IL_5JUP_254

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

GG*UUUC

Length

6 nucleotides

Bulged bases

5JUP|1|B|U|1820, 5JUP|1|B|U|1821

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_254 not in the Motif Atlas

Homologous match to IL_8P9A_293

Geometric discrepancy: 0.2767

The information below is about IL_8P9A_293

Detailed Annotation

Major groove platform related

Broad Annotation

Major groove platform related

Motif group

IL_48076.8

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

43

Unit IDs

5JUP|1|B|G|1623
5JUP|1|B|G|1624
*
5JUP|1|B|U|1819
5JUP|1|B|U|1820
5JUP|1|B|U|1821
5JUP|1|B|C|1822

Current chains

Chain B

25S ribosomal RNA

Nearby chains

Chain LA

eL34 (yeast L34)

Chain PA

eL38 (yeast L38)