IL_4D5Y_122

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

CU*AACG

Length

6 nucleotides

Bulged bases

4D5Y|1|2|A|4478, 4D5Y|1|2|C|4479

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_122 not in the Motif Atlas

Homologous match to IL_8C3A_117

Geometric discrepancy: 0.221

The information below is about IL_8C3A_117

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_24807.2

Basepair signature

cWW-cWW

Number of instances in this motif group

16

Unit IDs

4D5Y|1|2|C|4418
4D5Y|1|2|U|4419
*
4D5Y|1|2|A|4477
4D5Y|1|2|A|4478
4D5Y|1|2|C|4479
4D5Y|1|2|G|4480

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain B

60S RIBOSOMAL PROTEIN UL3

Chain V

60S RIBOSOMAL PROTEIN UL14