IL_5NDW_406

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

GGUC*GGAC

Length

8 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_406 not in the Motif Atlas

Geometric match to IL_4V88_430

Geometric discrepancy: 0.0717

The information below is about IL_4V88_430

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_67085.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

55

Unit IDs

5NDW|1|6|G|871
5NDW|1|6|G|872
5NDW|1|6|U|873
5NDW|1|6|C|874
*
5NDW|1|6|G|953
5NDW|1|6|G|954
5NDW|1|6|A|955
5NDW|1|6|C|956

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain c3

40S ribosomal protein S13

Chain d7

40S ribosomal protein S27-A

Chain s1

40S ribosomal protein S1-A