IL_8T3D_084

3D structure

PDB id

8T3D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypomethylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), eEF2, GDP, and sordarin, Structure III

Experimental method

ELECTRON MICROSCOPY

Resolution

2.95 Å

Loop

Sequence

UG*UAAA

Length

6 nucleotides

Bulged bases

8T3D|1|A1|A|2242, 8T3D|1|A1|A|2243

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_8T3D_084 not in the Motif Atlas

Homologous match to IL_8P9A_313

Geometric discrepancy: 0.1013

The information below is about IL_8P9A_313

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_82107.4

Basepair signature

cWW-cWW

Number of instances in this motif group

30

Unit IDs

8T3D|1|A1|U|2200
8T3D|1|A1|G|2201
*
8T3D|1|A1|U|2241
8T3D|1|A1|A|2242
8T3D|1|A1|A|2243
8T3D|1|A1|A|2244

Current chains

Chain A1

25S rRNA

Nearby chains

Chain AA

60S ribosomal protein L2-A

Chain B5

Small subunit ribosomal RNA; SSU rRNA