IL_5JUP_028

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

GUA*UAAC

Length

7 nucleotides

Bulged bases

None detected

QA status

Unknown status

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_028 not in the Motif Atlas

Geometric match to IL_4V88_411

Geometric discrepancy: 0.3299

The information below is about IL_4V88_411

Detailed Annotation

Minor groove platform with extra cWW

Broad Annotation

Minor groove platform

Motif group

IL_46796.2

Basepair signature

cWW-tHS-cWW-cWW

Number of instances in this motif group

6

Unit IDs

5JUP|1|A|G|516
5JUP|1|A|U|517
5JUP|1|A|A|518
*
5JUP|1|A|U|533
5JUP|1|A|A|534
5JUP|1|A|A|535
5JUP|1|A|C|536

Current chains

Chain A

18S ribosomal RNA

Nearby chains

Chain GB

uS4 (yeast S9)

Chain VB

eS24 (yeast S24)