IL_5NDW_430

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

CUG*CG

Length

5 nucleotides

Bulged bases

None detected

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_430 not in the Motif Atlas

Homologous match to IL_4V88_454

Geometric discrepancy: 0.046

The information below is about IL_4V88_454

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_18604.1

Basepair signature

cWW-tSH-L-R-tHH-tHS-cWW

Number of instances in this motif group

46

Unit IDs

5NDW|1|6|C|1306
5NDW|1|6|U|1307
5NDW|1|6|G|1308
*
5NDW|1|6|C|1317
5NDW|1|6|G|1318

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain c7

40S ribosomal protein S17-A

Chain d6

40S ribosomal protein S26-B