J4_4V4Y_005
3D structure
- PDB id
- 4V4Y (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the 70S Thermus thermophilus ribosome with translocated and rotated Shine-Dalgarno Duplex.
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 5.5 Å
Loop
- Sequence
- AUAG*CAG*CGUGUCC*GU
- Length
- 16 nucleotides
- Bulged bases
- 4V4Y|1|AC|U|8, 4V4Y|1|AC|U|47, 4V4Y|1|AC|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_4V4Y_005 not in the Motif Atlas
- Homologous match to J4_6JXM_001
- Geometric discrepancy: 0.2786
- The information below is about J4_6JXM_001
- 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
4V4Y|1|AC|A|7
4V4Y|1|AC|U|8
4V4Y|1|AC|A|9
4V4Y|1|AC|G|10
*
4V4Y|1|AC|C|25
4V4Y|1|AC|A|26
4V4Y|1|AC|G|27
*
4V4Y|1|AC|C|43
4V4Y|1|AC|G|44
4V4Y|1|AC|U|45
4V4Y|1|AC|G|46
4V4Y|1|AC|U|47
4V4Y|1|AC|C|48
4V4Y|1|AC|C|49
*
4V4Y|1|AC|G|65
4V4Y|1|AC|U|66
Current chains
- Chain AC
- tRNA PHE (unmodified bases)
Nearby chains
- Chain AA
- Small subunit ribosomal RNA; SSU rRNA
- Chain AP
- 30S ribosomal protein S13
- Chain BA
- Large subunit ribosomal RNA; LSU rRNA
- Chain BP
- 50S ribosomal protein L16
- Chain BZ
- Ribosomal protein L27
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