HL_5NDG_224

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

CACCUUUG

Length

8 nucleotides

Bulged bases

5NDG|1|1|C|1761, 5NDG|1|1|C|1762, 5NDG|1|1|U|1763, 5NDG|1|1|U|1764, 5NDG|1|1|U|1765

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_224 not in the Motif Atlas

Homologous match to HL_8C3A_039

Geometric discrepancy: 0.4226

The information below is about HL_8C3A_039

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_71121.1

Basepair signature

cWW-F

Number of instances in this motif group

24

Unit IDs

5NDG|1|1|C|1759
5NDG|1|1|A|1760
5NDG|1|1|C|1761
5NDG|1|1|C|1762
5NDG|1|1|U|1763
5NDG|1|1|U|1764
5NDG|1|1|U|1765
5NDG|1|1|G|1766

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain M9

60S ribosomal protein L19-A

Chain N2

60S ribosomal protein L22-A