J5_8EVP_003

3D structure

PDB id

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

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure I

Experimental method

ELECTRON MICROSCOPY

Resolution

2.38 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8EVP|1|A1|U|719, 8EVP|1|A1|A|784, 8EVP|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_8EVP_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.0669

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

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