J5_8T3B_003

3D structure

PDB id

8T3B (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 I

Experimental method

ELECTRON MICROSCOPY

Resolution

3.08 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8T3B|1|A1|U|719, 8T3B|1|A1|A|784, 8T3B|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_8T3B_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.1063

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

8T3B|1|A1|C|675
8T3B|1|A1|G|676
8T3B|1|A1|A|677
8T3B|1|A1|G|678
*
8T3B|1|A1|C|702
8T3B|1|A1|G|703
8T3B|1|A1|U|704
8T3B|1|A1|A|705
8T3B|1|A1|A|706
*
8T3B|1|A1|U|713
8T3B|1|A1|G|714
8T3B|1|A1|A|715
8T3B|1|A1|A|716
8T3B|1|A1|C|717
8T3B|1|A1|G|718
8T3B|1|A1|U|719
8T3B|1|A1|A|720
8T3B|1|A1|G|721
*
8T3B|1|A1|C|749
8T3B|1|A1|G|750
8T3B|1|A1|A|751
*
8T3B|1|A1|U|782
8T3B|1|A1|A|783
8T3B|1|A1|A|784
8T3B|1|A1|G|785
8T3B|1|A1|A|786
8T3B|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