HL_4D5Y_025

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

CUGGCGUG

Length

8 nucleotides

Bulged bases

4D5Y|1|2|G|1800

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

HL_4D5Y_025 not in the Motif Atlas

Homologous match to HL_8C3A_024

Geometric discrepancy: 0.3726

The information below is about HL_8C3A_024

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_77436.2

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

23

Unit IDs

4D5Y|1|2|C|1795
4D5Y|1|2|U|1796
4D5Y|1|2|G|1797
4D5Y|1|2|G|1798
4D5Y|1|2|C|1799
4D5Y|1|2|G|1800
4D5Y|1|2|U|1801
4D5Y|1|2|G|1802

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain D

60S RIBOSOMAL PROTEIN UL18

Chain T

60S RIBOSOMAL PROTEIN EL21

Chain b

60S RIBOSOMAL PROTEIN EL29