IL_4D67_064

3D structure

PDB id

4D67 (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

GACCCCAGAAAA*UGAAAAUGGAUGGCGC

Length

28 nucleotides

Bulged bases

4D67|1|2|C|1913, 4D67|1|2|A|2019

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_4D67_064 not in the Motif Atlas

Geometric match to IL_5TBW_052

Geometric discrepancy: 0.2327

The information below is about IL_5TBW_052

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_53762.1

Basepair signature

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

Number of instances in this motif group

2

Unit IDs

4D67|1|2|G|1911
4D67|1|2|A|1912
4D67|1|2|C|1913
4D67|1|2|C|1914
4D67|1|2|C|1915
4D67|1|2|C|1916
4D67|1|2|A|1917
4D67|1|2|G|1918
4D67|1|2|A|1919
4D67|1|2|A|1920
4D67|1|2|A|1921
4D67|1|2|A|1922
*
4D67|1|2|U|2016
4D67|1|2|G|2017
4D67|1|2|A|2018
4D67|1|2|A|2019
4D67|1|2|A|2020
4D67|1|2|A|2021
4D67|1|2|U|2022
4D67|1|2|G|2023
4D67|1|2|G|2024
4D67|1|2|A|2025
4D67|1|2|U|2026
4D67|1|2|G|2027
4D67|1|2|G|2028
4D67|1|2|C|2029
4D67|1|2|G|2030
4D67|1|2|C|2031

Current chains

Chain 2

28S RRNA

Nearby chains

Chain 4

5S ribosomal RNA; 5S rRNA

Chain B

60S RIBOSOMAL PROTEIN L3

Chain I

60S RIBOSOMAL PROTEIN L10

Chain O

60S RIBOSOMAL PROTEIN L13A

Chain f

60S RIBOSOMAL PROTEIN L35A

Chain m

UBIQUITIN-60S RIBOSOMAL PROTEIN L40