J4_6IP8_024

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

UUGG*UU*AGGUCC*GA

Length

14 nucleotides

Bulged bases

6IP8|1|zy|U|8, 6IP8|1|zy|U|46, 6IP8|1|zy|C|47

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

J4_6IP8_024 not in the Motif Atlas

Homologous match to J4_4QEI_001

Geometric discrepancy: 0.2853

The information below is about J4_4QEI_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_35610.2

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW

Number of instances in this motif group

6

Unit IDs

6IP8|1|zy|U|7
6IP8|1|zy|U|8
6IP8|1|zy|G|9
6IP8|1|zy|G|10
*
6IP8|1|zy|U|24
6IP8|1|zy|U|25
*
6IP8|1|zy|A|43
6IP8|1|zy|G|44
6IP8|1|zy|G|45
6IP8|1|zy|U|46
6IP8|1|zy|C|47
6IP8|1|zy|C|48
*
6IP8|1|zy|G|64
6IP8|1|zy|A|65

Current chains

Chain zy

P-site tRNA

Nearby chains

Chain 1A

Large subunit ribosomal RNA; LSU rRNA

Chain 2D

60S ribosomal protein L10-like

Chain zw

Eukaryotic peptide chain release factor subunit 1