IL_5JUP_176

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

CCAAAUGCCUCG*CGCG

Length

16 nucleotides

Bulged bases

5JUP|1|B|A|2281, 5JUP|1|B|C|2287, 5JUP|1|B|C|2306

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_176 not in the Motif Atlas

Geometric match to IL_5TBW_090

Geometric discrepancy: 0.0944

The information below is about IL_5TBW_090

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_66080.1

Basepair signature

cWW-cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

5JUP|1|B|C|2277
5JUP|1|B|C|2278
5JUP|1|B|A|2279
5JUP|1|B|A|2280
5JUP|1|B|A|2281
5JUP|1|B|U|2282
5JUP|1|B|G|2283
5JUP|1|B|C|2284
5JUP|1|B|C|2285
5JUP|1|B|U|2286
5JUP|1|B|C|2287
5JUP|1|B|G|2288
*
5JUP|1|B|C|2304
5JUP|1|B|G|2305
5JUP|1|B|C|2306
5JUP|1|B|G|2307

Current chains

Chain B

25S ribosomal RNA

Nearby chains

Chain A

Small subunit ribosomal RNA; SSU rRNA

Chain SA

eL41 (yeast L41)