HL_5NDW_110
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
- CAGCGAAAUG
- Length
- 10 nucleotides
- Bulged bases
- None detected
- 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_110 not in the Motif Atlas
- Geometric match to HL_7A0S_001
- Geometric discrepancy: 0.2532
- The information below is about HL_7A0S_001
- Detailed Annotation
- Pseudoknot with intercalation
- Broad Annotation
- No text annotation
- Motif group
- HL_17803.1
- Basepair signature
- cWW-F-F-F-F-F-F-F-F
- Number of instances in this motif group
- 9
Unit IDs
5NDW|1|4|C|47
5NDW|1|4|A|48
5NDW|1|4|G|49
5NDW|1|4|C|50
5NDW|1|4|G|51
5NDW|1|4|A|52
5NDW|1|4|A|53
5NDW|1|4|A|54
5NDW|1|4|U|55
5NDW|1|4|G|56
Current chains
- Chain 4
- 5.8S ribosomal RNA
Nearby chains
- Chain 1
- Large subunit ribosomal RNA; LSU rRNA
- Chain N5
- 60S ribosomal protein L25
- Chain O5
- 60S ribosomal protein L35-A
- Chain O7
- 60S ribosomal protein L37-A
- Chain O9
- 60S ribosomal protein L39
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