J4_5FDU_026
3D structure
- PDB id
- 5FDU (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.9 Å
Loop
- Sequence
- GGG*CGAAAG*CCCUAAACGAUG*CC
- Length
- 23 nucleotides
- Bulged bases
- 5FDU|1|2a|G|576, 5FDU|1|2a|A|815
- 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
- J4_5FDU_026 not in the Motif Atlas
- Homologous match to J4_4LFB_003
- Geometric discrepancy: 0.0508
- The information below is about J4_4LFB_003
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_61885.6
- Basepair signature
- cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F
- Number of instances in this motif group
- 4
Unit IDs
5FDU|1|2a|G|575
5FDU|1|2a|G|576
5FDU|1|2a|G|577
*
5FDU|1|2a|C|764
5FDU|1|2a|G|765
5FDU|1|2a|A|766
5FDU|1|2a|A|767
5FDU|1|2a|A|768
5FDU|1|2a|G|769
*
5FDU|1|2a|C|810
5FDU|1|2a|C|811
5FDU|1|2a|C|812
5FDU|1|2a|U|813
5FDU|1|2a|A|814
5FDU|1|2a|A|815
5FDU|1|2a|A|816
5FDU|1|2a|C|817
5FDU|1|2a|G|818
5FDU|1|2a|A|819
5FDU|1|2a|U|820
5FDU|1|2a|G|821
*
5FDU|1|2a|C|879
5FDU|1|2a|C|880
Current chains
- Chain 2a
- 16S ribosomal RNA
Nearby chains
- Chain 2A
- Large subunit ribosomal RNA; LSU rRNA
- Chain 2h
- 30S ribosomal protein S8
- Chain 2l
- 30S ribosomal protein S12
- Chain 2o
- 30S ribosomal protein S15
- Chain 2q
- 30S ribosomal protein S17
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