HL_5NDG_071

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

CAAUUUAUACAG

Length

12 nucleotides

Bulged bases

5NDG|1|2|U|73, 5NDG|1|2|U|74, 5NDG|1|2|U|75, 5NDG|1|2|U|77

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_071 not in the Motif Atlas

Geometric match to HL_5TBW_006

Geometric discrepancy: 0.0901

The information below is about HL_5TBW_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_71121.1

Basepair signature

cWW-F

Number of instances in this motif group

24

Unit IDs

5NDG|1|2|C|70
5NDG|1|2|A|71
5NDG|1|2|A|72
5NDG|1|2|U|73
5NDG|1|2|U|74
5NDG|1|2|U|75
5NDG|1|2|A|76
5NDG|1|2|U|77
5NDG|1|2|A|78
5NDG|1|2|C|79
5NDG|1|2|A|80
5NDG|1|2|G|81

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain N4

60S ribosomal protein L24-A

Chain S6

40S ribosomal protein S6-A