IL_5NDW_359

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

GUA*UUAAGC

Length

9 nucleotides

Bulged bases

5NDW|1|5|G|3377

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_359 not in the Motif Atlas

Homologous match to IL_5TBW_132

Geometric discrepancy: 0.0791

The information below is about IL_5TBW_132

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_84428.1

Basepair signature

cWW-cWW-L-cWW-L

Number of instances in this motif group

2

Unit IDs

5NDW|1|5|G|3328
5NDW|1|5|U|3329
5NDW|1|5|A|3330
*
5NDW|1|5|U|3373
5NDW|1|5|U|3374
5NDW|1|5|A|3375
5NDW|1|5|A|3376
5NDW|1|5|G|3377
5NDW|1|5|C|3378

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l3

60S ribosomal protein L3

Chain n4

60S ribosomal protein L24-A

Chain o1

60S ribosomal protein L31-A