HL_5NDG_053

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

UUAAACGAUAACG

Length

13 nucleotides

Bulged bases

5NDG|1|1|A|2637, 5NDG|1|1|C|2644

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_053 not in the Motif Atlas

Homologous match to HL_5TBW_055

Geometric discrepancy: 0.0703

The information below is about HL_5TBW_055

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_19870.9

Basepair signature

cWW-tHH-cWW-tHS-F-F-tWW

Number of instances in this motif group

8

Unit IDs

5NDG|1|1|U|2633
5NDG|1|1|U|2634
5NDG|1|1|A|2635
5NDG|1|1|A|2636
5NDG|1|1|A|2637
5NDG|1|1|C|2638
5NDG|1|1|G|2639
5NDG|1|1|A|2640
5NDG|1|1|U|2641
5NDG|1|1|A|2642
5NDG|1|1|A|2643
5NDG|1|1|C|2644
5NDG|1|1|G|2645

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain M0

60S ribosomal protein L10

Chain N1

60S ribosomal protein L21-A

Chain N9

60S ribosomal protein L29