IL_6IP8_102

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

CCAG*CG

Length

6 nucleotides

Bulged bases

6IP8|1|1A|C|3701

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_102 not in the Motif Atlas

Homologous match to IL_5TBW_084

Geometric discrepancy: 0.1172

The information below is about IL_5TBW_084

Detailed Annotation

Major groove intercalation

Broad Annotation

No text annotation

Motif group

IL_88739.5

Basepair signature

cWW-L-cWW

Number of instances in this motif group

12

Unit IDs

6IP8|1|1A|C|3700
6IP8|1|1A|C|3701
6IP8|1|1A|A|3702
6IP8|1|1A|G|3703
*
6IP8|1|1A|C|3749
6IP8|1|1A|G|3750

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1D

60S ribosomal protein L8

Chain 2m

Small subunit ribosomal RNA; SSU rRNA