IL_5NDW_044

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

GGG*CU

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_044 not in the Motif Atlas

Geometric match to IL_6FZ0_001

Geometric discrepancy: 0.3913

The information below is about IL_6FZ0_001

Detailed Annotation

Single stack bend with SAM intercalation

Broad Annotation

Single stack bend with SAM intercalation

Motif group

IL_75501.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

4

Unit IDs

5NDW|1|1|G|1019
5NDW|1|1|G|1020
5NDW|1|1|G|1021
*
5NDW|1|1|C|1032
5NDW|1|1|U|1033

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain SM

Suppressor protein STM1