IL_6IP8_209

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

GAC*GUAC

Length

7 nucleotides

Bulged bases

6IP8|1|2m|A|1695

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_209 not in the Motif Atlas

Geometric match to IL_4V9F_097

Geometric discrepancy: 0.2688

The information below is about IL_4V9F_097

Detailed Annotation

Isolated non-canonical cWW with bulges

Broad Annotation

Isolated non-canonical cWW with bulges

Motif group

IL_68118.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

28

Unit IDs

6IP8|1|2m|G|1203
6IP8|1|2m|A|1204
6IP8|1|2m|C|1205
*
6IP8|1|2m|G|1693
6IP8|1|2m|U|1694
6IP8|1|2m|A|1695
6IP8|1|2m|C|1696

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 3C

40S ribosomal protein S26

Chain 3G

40S ribosomal protein S2