J3_4D5Y_032

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

CUCAG*CGUGGAG*CAAAAG

Length

18 nucleotides

Bulged bases

4D5Y|1|2|A|4240, 4D5Y|1|2|A|4242

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|C|4201
4D5Y|1|2|U|4202
4D5Y|1|2|C|4203
4D5Y|1|2|A|4204
4D5Y|1|2|G|4205
*
4D5Y|1|2|C|4223
4D5Y|1|2|G|4224
4D5Y|1|2|U|4225
4D5Y|1|2|G|4226
4D5Y|1|2|G|4227
4D5Y|1|2|A|4228
4D5Y|1|2|G|4229
*
4D5Y|1|2|C|4238
4D5Y|1|2|A|4239
4D5Y|1|2|A|4240
4D5Y|1|2|A|4241
4D5Y|1|2|A|4242
4D5Y|1|2|G|4243

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain 4

5S ribosomal RNA; 5S rRNA

Chain D

60S RIBOSOMAL PROTEIN UL18

Chain J

60S RIBOSOMAL PROTEIN UL5

Chain T

60S RIBOSOMAL PROTEIN EL21