IL_4D5Y_133

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

GAUUAU*AGAAUC

Length

12 nucleotides

Bulged bases

4D5Y|1|2|A|4668

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_133 not in the Motif Atlas

Geometric match to IL_5J7L_350

Geometric discrepancy: 0.2307

The information below is about IL_5J7L_350

Detailed Annotation

UAA/GAN with extra cWW

Broad Annotation

No text annotation

Motif group

IL_49767.8

Basepair signature

cWW-cWW-tWH-L-tHS-cWW

Number of instances in this motif group

6

Unit IDs

4D5Y|1|2|G|4640
4D5Y|1|2|A|4641
4D5Y|1|2|U|4642
4D5Y|1|2|U|4643
4D5Y|1|2|A|4644
4D5Y|1|2|U|4645
*
4D5Y|1|2|A|4665
4D5Y|1|2|G|4666
4D5Y|1|2|A|4667
4D5Y|1|2|A|4668
4D5Y|1|2|U|4669
4D5Y|1|2|C|4670

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain H

60S RIBOSOMAL PROTEIN UL6

Chain O

60S RIBOSOMAL PROTEIN UL13

Chain m

60S RIBOSOMAL PROTEIN EL40