J3_5NDW_080
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
- AGCU*ACGUUCUAGCAUUCAAG*UGAU
- Length
- 25 nucleotides
- Bulged bases
- 5NDW|1|5|C|2548, 5NDW|1|5|G|2549, 5NDW|1|5|U|2550, 5NDW|1|5|U|2551, 5NDW|1|5|A|2554, 5NDW|1|5|C|2560
- 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
- J3_5NDW_080 not in the Motif Atlas
- Homologous match to J3_8P9A_060
- Geometric discrepancy: 0.2327
- The information below is about J3_8P9A_060
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_76247.1
- Basepair signature
- cWW-F-tHH-F-tHS-cWW-cWW-F-F-F-F
- Number of instances in this motif group
- 2
Unit IDs
5NDW|1|5|A|2529
5NDW|1|5|G|2530
5NDW|1|5|C|2531
5NDW|1|5|U|2532
*
5NDW|1|5|A|2547
5NDW|1|5|C|2548
5NDW|1|5|G|2549
5NDW|1|5|U|2550
5NDW|1|5|U|2551
5NDW|1|5|C|2552
5NDW|1|5|U|2553
5NDW|1|5|A|2554
5NDW|1|5|G|2555
5NDW|1|5|C|2556
5NDW|1|5|A|2557
5NDW|1|5|U|2558
5NDW|1|5|U|2559
5NDW|1|5|C|2560
5NDW|1|5|A|2561
5NDW|1|5|A|2562
5NDW|1|5|G|2563
*
5NDW|1|5|U|2578
5NDW|1|5|G|2579
5NDW|1|5|A|2580
5NDW|1|5|U|2581
Current chains
- Chain 5
- 25S ribosomal RNA
Nearby chains
- Chain l2
- 60S ribosomal protein L2-A
- Chain l8
- 60S ribosomal protein L8-A
- Chain n5
- 60S ribosomal protein L25
- Chain n7
- 60S ribosomal protein L27-A
- Chain o0
- 60S ribosomal protein L30
- Chain o4
- 60S ribosomal protein L34-A
- Chain q3
- 60S ribosomal protein L43-A
- Chain s1
- 40S ribosomal protein S1-A
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