J5_5HD1_017
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
- UUUA*UUUG*CG*CG*CGGAUAAAA
- Length
- 21 nucleotides
- Bulged bases
- 5HD1|1|2A|U|2097, 5HD1|1|2A|G|2439, 5HD1|1|2A|G|2440, 5HD1|1|2A|A|2441, 5HD1|1|2A|U|2442
- 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_017 not in the Motif Atlas
- Homologous match to J5_9DFE_007
- Geometric discrepancy: 0.0571
- The information below is about J5_9DFE_007
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_39529.1
- Basepair signature
- cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 3
Unit IDs
5HD1|1|2A|U|2095
5HD1|1|2A|U|2096
5HD1|1|2A|U|2097
5HD1|1|2A|A|2098
*
5HD1|1|2A|U|2254
5HD1|1|2A|U|2255
5HD1|1|2A|U|2256
5HD1|1|2A|G|2257
*
5HD1|1|2A|C|2269
5HD1|1|2A|G|2270
*
5HD1|1|2A|C|2292
5HD1|1|2A|G|2293
*
5HD1|1|2A|C|2438
5HD1|1|2A|G|2439
5HD1|1|2A|G|2440
5HD1|1|2A|A|2441
5HD1|1|2A|U|2442
5HD1|1|2A|A|2443
5HD1|1|2A|A|2444
5HD1|1|2A|A|2445
5HD1|1|2A|A|2446
Current chains
- Chain 2A
- 23S Ribosomal RNA
Nearby chains
- Chain 20
- 50S ribosomal protein L27
- Chain 21
- 50S ribosomal protein L28
- Chain 26
- 50S ribosomal protein L33
- Chain 2D
- 50S ribosomal protein L2
- Chain 2P
- 50S ribosomal protein L15
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