IL_6IP8_162

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

CAAA*UGACG

Length

9 nucleotides

Bulged bases

6IP8|1|2m|A|516

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_162 not in the Motif Atlas

Geometric match to IL_4WF9_016

Geometric discrepancy: 0.3258

The information below is about IL_4WF9_016

Detailed Annotation

Double sheared

Broad Annotation

Double sheared

Motif group

IL_58355.2

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

43

Unit IDs

6IP8|1|2m|C|37
6IP8|1|2m|A|38
6IP8|1|2m|A|39
6IP8|1|2m|A|40
*
6IP8|1|2m|U|514
6IP8|1|2m|G|515
6IP8|1|2m|A|516
6IP8|1|2m|C|517
6IP8|1|2m|G|518

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2q

40S ribosomal protein S4, X isoform

Chain 3I

40S ribosomal protein S9