J3_5NDW_062
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
- AUGAAAAGAAC*GAGUGAAAAAGUACG*CU
- Length
- 28 nucleotides
- Bulged bases
- 5NDW|1|1|A|398, 5NDW|1|1|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_5NDW_062 not in the Motif Atlas
- Homologous match to J3_8P9A_047
- Geometric discrepancy: 0.0711
- 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
5NDW|1|1|A|369
5NDW|1|1|U|370
5NDW|1|1|G|371
5NDW|1|1|A|372
5NDW|1|1|A|373
5NDW|1|1|A|374
5NDW|1|1|A|375
5NDW|1|1|G|376
5NDW|1|1|A|377
5NDW|1|1|A|378
5NDW|1|1|C|379
*
5NDW|1|1|G|390
5NDW|1|1|A|391
5NDW|1|1|G|392
5NDW|1|1|U|393
5NDW|1|1|G|394
5NDW|1|1|A|395
5NDW|1|1|A|396
5NDW|1|1|A|397
5NDW|1|1|A|398
5NDW|1|1|A|399
5NDW|1|1|G|400
5NDW|1|1|U|401
5NDW|1|1|A|402
5NDW|1|1|C|403
5NDW|1|1|G|404
*
5NDW|1|4|C|19
5NDW|1|4|U|20
Current chains
- Chain 1
- 25S ribosomal RNA
- Chain 4
- 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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