J3_5NDV_003
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
- UC*GAGGACUGCG*CAAGGA
- Length
- 18 nucleotides
- Bulged bases
- 5NDV|1|1|A|607
- 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_003 not in the Motif Atlas
- Homologous match to J3_5TBW_003
- Geometric discrepancy: 0.064
- The information below is about J3_5TBW_003
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_15033.1
- Basepair signature
- cWW-F-cWW-F-F-F-F-F-F-cWS-F-cWW-F
- Number of instances in this motif group
- 2
Unit IDs
5NDV|1|1|U|502
5NDV|1|1|C|503
*
5NDV|1|1|G|588
5NDV|1|1|A|589
5NDV|1|1|G|590
5NDV|1|1|G|591
5NDV|1|1|A|592
5NDV|1|1|C|593
5NDV|1|1|U|594
5NDV|1|1|G|595
5NDV|1|1|C|596
5NDV|1|1|G|597
*
5NDV|1|1|C|606
5NDV|1|1|A|607
5NDV|1|1|A|608
5NDV|1|1|G|609
5NDV|1|1|G|610
5NDV|1|1|A|611
Current chains
- Chain 1
- 25S ribosomal RNA
Nearby chains
- Chain L4
- 60S ribosomal protein L4-A
- Chain L6
- 60S ribosomal protein L6-A
- Chain L7
- 60S ribosomal protein L7-A
- Chain O2
- 60S ribosomal protein L32
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