J4_1VY6_029
3D structure
- PDB id
- 1VY6 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.9 Å
Loop
- Sequence
- G(4SU)GG*CGU*AAGGUCG*CC
- Length
- 16 nucleotides
- Bulged bases
- 1VY6|1|CX|4SU|8, 1VY6|1|CX|U|47, 1VY6|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_1VY6_029 not in the Motif Atlas
- Homologous match to J4_4V9Q_031
- Geometric discrepancy: 0.2075
- The information below is about J4_4V9Q_031
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_58311.1
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 30
Unit IDs
1VY6|1|CX|G|7
1VY6|1|CX|4SU|8
1VY6|1|CX|G|9
1VY6|1|CX|G|10
*
1VY6|1|CX|C|25
1VY6|1|CX|G|26
1VY6|1|CX|U|27
*
1VY6|1|CX|A|43
1VY6|1|CX|A|44
1VY6|1|CX|G|45
1VY6|1|CX|G|46
1VY6|1|CX|U|47
1VY6|1|CX|C|48
1VY6|1|CX|G|49
*
1VY6|1|CX|C|65
1VY6|1|CX|C|66
Current chains
- Chain CX
- P-site tRNA
Nearby chains
- Chain CM
- 30S ribosomal protein S13
- Chain DA
- Large subunit ribosomal RNA; LSU rRNA
- Chain DQ
- 50S ribosomal protein L16
Coloring options: