IL_5NDW_250

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

GGGG*UGCAC

Length

9 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_250 not in the Motif Atlas

Homologous match to IL_5TBW_023

Geometric discrepancy: 0.1087

The information below is about IL_5TBW_023

Detailed Annotation

UAA/GAN variation

Broad Annotation

UAA/GAN variation

Motif group

IL_07235.3

Basepair signature

cWW-tSH-L-tHS-cWW

Number of instances in this motif group

8

Unit IDs

5NDW|1|5|G|725
5NDW|1|5|G|726
5NDW|1|5|G|727
5NDW|1|5|G|728
*
5NDW|1|5|U|741
5NDW|1|5|G|742
5NDW|1|5|C|743
5NDW|1|5|A|744
5NDW|1|5|C|745

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain m8

60S ribosomal protein L18-A

Chain n9

60S ribosomal protein L29