J5_8T3F_003

3D structure

PDB id

8T3F (explore in PDB, NAKB, or RNA 3D Hub)

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

3.09 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8T3F|1|A1|U|719, 8T3F|1|A1|A|784

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_8T3F_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.1115

The information below is about J5_8P9A_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_23272.1

Basepair signature

cWW-F-F-F-F-cWW-cWW-F-F-F-cWW-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

8T3F|1|A1|C|675
8T3F|1|A1|G|676
8T3F|1|A1|A|677
8T3F|1|A1|G|678
*
8T3F|1|A1|C|702
8T3F|1|A1|G|703
8T3F|1|A1|U|704
8T3F|1|A1|A|705
8T3F|1|A1|A|706
*
8T3F|1|A1|U|713
8T3F|1|A1|G|714
8T3F|1|A1|A|715
8T3F|1|A1|A|716
8T3F|1|A1|C|717
8T3F|1|A1|G|718
8T3F|1|A1|U|719
8T3F|1|A1|A|720
8T3F|1|A1|G|721
*
8T3F|1|A1|C|749
8T3F|1|A1|G|750
8T3F|1|A1|A|751
*
8T3F|1|A1|U|782
8T3F|1|A1|A|783
8T3F|1|A1|A|784
8T3F|1|A1|G|785
8T3F|1|A1|A|786
8T3F|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