IL_5NDW_142

3D structure

PDB id

5NDW (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

UUAUUU*AUUCA

Length

11 nucleotides

Bulged bases

None detected

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_5NDW_142 not in the Motif Atlas

Homologous match to IL_4V88_393

Geometric discrepancy: 0.0834

The information below is about IL_4V88_393

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_37842.2

Basepair signature

cWW-cWW-L-R-cWW-cWW-R-L

Number of instances in this motif group

4

Unit IDs

5NDW|1|2|U|117
5NDW|1|2|U|118
5NDW|1|2|A|119
5NDW|1|2|U|120
5NDW|1|2|U|121
5NDW|1|2|U|122
*
5NDW|1|2|A|295
5NDW|1|2|U|296
5NDW|1|2|U|297
5NDW|1|2|C|298
5NDW|1|2|A|299

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain S4

40S ribosomal protein S4-A

Chain S8

40S ribosomal protein S8-A