HL_4D5Y_052

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

GGGAACGGGC

Length

10 nucleotides

Bulged bases

4D5Y|1|2|A|3845, 4D5Y|1|2|A|3846, 4D5Y|1|2|C|3847

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_052 not in the Motif Atlas

Homologous match to HL_8C3A_051

Geometric discrepancy: 0.171

The information below is about HL_8C3A_051

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_90642.8

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

7

Unit IDs

4D5Y|1|2|G|3842
4D5Y|1|2|G|3843
4D5Y|1|2|G|3844
4D5Y|1|2|A|3845
4D5Y|1|2|A|3846
4D5Y|1|2|C|3847
4D5Y|1|2|G|3848
4D5Y|1|2|G|3849
4D5Y|1|2|G|3850
4D5Y|1|2|C|3851

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain B

60S RIBOSOMAL PROTEIN UL3

Chain e

60S RIBOSOMAL PROTEIN EL32

Chain f

60S RIBOSOMAL PROTEIN EL33