IL_9DOV_054

3D structure

PDB id

9DOV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) and hygromycin B

Experimental method

ELECTRON MICROSCOPY

Resolution

2.49 Å

Loop

Sequence

GUG*CC

Length

5 nucleotides

Bulged bases

9DOV|1|A1|U|1208

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_9DOV_054 not in the Motif Atlas

Homologous match to IL_9PN5_051

Geometric discrepancy: 0.0856

The information below is about IL_9PN5_051

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_97561.8

Basepair signature

cWW-L-cWW

Number of instances in this motif group

192

Unit IDs

9DOV|1|A1|G|1207
9DOV|1|A1|U|1208
9DOV|1|A1|G|1209
*
9DOV|1|A1|C|1296
9DOV|1|A1|C|1297

Current chains

Chain A1

25S rRNA

Nearby chains

Chain A3

5S ribosomal RNA; 5S rRNA

Chain AH

60S ribosomal protein L9-A

Chain AS

60S ribosomal protein L20

Chain Am

Ubiquitin-60S ribosomal protein L40