HL_4D5Y_068

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

CUGAACGCCUCUAAG

Length

15 nucleotides

Bulged bases

4D5Y|1|2|G|4654

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_068 not in the Motif Atlas

Homologous match to HL_5TBW_067

Geometric discrepancy: 0.2112

The information below is about HL_5TBW_067

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_56677.9

Basepair signature

cWW-tWH-cWH-tSH-tHW-tHW-tSW

Number of instances in this motif group

7

Unit IDs

4D5Y|1|2|C|4648
4D5Y|1|2|U|4649
4D5Y|1|2|G|4650
4D5Y|1|2|A|4651
4D5Y|1|2|A|4652
4D5Y|1|2|C|4653
4D5Y|1|2|G|4654
4D5Y|1|2|C|4655
4D5Y|1|2|C|4656
4D5Y|1|2|U|4657
4D5Y|1|2|C|4658
4D5Y|1|2|U|4659
4D5Y|1|2|A|4660
4D5Y|1|2|A|4661
4D5Y|1|2|G|4662

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain H

60S RIBOSOMAL PROTEIN UL6

Chain O

60S RIBOSOMAL PROTEIN UL13

Chain m

60S RIBOSOMAL PROTEIN EL40