J5_5NDW_007

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

CUUGU*AAAUAAC*GGAAUGAG*CGAGGAACAAU*AUAG

Length

35 nucleotides

Bulged bases

5NDW|1|2|A|541, 5NDW|1|2|A|544

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5NDW|1|2|C|31
5NDW|1|2|U|32
5NDW|1|2|U|33
5NDW|1|2|G|34
5NDW|1|2|U|35
*
5NDW|1|2|A|473
5NDW|1|2|A|474
5NDW|1|2|A|475
5NDW|1|2|U|476
5NDW|1|2|A|477
5NDW|1|2|A|478
5NDW|1|2|C|479
*
5NDW|1|2|G|509
5NDW|1|2|G|510
5NDW|1|2|A|511
5NDW|1|2|A|512
5NDW|1|2|U|513
5NDW|1|2|G|514
5NDW|1|2|A|515
5NDW|1|2|G|516
*
5NDW|1|2|C|536
5NDW|1|2|G|537
5NDW|1|2|A|538
5NDW|1|2|G|539
5NDW|1|2|G|540
5NDW|1|2|A|541
5NDW|1|2|A|542
5NDW|1|2|C|543
5NDW|1|2|A|544
5NDW|1|2|A|545
5NDW|1|2|U|546
*
5NDW|1|2|A|592
5NDW|1|2|U|593
5NDW|1|2|A|594
5NDW|1|2|G|595

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain D3

40S ribosomal protein S23-A

Chain E0

40S ribosomal protein S30-A

Chain S9

40S ribosomal protein S9-A