IL_9DOV_077

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

GGAA*U(OMC)

Length

6 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: OMC

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_077 not in the Motif Atlas

Geometric match to IL_8GLP_304

Geometric discrepancy: 0.0671

The information below is about IL_8GLP_304

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

No text annotation

Motif group

IL_74641.5

Basepair signature

cWW-tSH-cWW-L

Number of instances in this motif group

37

Unit IDs

9DOV|1|A1|G|1898
9DOV|1|A1|G|1899
9DOV|1|A1|A|1900
9DOV|1|A1|A|1901
*
9DOV|1|A1|U|2336
9DOV|1|A1|OMC|2337

Current chains

Chain A1

25S rRNA

Nearby chains

Chain AB

60S ribosomal protein L3

Chain AV

60S ribosomal protein L23-A