J5_8EUB_003

3D structure

PDB id

8EUB (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 I

Experimental method

ELECTRON MICROSCOPY

Resolution

2.52 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8EUB|1|A1|U|719, 8EUB|1|A1|A|784, 8EUB|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_8EUB_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.0544

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

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

Current chains

Chain A1

28S 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