5Y|1|2|C|4418
*
4D5Y|1|2|G|4480
4D5Y|1|2|U|4481
4D5Y|1|2|G|4482
4D5Y|1|2|A|4483
4D5Y|1|2|G|4484

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain B

60S RIBOSOMAL PROTEIN UL3

Chain V

60S RIBOSOMAL PROTEIN UL14