IL_5NDG_326

3D structure

PDB id

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

Description

Crystal structure of geneticin (G418) bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

GAU*AC

Length

5 nucleotides

Bulged bases

5NDG|1|5|A|2715

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_5NDG_326 not in the Motif Atlas

Geometric match to IL_5WWT_001

Geometric discrepancy: 0.2882

The information below is about IL_5WWT_001

Detailed Annotation

Single bulged A

Broad Annotation

No text annotation

Motif group

IL_31462.6

Basepair signature

cWW-L-cWW

Number of instances in this motif group

130

Unit IDs

5NDG|1|5|G|2714
5NDG|1|5|A|2715
5NDG|1|5|U|2716
*
5NDG|1|5|A|2740
5NDG|1|5|C|2741

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain n1

60S ribosomal protein L21-A

Chain n9

60S ribosomal protein L29

Chain q2

60S ribosomal protein L42-A