IL_5NDG_007

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

AU*AGUUGU

Length

8 nucleotides

Bulged bases

5NDG|1|1|U|147

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_007 not in the Motif Atlas

Geometric match to IL_5TBW_007

Geometric discrepancy: 0.0973

The information below is about IL_5TBW_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_19724.3

Basepair signature

cWW-cWW-L-cWW-L

Number of instances in this motif group

4

Unit IDs

5NDG|1|1|A|123
5NDG|1|1|U|124
*
5NDG|1|1|A|144
5NDG|1|1|G|145
5NDG|1|1|U|146
5NDG|1|1|U|147
5NDG|1|1|G|148
5NDG|1|1|U|149

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain 4

5.8S ribosomal RNA; 5.8S rRNA

Chain L8

60S ribosomal protein L8-A

Chain M5

60S ribosomal protein L15-A