HL_5NDW_082

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

CCAAGG

Length

6 nucleotides

Bulged bases

5NDW|1|2|A|416

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_082 not in the Motif Atlas

Homologous match to HL_4V88_196

Geometric discrepancy: 0.1149

The information below is about HL_4V88_196

Detailed Annotation

UNCG

Broad Annotation

No text annotation

Motif group

HL_34617.1

Basepair signature

cWW-tSW-F

Number of instances in this motif group

57

Unit IDs

5NDW|1|2|C|414
5NDW|1|2|C|415
5NDW|1|2|A|416
5NDW|1|2|A|417
5NDW|1|2|G|418
5NDW|1|2|G|419

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain D4

40S ribosomal protein S24-A

Chain N3

60S ribosomal protein L23-A

Chain S6

40S ribosomal protein S6-A