J5_5NDG_006

3D structure

PDB id

5NDG (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of geneticin (G418) 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

5NDG|1|2|A|538, 5NDG|1|2|A|541, 5NDG|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

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