IL_4D5Y_054

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

AUUA*UUCU

Length

8 nucleotides

Bulged bases

None detected

QA status

Unknown status

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_054 not in the Motif Atlas

Homologous match to IL_5TBW_041

Geometric discrepancy: 0.2368

The information below is about IL_5TBW_041

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_36174.1

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

15

Unit IDs

4D5Y|1|2|A|1725
4D5Y|1|2|U|1726
4D5Y|1|2|U|1727
4D5Y|1|2|A|1728
*
4D5Y|1|2|U|1760
4D5Y|1|2|U|1761
4D5Y|1|2|C|1762
4D5Y|1|2|U|1763

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain 4

5S ribosomal RNA; 5S rRNA

Chain D

60S RIBOSOMAL PROTEIN UL18

Chain I

60S RIBOSOMAL PROTEIN UL16