J3_5NDG_035

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

GAC*GCUAAGG*CAC

Length

13 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

J3_5NDG_035 not in the Motif Atlas

Homologous match to J3_5TBW_007

Geometric discrepancy: 0.2195

The information below is about J3_5TBW_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_28621.3

Basepair signature

cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW

Number of instances in this motif group

7

Unit IDs

5NDG|1|5|G|1230
5NDG|1|5|A|1231
5NDG|1|5|C|1232
*
5NDG|1|5|G|1256
5NDG|1|5|C|1257
5NDG|1|5|U|1258
5NDG|1|5|A|1259
5NDG|1|5|A|1260
5NDG|1|5|G|1261
5NDG|1|5|G|1262
*
5NDG|1|5|C|1277
5NDG|1|5|A|1278
5NDG|1|5|C|1279

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain p0

60S acidic ribosomal protein P0