IL_5NDG_200

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

GUG*UUAUC

Length

8 nucleotides

Bulged bases

5NDG|1|2|U|1370, 5NDG|1|2|A|1371

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_200 not in the Motif Atlas

Homologous match to IL_4V88_457

Geometric discrepancy: 0.1827

The information below is about IL_4V88_457

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_44258.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

301

Unit IDs

5NDG|1|2|G|1352
5NDG|1|2|U|1353
5NDG|1|2|G|1354
*
5NDG|1|2|U|1369
5NDG|1|2|U|1370
5NDG|1|2|A|1371
5NDG|1|2|U|1372
5NDG|1|2|C|1373

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C6

40S ribosomal protein S16-A

Chain C9

40S ribosomal protein S19-A

Chain D0

40S ribosomal protein S20