HL_5NDW_175

3D structure

PDB id

5NDW (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

AGCAGAAU

Length

8 nucleotides

Bulged bases

5NDW|1|5|G|2898

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_5NDW_175 not in the Motif Atlas

Homologous match to HL_5TBW_062

Geometric discrepancy: 0.0812

The information below is about HL_5TBW_062

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_79150.1

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

12

Unit IDs

5NDW|1|5|A|2897
5NDW|1|5|G|2898
5NDW|1|5|C|2899
5NDW|1|5|A|2900
5NDW|1|5|G|2901
5NDW|1|5|A|2902
5NDW|1|5|A|2903
5NDW|1|5|U|2904

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l9

60S ribosomal protein L9-A

Chain q0

Ubiquitin-60S ribosomal protein L40