IL_4D5Y_087

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

AGUCGG*CUGU

Length

10 nucleotides

Bulged bases

4D5Y|1|2|G|3808

QA status

Unknown status

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_087 not in the Motif Atlas

Homologous match to IL_5TBW_077

Geometric discrepancy: 0.1697

The information below is about IL_5TBW_077

Detailed Annotation

Intercalated tWH

Broad Annotation

Intercalated tWH

Motif group

IL_06455.1

Basepair signature

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

Number of instances in this motif group

7

Unit IDs

4D5Y|1|2|A|2827
4D5Y|1|2|G|2828
4D5Y|1|2|U|2829
4D5Y|1|2|C|2830
4D5Y|1|2|G|2831
4D5Y|1|2|G|2832
*
4D5Y|1|2|C|3806
4D5Y|1|2|U|3807
4D5Y|1|2|G|3808
4D5Y|1|2|U|3809

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain B

60S RIBOSOMAL PROTEIN UL3

Chain V

60S RIBOSOMAL PROTEIN UL14