J4_8K82_012
3D structure
- PDB id
- 8K82 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNA
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3 Å
Loop
- Sequence
- GU(1MG)(2MG)*C(M2G)C*GAU(7MG)(H2U)(5MC)C*GC
- Length
- 16 nucleotides
- Bulged bases
- 8K82|1|C5|U|8, 8K82|1|C5|H2U|46, 8K82|1|C5|5MC|47
- QA status
- Modified nucleotides: 1MG, 2MG, M2G, 7MG, H2U, 5MC
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_8K82_012 not in the Motif Atlas
- Homologous match to J4_7EQJ_002
- Geometric discrepancy: 0.1564
- The information below is about J4_7EQJ_002
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_95067.1
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 48
Unit IDs
8K82|1|C5|G|7
8K82|1|C5|U|8
8K82|1|C5|1MG|9
8K82|1|C5|2MG|10
*
8K82|1|C5|C|24
8K82|1|C5|M2G|25
8K82|1|C5|C|26
*
8K82|1|C5|G|42
8K82|1|C5|A|43
8K82|1|C5|U|44
8K82|1|C5|7MG|45
8K82|1|C5|H2U|46
8K82|1|C5|5MC|47
8K82|1|C5|C|48
*
8K82|1|C5|G|64
8K82|1|C5|C|65
Current chains
- Chain C5
- tRNA
Nearby chains
- Chain C1
- Large subunit ribosomal RNA; LSU rRNA
- Chain C2
- Small subunit ribosomal RNA; SSU rRNA
- Chain CN
- General negative regulator of transcription subunit 5
- Chain LI
- Large ribosomal subunit protein uL16
Coloring options: