J5_5NDW_014
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
- AGAAGACC*GGAUAACUG*CUUCGAUGUC*GGUUUAG*UAGUUU
- Length
- 40 nucleotides
- Bulged bases
- 5NDW|1|5|A|2404, 5NDW|1|5|A|2817, 5NDW|1|5|A|2872, 5NDW|1|5|U|2873, 5NDW|1|5|G|2874, 5NDW|1|5|U|2875, 5NDW|1|5|U|2978, 5NDW|1|5|U|2979
- 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|5|A|2399
5NDW|1|5|G|2400
5NDW|1|5|A|2401
5NDW|1|5|A|2402
5NDW|1|5|G|2403
5NDW|1|5|A|2404
5NDW|1|5|C|2405
5NDW|1|5|C|2406
*
5NDW|1|5|G|2815
5NDW|1|5|G|2816
5NDW|1|5|A|2817
5NDW|1|5|U|2818
5NDW|1|5|A|2819
5NDW|1|5|A|2820
5NDW|1|5|C|2821
5NDW|1|5|U|2822
5NDW|1|5|G|2823
*
5NDW|1|5|C|2867
5NDW|1|5|U|2868
5NDW|1|5|U|2869
5NDW|1|5|C|2870
5NDW|1|5|G|2871
5NDW|1|5|A|2872
5NDW|1|5|U|2873
5NDW|1|5|G|2874
5NDW|1|5|U|2875
5NDW|1|5|C|2876
*
5NDW|1|5|G|2951
5NDW|1|5|G|2952
5NDW|1|5|U|2953
5NDW|1|5|U|2954
5NDW|1|5|U|2955
5NDW|1|5|A|2956
5NDW|1|5|G|2957
*
5NDW|1|5|U|2975
5NDW|1|5|A|2976
5NDW|1|5|G|2977
5NDW|1|5|U|2978
5NDW|1|5|U|2979
5NDW|1|5|U|2980
Current chains
- Chain 5
- 25S ribosomal RNA
Nearby chains
- Chain l2
- 60S ribosomal protein L2-A
- Chain l3
- 60S ribosomal protein L3
- Chain l4
- 60S ribosomal protein L4-A
- Chain n8
- 60S ribosomal protein L28
- Chain n9
- 60S ribosomal protein L29
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