IL_5NDG_238

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

GUU*AC

Length

5 nucleotides

Bulged bases

5NDG|1|5|U|190

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_238 not in the Motif Atlas

Homologous match to IL_5TBW_012

Geometric discrepancy: 0.103

The information below is about IL_5TBW_012

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_83039.19

Basepair signature

cWW-L-cWW

Number of instances in this motif group

123

Unit IDs

5NDG|1|5|G|189
5NDG|1|5|U|190
5NDG|1|5|U|191
*
5NDG|1|5|A|204
5NDG|1|5|C|205

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l4

60S ribosomal protein L4-A

Chain n6

60S ribosomal protein L26-A