IL_4D5Y_110

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

GUGAGGCGGG*CCCGCUC

Length

17 nucleotides

Bulged bases

4D5Y|1|2|G|4052, 4D5Y|1|2|G|4054, 4D5Y|1|2|G|4055, 4D5Y|1|2|C|4122, 4D5Y|1|2|U|4123

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

4D5Y|1|2|G|4050
4D5Y|1|2|U|4051
4D5Y|1|2|G|4052
4D5Y|1|2|A|4053
4D5Y|1|2|G|4054
4D5Y|1|2|G|4055
4D5Y|1|2|C|4056
4D5Y|1|2|G|4057
4D5Y|1|2|G|4058
4D5Y|1|2|G|4059
*
4D5Y|1|2|C|4118
4D5Y|1|2|C|4119
4D5Y|1|2|C|4120
4D5Y|1|2|G|4121
4D5Y|1|2|C|4122
4D5Y|1|2|U|4123
4D5Y|1|2|C|4124

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain 3

5.8S ribosomal RNA; 5.8S rRNA

Chain A

60S RIBOSOMAL PROTEIN UL2

Chain G

60S RIBOSOMAL PROTEIN EL8

Chain X

60S RIBOSOMAL PROTEIN UL23