IL_5NDW_319

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

GUU*AC

Length

5 nucleotides

Bulged bases

5NDW|1|5|U|2410

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_319 not in the Motif Atlas

Homologous match to IL_8C3A_098

Geometric discrepancy: 0.0795

The information below is about IL_8C3A_098

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_83039.19

Basepair signature

cWW-L-cWW

Number of instances in this motif group

123

Unit IDs

5NDW|1|5|G|2409
5NDW|1|5|U|2410
5NDW|1|5|U|2411
*
5NDW|1|5|A|2811
5NDW|1|5|C|2812

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l4

60S ribosomal protein L4-A

Chain n8

60S ribosomal protein L28