J3_5HD1_033
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
- GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC
- Length
- 28 nucleotides
- Bulged bases
- 5HD1|1|1A|U|528, 5HD1|1|1A|G|532
- 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_5HD1_033 not in the Motif Atlas
- Homologous match to J3_9DFE_002
- Geometric discrepancy: 0.0422
- The information below is about J3_9DFE_002
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_92134.2
- Basepair signature
- cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW
- Number of instances in this motif group
- 6
Unit IDs
5HD1|1|1A|G|29
5HD1|1|1A|C|30
*
5HD1|1|1A|G|499
5HD1|1|1A|U|500
5HD1|1|1A|G|501
5HD1|1|1A|A|502
5HD1|1|1A|A|503
5HD1|1|1A|A|504
5HD1|1|1A|A|505
5HD1|1|1A|G|506
5HD1|1|1A|A|507
5HD1|1|1A|A|508
5HD1|1|1A|C|509
*
5HD1|1|1A|G|520
5HD1|1|1A|A|521
5HD1|1|1A|G|522
5HD1|1|1A|U|523
5HD1|1|1A|G|524
5HD1|1|1A|A|525
5HD1|1|1A|A|526
5HD1|1|1A|A|527
5HD1|1|1A|U|528
5HD1|1|1A|A|529
5HD1|1|1A|G|530
5HD1|1|1A|A|531
5HD1|1|1A|G|532
5HD1|1|1A|C|533
5HD1|1|1A|C|534
Current chains
- Chain 1A
- 23S Ribosomal RNA
Nearby chains
- Chain 1U
- 50S ribosomal protein L20
- Chain 1W
- 50S ribosomal protein L22
- Chain 1Y
- 50S ribosomal protein L24
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