HL_6IP8_098

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

CCCGAGCCG

Length

9 nucleotides

Bulged bases

6IP8|1|2m|G|836, 6IP8|1|2m|G|838, 6IP8|1|2m|C|840

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

HL_6IP8_098 not in the Motif Atlas

Geometric match to HL_5TBW_044

Geometric discrepancy: 0.3217

The information below is about HL_5TBW_044

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_81100.1

Basepair signature

cWW

Number of instances in this motif group

4

Unit IDs

6IP8|1|2m|C|833
6IP8|1|2m|C|834
6IP8|1|2m|C|835
6IP8|1|2m|G|836
6IP8|1|2m|A|837
6IP8|1|2m|G|838
6IP8|1|2m|C|839
6IP8|1|2m|C|840
6IP8|1|2m|G|841

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2q

40S ribosomal protein S4, X isoform

Chain 3N

40S ribosomal protein S24