HL_4D5Y_047

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

UUUAAUUAAAA

Length

11 nucleotides

Bulged bases

4D5Y|1|2|A|3611, 4D5Y|1|2|A|3612, 4D5Y|1|2|U|3613, 4D5Y|1|2|A|3617

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_047 not in the Motif Atlas

Homologous match to HL_5TBW_046

Geometric discrepancy: 0.2311

The information below is about HL_5TBW_046

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_43613.6

Basepair signature

cWW-tWH-tWH-F

Number of instances in this motif group

6

Unit IDs

4D5Y|1|2|U|3608
4D5Y|1|2|U|3609
4D5Y|1|2|U|3610
4D5Y|1|2|A|3611
4D5Y|1|2|A|3612
4D5Y|1|2|U|3613
4D5Y|1|2|U|3614
4D5Y|1|2|A|3615
4D5Y|1|2|A|3616
4D5Y|1|2|A|3617
4D5Y|1|2|A|3618

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain A

60S RIBOSOMAL PROTEIN UL2

Chain j

60S RIBOSOMAL PROTEIN EL37