J4_1VY5_021
3D structure
- PDB id
- 1VY5 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.55 Å
Loop
- Sequence
- G(4SU)GG*CGU*AAGGUCG*CC
- Length
- 16 nucleotides
- Bulged bases
- 1VY5|1|CX|4SU|8, 1VY5|1|CX|U|47, 1VY5|1|CX|C|48
- QA status
- Modified nucleotides: 4SU
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_1VY5_021 not in the Motif Atlas
- Homologous match to J4_4WT8_034
- Geometric discrepancy: 0.1782
- The information below is about J4_4WT8_034
- 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
1VY5|1|CX|G|7
1VY5|1|CX|4SU|8
1VY5|1|CX|G|9
1VY5|1|CX|G|10
*
1VY5|1|CX|C|25
1VY5|1|CX|G|26
1VY5|1|CX|U|27
*
1VY5|1|CX|A|43
1VY5|1|CX|A|44
1VY5|1|CX|G|45
1VY5|1|CX|G|46
1VY5|1|CX|U|47
1VY5|1|CX|C|48
1VY5|1|CX|G|49
*
1VY5|1|CX|C|65
1VY5|1|CX|C|66
Current chains
- Chain CX
- P-site tRNA
Nearby chains
- Chain CA
- Small subunit ribosomal RNA; SSU rRNA
- Chain CM
- 30S ribosomal protein S13
- Chain CW
- Transfer RNA; tRNA
- Chain DA
- Large subunit ribosomal RNA; LSU rRNA
- Chain DQ
- 50S ribosomal protein L16
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