J5_5FDV_005
3D structure
- PDB id
- 5FDV (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the Pyrrhocoricin antimicrobial peptide bound to the Thermus thermophilus 70S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.8 Å
Loop
- Sequence
- GCAAGUUGG*UG*CC*GUGAACAGG*CGC
- Length
- 25 nucleotides
- Bulged bases
- 5FDV|1|1A|G|1789, 5FDV|1|1A|G|1794
- 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
- J5_5FDV_005 not in the Motif Atlas
- Homologous match to J5_9DFE_005
- Geometric discrepancy: 0.0453
- The information below is about J5_9DFE_005
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_62523.6
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 7
Unit IDs
5FDV|1|1A|G|1721
5FDV|1|1A|C|1722
5FDV|1|1A|A|1723
5FDV|1|1A|A|1724
5FDV|1|1A|G|1725
5FDV|1|1A|U|1726
5FDV|1|1A|U|1727
5FDV|1|1A|G|1728
5FDV|1|1A|G|1729
*
5FDV|1|1A|U|1753
5FDV|1|1A|G|1754
*
5FDV|1|1A|C|1782
5FDV|1|1A|C|1783
*
5FDV|1|1A|G|1787
5FDV|1|1A|U|1788
5FDV|1|1A|G|1789
5FDV|1|1A|A|1790
5FDV|1|1A|A|1791
5FDV|1|1A|C|1792
5FDV|1|1A|A|1793
5FDV|1|1A|G|1794
5FDV|1|1A|G|1795
*
5FDV|1|1A|C|2010
5FDV|1|1A|G|2011
5FDV|1|1A|C|2012
Current chains
- Chain 1A
- 23S ribosomal RNA
Nearby chains
- Chain 1E
- 50S ribosomal protein L3
- Chain 1O
- 50S ribosomal protein L14
- Chain 1T
- 50S ribosomal protein L19
- Chain 1a
- Small subunit ribosomal RNA; SSU rRNA
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