IL_4D5Y_100

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

CCAAAUGCCUCG*CGCG

Length

16 nucleotides

Bulged bases

4D5Y|1|2|A|3754, 4D5Y|1|2|C|3760, 4D5Y|1|2|C|3779

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_100 not in the Motif Atlas

Geometric match to IL_5TBW_090

Geometric discrepancy: 0.3201

The information below is about IL_5TBW_090

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_66080.1

Basepair signature

cWW-cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

4D5Y|1|2|C|3750
4D5Y|1|2|C|3751
4D5Y|1|2|A|3752
4D5Y|1|2|A|3753
4D5Y|1|2|A|3754
4D5Y|1|2|U|3755
4D5Y|1|2|G|3756
4D5Y|1|2|C|3757
4D5Y|1|2|C|3758
4D5Y|1|2|U|3759
4D5Y|1|2|C|3760
4D5Y|1|2|G|3761
*
4D5Y|1|2|C|3777
4D5Y|1|2|G|3778
4D5Y|1|2|C|3779
4D5Y|1|2|G|3780

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain n

60S RIBOSOMAL PROTEIN EL41