J4_5NDG_003
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
- CAAAUAU*AG*UGAU*AG
- Length
- 15 nucleotides
- Bulged bases
- 5NDG|1|1|A|1452, 5NDG|1|1|U|1455
- 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
- J4_5NDG_003 not in the Motif Atlas
- Homologous match to J4_8P9A_014
- Geometric discrepancy: 0.088
- The information below is about J4_8P9A_014
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_87855.1
- Basepair signature
- cWW-F-cWW-F-F-F-cWW-F-cWW
- Number of instances in this motif group
- 2
Unit IDs
5NDG|1|1|C|1451
5NDG|1|1|A|1452
5NDG|1|1|A|1453
5NDG|1|1|A|1454
5NDG|1|1|U|1455
5NDG|1|1|A|1456
5NDG|1|1|U|1457
*
5NDG|1|1|A|1475
5NDG|1|1|G|1476
*
5NDG|1|1|U|1877
5NDG|1|1|G|1878
5NDG|1|1|A|1879
5NDG|1|1|U|1880
*
5NDG|1|1|A|2352
5NDG|1|1|G|2353
Current chains
- Chain 1
- 25S ribosomal RNA
Nearby chains
- Chain M7
- 60S ribosomal protein L17-A
- Chain M9
- 60S ribosomal protein L19-A
- Chain O1
- 60S ribosomal protein L31-A
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