IL_9DOV_228

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

G(OMC)CC*GUAAC

Length

9 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_228 not in the Motif Atlas

Homologous match to IL_9PN5_221

Geometric discrepancy: 0.0717

The information below is about IL_9PN5_221

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_25873.5

Basepair signature

cWW-cSH-cWS-cWW-cWW

Number of instances in this motif group

8

Unit IDs

9DOV|1|B5|G|1638
9DOV|1|B5|OMC|1639
9DOV|1|B5|C|1640
9DOV|1|B5|C|1641
*
9DOV|1|B5|G|1760
9DOV|1|B5|U|1761
9DOV|1|B5|A|1762
9DOV|1|B5|A|1763
9DOV|1|B5|C|1764

Current chains

Chain B5

18S rRNA

Nearby chains

Chain A1

Large subunit ribosomal RNA; LSU rRNA

Chain An

60S ribosomal protein L41-A

Chain EC

TSV IRES RNA