IL_6IP8_238

3D structure

PDB id

6IP8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CGGAU*AGAAG

Length

10 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_6IP8_238 not in the Motif Atlas

Homologous match to IL_4V88_474

Geometric discrepancy: 0.1689

The information below is about IL_4V88_474

Detailed Annotation

Triple sheared

Broad Annotation

No text annotation

Motif group

IL_95716.2

Basepair signature

cWW-cWW-tHS-tHS-tSH-cWW

Number of instances in this motif group

18

Unit IDs

6IP8|1|2m|C|1742
6IP8|1|2m|G|1743
6IP8|1|2m|G|1744
6IP8|1|2m|A|1745
6IP8|1|2m|U|1746
*
6IP8|1|2m|A|1788
6IP8|1|2m|G|1789
6IP8|1|2m|A|1790
6IP8|1|2m|A|1791
6IP8|1|2m|G|1792

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2Q

60S ribosomal protein L24

Chain 2t

40S ribosomal protein S8

Chain 3H

40S ribosomal protein S6