J3_4D5L_001

3D structure

PDB id

4D5L (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*CGCAAAU*AGU

Length

12 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

J3_4D5L_001 not in the Motif Atlas

Homologous match to J3_8P9A_068

Geometric discrepancy: 0.1847

The information below is about J3_8P9A_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_67856.4

Basepair signature

cWW-cWW-cSW-cWW-F-F-F-F

Number of instances in this motif group

4

Unit IDs

4D5L|1|1|A|40
4D5L|1|1|G|41
*
4D5L|1|1|C|481
4D5L|1|1|G|482
4D5L|1|1|C|483
4D5L|1|1|A|484
4D5L|1|1|A|485
4D5L|1|1|A|486
4D5L|1|1|U|487
*
4D5L|1|1|A|512
4D5L|1|1|G|513
4D5L|1|1|U|514

Current chains

Chain 1

18S RRNA 2

Nearby chains

Chain J

40S RIBOSOMAL PROTEIN US4

Chain X

40S RIBOSOMAL PROTEIN US12