HL_5NDW_231

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

CCUUGUG

Length

7 nucleotides

Bulged bases

5NDW|1|2|U|277, 5NDW|1|2|U|280

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

HL_5NDW_231 not in the Motif Atlas

Geometric match to HL_5J7L_214

Geometric discrepancy: 0.3387

The information below is about HL_5J7L_214

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_08100.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

4

Unit IDs

5NDW|1|2|C|275
5NDW|1|2|C|276
5NDW|1|2|U|277
5NDW|1|2|U|278
5NDW|1|2|G|279
5NDW|1|2|U|280
5NDW|1|2|G|281

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain N4

60S ribosomal protein L24-A

Chain S6

40S ribosomal protein S6-A