HL_5NDG_088

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

AGGUGAAAUU

Length

10 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

HL_5NDG_088 not in the Motif Atlas

Homologous match to HL_4V88_206

Geometric discrepancy: 0.1146

The information below is about HL_4V88_206

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_75293.2

Basepair signature

cWW-F-F-F-F-F-F-F-F

Number of instances in this motif group

14

Unit IDs

5NDG|1|2|A|900
5NDG|1|2|G|901
5NDG|1|2|G|902
5NDG|1|2|U|903
5NDG|1|2|G|904
5NDG|1|2|A|905
5NDG|1|2|A|906
5NDG|1|2|A|907
5NDG|1|2|U|908
5NDG|1|2|U|909

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C4

40S ribosomal protein S14-A

Chain D6

40S ribosomal protein S26-B