J5_5NDG_011
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
- CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG
- Length
- 27 nucleotides
- Bulged bases
- 5NDG|1|5|U|719, 5NDG|1|5|A|784, 5NDG|1|5|G|785
- 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
- J5_5NDG_011 not in the Motif Atlas
- Homologous match to J5_8P9A_012
- Geometric discrepancy: 0.0714
- The information below is about J5_8P9A_012
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_56629.1
- Basepair signature
- cWW-F-F-tSS-F-cWW-cWW-F-F-cWW-F-cWW-F-F-F-F-F-F
- Number of instances in this motif group
- 3
Unit IDs
5NDG|1|5|C|675
5NDG|1|5|G|676
5NDG|1|5|A|677
5NDG|1|5|G|678
*
5NDG|1|5|C|702
5NDG|1|5|G|703
5NDG|1|5|U|704
5NDG|1|5|A|705
5NDG|1|5|A|706
*
5NDG|1|5|U|713
5NDG|1|5|G|714
5NDG|1|5|A|715
5NDG|1|5|A|716
5NDG|1|5|C|717
5NDG|1|5|G|718
5NDG|1|5|U|719
5NDG|1|5|A|720
5NDG|1|5|G|721
*
5NDG|1|5|C|749
5NDG|1|5|G|750
5NDG|1|5|A|751
*
5NDG|1|5|U|782
5NDG|1|5|A|783
5NDG|1|5|A|784
5NDG|1|5|G|785
5NDG|1|5|A|786
5NDG|1|5|G|787
Current chains
- Chain 5
- 25S ribosomal RNA
Nearby chains
- Chain l4
- 60S ribosomal protein L4-A
- Chain m3
- 60S ribosomal protein L13-A
- Chain m8
- 60S ribosomal protein L18-A
- Chain n8
- 60S ribosomal protein L28
- Chain n9
- 60S ribosomal protein L29
- Chain o6
- 60S ribosomal protein L36-A
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