IL_5NDW_465

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

GAC*GUUU

Length

7 nucleotides

Bulged bases

5NDW|1|2|U|959

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

IL_5NDW_465 not in the Motif Atlas

Homologous match to IL_8P9A_418

Geometric discrepancy: 0.1159

The information below is about IL_8P9A_418

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_01003.1

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

174

Unit IDs

5NDW|1|2|G|868
5NDW|1|2|A|869
5NDW|1|2|C|870
*
5NDW|1|2|G|957
5NDW|1|2|U|958
5NDW|1|2|U|959
5NDW|1|2|U|960

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C3

40S ribosomal protein S13

Chain D7

40S ribosomal protein S27-A