IL_5NDG_487

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

AAUAAUG*CUAU

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_5NDG_487 not in the Motif Atlas

Homologous match to IL_8P9A_302

Geometric discrepancy: 0.0904

The information below is about IL_8P9A_302

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_22829.2

Basepair signature

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

Number of instances in this motif group

3

Unit IDs

5NDG|1|1|A|1883
5NDG|1|1|A|1884
5NDG|1|1|U|1885
5NDG|1|1|A|1886
5NDG|1|1|A|1887
5NDG|1|1|U|1888
5NDG|1|1|G|1889
*
5NDG|1|1|C|2346
5NDG|1|1|U|2347
5NDG|1|1|A|2348
5NDG|1|1|U|2349

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain L3

60S ribosomal protein L3

Chain M7

60S ribosomal protein L17-A

Chain O1

60S ribosomal protein L31-A