IL_5JUP_016

3D structure

PDB id

5JUP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure II (mid-rotated 40S subunit)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.5 Å

Loop

Sequence

AAUC*GAU

Length

7 nucleotides

Bulged bases

5JUP|1|A|A|266

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

IL_5JUP_016 not in the Motif Atlas

Geometric match to IL_4Y1M_005

Geometric discrepancy: 0.2777

The information below is about IL_4Y1M_005

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_71625.3

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

79

Unit IDs

5JUP|1|A|A|265
5JUP|1|A|A|266
5JUP|1|A|U|267
5JUP|1|A|C|268
*
5JUP|1|A|G|287
5JUP|1|A|A|288
5JUP|1|A|U|289

Current chains

Chain A

18S ribosomal RNA

Nearby chains

Chain BB

eS4 (yeast S4)

Chain DB

eS6 (yeast S6)