IL_5NDG_347

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

AUUAU*AGAAU

Length

10 nucleotides

Bulged bases

5NDG|1|5|A|3130

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_347 not in the Motif Atlas

Homologous match to IL_5TBW_120

Geometric discrepancy: 0.098

The information below is about IL_5TBW_120

Detailed Annotation

UAA/GAN

Broad Annotation

No text annotation

Motif group

IL_89002.4

Basepair signature

cWW-tWH-cWW-L-cWW-tHS

Number of instances in this motif group

15

Unit IDs

5NDG|1|5|A|3103
5NDG|1|5|U|3104
5NDG|1|5|U|3105
5NDG|1|5|A|3106
5NDG|1|5|U|3107
*
5NDG|1|5|A|3127
5NDG|1|5|G|3128
5NDG|1|5|A|3129
5NDG|1|5|A|3130
5NDG|1|5|U|3131

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l9

60S ribosomal protein L9-A

Chain m6

60S ribosomal protein L16-A

Chain q0

Ubiquitin-60S ribosomal protein L40