J4_5D8B_003
3D structure
- PDB id
- 5D8B (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.63 Å
Loop
- Sequence
- GUGG*CGU*AAGGUCG*CC
- Length
- 16 nucleotides
- Bulged bases
- 5D8B|1|FD|U|8, 5D8B|1|FD|U|47, 5D8B|1|FD|C|48
- 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_5D8B_003 not in the Motif Atlas
- Homologous match to J4_4TUE_004
- Geometric discrepancy: 0.151
- The information below is about J4_4TUE_004
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_70449.29
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 54
Unit IDs
5D8B|1|FD|G|7
5D8B|1|FD|U|8
5D8B|1|FD|G|9
5D8B|1|FD|G|10
*
5D8B|1|FD|C|25
5D8B|1|FD|G|26
5D8B|1|FD|U|27
*
5D8B|1|FD|A|43
5D8B|1|FD|A|44
5D8B|1|FD|G|45
5D8B|1|FD|G|46
5D8B|1|FD|U|47
5D8B|1|FD|C|48
5D8B|1|FD|G|49
*
5D8B|1|FD|C|65
5D8B|1|FD|C|66
Current chains
- Chain FD
- tRNA
Nearby chains
- Chain GB
- 50S ribosomal protein L16
- Chain JC
- 30S ribosomal protein S13
- Chain QB
- 50S ribosomal protein L27
- Chain YC
- Small subunit ribosomal RNA; SSU rRNA
- Chain ZC
- Large subunit ribosomal RNA; LSU rRNA
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