J5_8EWB_003

3D structure

PDB id

8EWB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), eEF2 and GDP, Structure III

Experimental method

ELECTRON MICROSCOPY

Resolution

2.87 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8EWB|1|A1|U|719, 8EWB|1|A1|A|784, 8EWB|1|A1|G|785

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

J5_8EWB_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.0736

The information below is about J5_8P9A_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_56629.1

Basepair signature

cWW-F-F-tSS-F-cWW-cWW-F-F-cWW-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

8EWB|1|A1|C|675
8EWB|1|A1|G|676
8EWB|1|A1|A|677
8EWB|1|A1|G|678
*
8EWB|1|A1|C|702
8EWB|1|A1|G|703
8EWB|1|A1|U|704
8EWB|1|A1|A|705
8EWB|1|A1|A|706
*
8EWB|1|A1|U|713
8EWB|1|A1|G|714
8EWB|1|A1|A|715
8EWB|1|A1|A|716
8EWB|1|A1|C|717
8EWB|1|A1|G|718
8EWB|1|A1|U|719
8EWB|1|A1|A|720
8EWB|1|A1|G|721
*
8EWB|1|A1|C|749
8EWB|1|A1|G|750
8EWB|1|A1|A|751
*
8EWB|1|A1|U|782
8EWB|1|A1|A|783
8EWB|1|A1|A|784
8EWB|1|A1|G|785
8EWB|1|A1|A|786
8EWB|1|A1|G|787

Current chains

Chain A1

25S rRNA

Nearby chains

Chain AC

RPL4A isoform 1

Chain AL

60S ribosomal protein L13-A

Chain AQ

60S ribosomal protein L18-A

Chain Aa

60S ribosomal protein L28

Chain Ab

RPL29 isoform 1

Chain Ai

60S ribosomal protein L36-A