IL_5NDG_463

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

GAU*GC

Length

5 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_463 not in the Motif Atlas

Geometric match to IL_5TBW_009

Geometric discrepancy: 0.148

The information below is about IL_5TBW_009

Detailed Annotation

Single stack bend

Broad Annotation

No text annotation

Motif group

IL_05035.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

38

Unit IDs

5NDG|1|1|G|1618
5NDG|1|1|A|1619
5NDG|1|1|U|1620
*
5NDG|1|1|G|1825
5NDG|1|1|C|1826

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain 4

5.8S ribosomal RNA; 5.8S rRNA

Chain O8

60S ribosomal protein L38