IL_5NDW_372

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

UCGU*AA

Length

6 nucleotides

Bulged bases

5NDW|1|6|C|114, 5NDW|1|6|G|115

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_372 not in the Motif Atlas

Homologous match to IL_4V88_392

Geometric discrepancy: 0.1253

The information below is about IL_4V88_392

Detailed Annotation

Multiple bulged bases

Broad Annotation

No text annotation

Motif group

IL_82107.1

Basepair signature

cWW-cWW

Number of instances in this motif group

34

Unit IDs

5NDW|1|6|U|113
5NDW|1|6|C|114
5NDW|1|6|G|115
5NDW|1|6|U|116
*
5NDW|1|6|A|300
5NDW|1|6|A|301

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain c1

40S ribosomal protein S11-A

Chain s4

40S ribosomal protein S4-A

Chain s8

40S ribosomal protein S8-A