J3_5NDV_059
3D structure
- PDB id
- 5NDV (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of Paromomycin bound to the yeast 80S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.3 Å
Loop
- Sequence
- CGAUAGCGAACAAGUAC*GGAAAG*CUUG
- Length
- 27 nucleotides
- Bulged bases
- 5NDV|1|1|U|343, 5NDV|1|1|A|351, 5NDV|1|4|U|23
- 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_5NDV_059 not in the Motif Atlas
- Homologous match to J3_8P9A_045
- Geometric discrepancy: 0.0455
- The information below is about J3_8P9A_045
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_07616.1
- Basepair signature
- cWW-cSS-tSS-tSW-tHW-cWW-tWH-F-F-tHH-tSS-tWH-F-tHS-cWW-F-cSH
- Number of instances in this motif group
- 10
Unit IDs
5NDV|1|1|C|340
5NDV|1|1|G|341
5NDV|1|1|A|342
5NDV|1|1|U|343
5NDV|1|1|A|344
5NDV|1|1|G|345
5NDV|1|1|C|346
5NDV|1|1|G|347
5NDV|1|1|A|348
5NDV|1|1|A|349
5NDV|1|1|C|350
5NDV|1|1|A|351
5NDV|1|1|A|352
5NDV|1|1|G|353
5NDV|1|1|U|354
5NDV|1|1|A|355
5NDV|1|1|C|356
*
5NDV|1|1|G|363
5NDV|1|1|G|364
5NDV|1|1|A|365
5NDV|1|1|A|366
5NDV|1|1|A|367
5NDV|1|1|G|368
*
5NDV|1|4|C|21
5NDV|1|4|U|22
5NDV|1|4|U|23
5NDV|1|4|G|24
Current chains
- Chain 1
- 25S ribosomal RNA
- Chain 4
- 5.8S ribosomal RNA
Nearby chains
- Chain L4
- 60S ribosomal protein L4-A
- Chain N6
- 60S ribosomal protein L26-A
- Chain O7
- 60S ribosomal protein L37-A
- Chain O9
- 60S ribosomal protein L39
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