J3_5NDG_075
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
- AUGAAAAGAAC*GAGUGAAAAAGUACG*CU
- Length
- 28 nucleotides
- Bulged bases
- 5NDG|1|5|A|398, 5NDG|1|5|A|402
- 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_5NDG_075 not in the Motif Atlas
- Homologous match to J3_8P9A_047
- Geometric discrepancy: 0.0564
- The information below is about J3_8P9A_047
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_17917.1
- Basepair signature
- cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F
- Number of instances in this motif group
- 9
Unit IDs
5NDG|1|5|A|369
5NDG|1|5|U|370
5NDG|1|5|G|371
5NDG|1|5|A|372
5NDG|1|5|A|373
5NDG|1|5|A|374
5NDG|1|5|A|375
5NDG|1|5|G|376
5NDG|1|5|A|377
5NDG|1|5|A|378
5NDG|1|5|C|379
*
5NDG|1|5|G|390
5NDG|1|5|A|391
5NDG|1|5|G|392
5NDG|1|5|U|393
5NDG|1|5|G|394
5NDG|1|5|A|395
5NDG|1|5|A|396
5NDG|1|5|A|397
5NDG|1|5|A|398
5NDG|1|5|A|399
5NDG|1|5|G|400
5NDG|1|5|U|401
5NDG|1|5|A|402
5NDG|1|5|C|403
5NDG|1|5|G|404
*
5NDG|1|8|C|19
5NDG|1|8|U|20
Current chains
- Chain 5
- 25S ribosomal RNA
- Chain 8
- 5.8S ribosomal RNA
Nearby chains
- Chain l4
- 60S ribosomal protein L4-A
- Chain m7
- 60S ribosomal protein L17-A
- Chain n6
- 60S ribosomal protein L26-A
- Chain o9
- 60S ribosomal protein L39
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