IL_4D5Y_097

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

UCAAAGU*AAUGAAG

Length

14 nucleotides

Bulged bases

None detected

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

IL_4D5Y_097 not in the Motif Atlas

Homologous match to IL_5TBW_088

Geometric discrepancy: 0.231

The information below is about IL_5TBW_088

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_36973.8

Basepair signature

cWW-tSH-L-R-L-R-L-R-cWW-cWW

Number of instances in this motif group

3

Unit IDs

4D5Y|1|2|U|3684
4D5Y|1|2|C|3685
4D5Y|1|2|A|3686
4D5Y|1|2|A|3687
4D5Y|1|2|A|3688
4D5Y|1|2|G|3689
4D5Y|1|2|U|3690
*
4D5Y|1|2|A|3701
4D5Y|1|2|A|3702
4D5Y|1|2|U|3703
4D5Y|1|2|G|3704
4D5Y|1|2|A|3705
4D5Y|1|2|A|3706
4D5Y|1|2|G|3707

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain A

60S RIBOSOMAL PROTEIN UL2

Chain i

60S RIBOSOMAL PROTEIN EL36