IL_4D5Y_104

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

GA*UACC

Length

6 nucleotides

Bulged bases

4D5Y|1|2|A|4345

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_104 not in the Motif Atlas

Geometric match to IL_5TBW_094

Geometric discrepancy: 0.1588

The information below is about IL_5TBW_094

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_18604.1

Basepair signature

cWW-tSH-L-R-tHH-tHS-cWW

Number of instances in this motif group

46

Unit IDs

4D5Y|1|2|G|3885
4D5Y|1|2|A|3886
*
4D5Y|1|2|U|4344
4D5Y|1|2|A|4345
4D5Y|1|2|C|4346
4D5Y|1|2|C|4347

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain A

60S RIBOSOMAL PROTEIN UL2