J5_4YPB_010
3D structure
- PDB id
- 4YPB (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Precleavage 70S structure of the P. vulgaris HigB DeltaH92 toxin bound to the AAA codon
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.4 Å
Loop
- Sequence
- UUUA*UUUG*CG*CG*CGGAUAAAA
- Length
- 21 nucleotides
- Bulged bases
- 4YPB|1|RA|U|2076, 4YPB|1|RA|G|2428, 4YPB|1|RA|G|2429, 4YPB|1|RA|A|2430, 4YPB|1|RA|U|2431, 4YPB|1|RA|A|2434
- 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_4YPB_010 not in the Motif Atlas
- Homologous match to J5_9DFE_007
- Geometric discrepancy: 0.0645
- 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
4YPB|1|RA|U|2074
4YPB|1|RA|U|2075
4YPB|1|RA|U|2076
4YPB|1|RA|A|2077
*
4YPB|1|RA|U|2243
4YPB|1|RA|U|2244
4YPB|1|RA|U|2245
4YPB|1|RA|G|2246
*
4YPB|1|RA|C|2258
4YPB|1|RA|G|2259
*
4YPB|1|RA|C|2281
4YPB|1|RA|G|2282
*
4YPB|1|RA|C|2427
4YPB|1|RA|G|2428
4YPB|1|RA|G|2429
4YPB|1|RA|A|2430
4YPB|1|RA|U|2431
4YPB|1|RA|A|2432
4YPB|1|RA|A|2433
4YPB|1|RA|A|2434
4YPB|1|RA|A|2435
Current chains
- Chain RA
- 23S rRNA
Nearby chains
- Chain QW
- Transfer RNA; tRNA
- Chain R0
- 50S ribosomal protein L27
- Chain R1
- 50S ribosomal protein L28
- Chain R6
- 50S ribosomal protein L33
- Chain RD
- 50S ribosomal protein L2
- Chain RP
- 50S ribosomal protein L15
Coloring options: