HL_5NDW_097

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

GACUCAACAC

Length

10 nucleotides

Bulged bases

5NDW|1|2|A|1196

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_097 not in the Motif Atlas

Homologous match to HL_4V88_212

Geometric discrepancy: 0.0935

The information below is about HL_4V88_212

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_50779.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

5NDW|1|2|G|1188
5NDW|1|2|A|1189
5NDW|1|2|C|1190
5NDW|1|2|U|1191
5NDW|1|2|C|1192
5NDW|1|2|A|1193
5NDW|1|2|A|1194
5NDW|1|2|C|1195
5NDW|1|2|A|1196
5NDW|1|2|C|1197

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C6

40S ribosomal protein S16-A

Chain D0

40S ribosomal protein S20

Chain D9

40S ribosomal protein S29-A

Chain SM

Suppressor protein STM1