IL_5NDW_320

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

GA*UACC

Length

6 nucleotides

Bulged bases

5NDW|1|5|A|2808

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_320 not in the Motif Atlas

Homologous match to IL_5TBW_094

Geometric discrepancy: 0.098

The information below is about IL_5TBW_094

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|5|G|2412
5NDW|1|5|A|2413
*
5NDW|1|5|U|2807
5NDW|1|5|A|2808
5NDW|1|5|C|2809
5NDW|1|5|C|2810

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l2

60S ribosomal protein L2-A