IL_4D5Y_130

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

UGUAUG*CGAAG

Length

11 nucleotides

Bulged bases

4D5Y|1|2|U|4594, 4D5Y|1|2|U|4596

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_130 not in the Motif Atlas

Homologous match to IL_8C3A_127

Geometric discrepancy: 0.2054

The information below is about IL_8C3A_127

Detailed Annotation

UAA/GAN related

Broad Annotation

UAA/GAN related

Motif group

IL_17136.4

Basepair signature

cWW-R-L-tHS-tHW-cWW

Number of instances in this motif group

18

Unit IDs

4D5Y|1|2|U|4592
4D5Y|1|2|G|4593
4D5Y|1|2|U|4594
4D5Y|1|2|A|4595
4D5Y|1|2|U|4596
4D5Y|1|2|G|4597
*
4D5Y|1|2|C|4622
4D5Y|1|2|G|4623
4D5Y|1|2|A|4624
4D5Y|1|2|A|4625
4D5Y|1|2|G|4626

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain B

60S RIBOSOMAL PROTEIN UL3

Chain W

60S RIBOSOMAL PROTEIN EL24

Chain d

60S RIBOSOMAL PROTEIN EL31