HL_5NDG_038

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

CCGUG

Length

5 nucleotides

Bulged bases

5NDG|1|1|C|1793, 5NDG|1|1|G|1794

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

HL_5NDG_038 not in the Motif Atlas

Homologous match to HL_8C3A_040

Geometric discrepancy: 0.1258

The information below is about HL_8C3A_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_43793.1

Basepair signature

cWW-F

Number of instances in this motif group

50

Unit IDs

5NDG|1|1|C|1792
5NDG|1|1|C|1793
5NDG|1|1|G|1794
5NDG|1|1|U|1795
5NDG|1|1|G|1796

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain L2

60S ribosomal protein L2-A

Chain Q3

60S ribosomal protein L43-A