IL_4D61_036

3D structure

PDB id

4D61 (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

AG*CAUU

Length

6 nucleotides

Bulged bases

None detected

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_4D61_036 not in the Motif Atlas

Geometric match to IL_4V88_428

Geometric discrepancy: 0.2166

The information below is about IL_4V88_428

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

No text annotation

Motif group

IL_50694.4

Basepair signature

cWW-cWW-tSH-cWW-R

Number of instances in this motif group

28

Unit IDs

4D61|1|1|A|922
4D61|1|1|G|923
*
4D61|1|1|C|1019
4D61|1|1|A|1020
4D61|1|1|U|1021
4D61|1|1|U|1022

Current chains

Chain 1

18S RRNA

Nearby chains

Chain N

40S RIBOSOMAL PROTEIN S13

Chain W

40S RIBOSOMAL PROTEIN S15A

Chain b

40S RIBOSOMAL PROTEIN S27