J5_5HD1_005
3D structure
- PDB id
- 5HD1 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.7 Å
Loop
- Sequence
- GCAAGUUGG*UG*CC*GUGAACAGG*CGC
- Length
- 25 nucleotides
- Bulged bases
- 5HD1|1|1A|G|1788, 5HD1|1|1A|G|1793
- 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_5HD1_005 not in the Motif Atlas
- Homologous match to J5_9DFE_005
- Geometric discrepancy: 0.058
- 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
5HD1|1|1A|G|1720
5HD1|1|1A|C|1721
5HD1|1|1A|A|1722
5HD1|1|1A|A|1723
5HD1|1|1A|G|1724
5HD1|1|1A|U|1725
5HD1|1|1A|U|1726
5HD1|1|1A|G|1727
5HD1|1|1A|G|1728
*
5HD1|1|1A|U|1752
5HD1|1|1A|G|1753
*
5HD1|1|1A|C|1781
5HD1|1|1A|C|1782
*
5HD1|1|1A|G|1786
5HD1|1|1A|U|1787
5HD1|1|1A|G|1788
5HD1|1|1A|A|1789
5HD1|1|1A|A|1790
5HD1|1|1A|C|1791
5HD1|1|1A|A|1792
5HD1|1|1A|G|1793
5HD1|1|1A|G|1794
*
5HD1|1|1A|C|2009
5HD1|1|1A|G|2010
5HD1|1|1A|C|2011
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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