IL_5NDG_210

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

UAC*GAA

Length

6 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_210 not in the Motif Atlas

Homologous match to IL_4V88_467

Geometric discrepancy: 0.1694

The information below is about IL_4V88_467

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_44258.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

301

Unit IDs

5NDG|1|2|U|1650
5NDG|1|2|A|1651
5NDG|1|2|C|1652
*
5NDG|1|2|G|1748
5NDG|1|2|A|1749
5NDG|1|2|A|1750

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA

Chain D3

40S ribosomal protein S23-A

Chain Q1

60S ribosomal protein L41-A