J4_8K2D_013
3D structure
- PDB id
- 8K2D (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Cryo-EM structure of the yeast 80S ribosome with tigecycline, eEF2, Stm1 and eIF5A
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3.2 Å
Loop
- Sequence
- AAG*CGAAAG*CCAUAAACUAUG*UU
- Length
- 23 nucleotides
- Bulged bases
- 8K2D|1|C2|A|623, 8K2D|1|C2|A|1026, 8K2D|1|C2|C|1028, 8K2D|1|C2|U|1029, 8K2D|1|C2|A|1030, 8K2D|1|C2|U|1031
- 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_8K2D_013 not in the Motif Atlas
- Homologous match to J4_8P9A_022
- Geometric discrepancy: 0.078
- The information below is about J4_8P9A_022
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_61885.6
- Basepair signature
- cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F
- Number of instances in this motif group
- 4
Unit IDs
8K2D|1|C2|A|622
8K2D|1|C2|A|623
8K2D|1|C2|G|624
*
8K2D|1|C2|C|975
8K2D|1|C2|G|976
8K2D|1|C2|A|977
8K2D|1|C2|A|978
8K2D|1|C2|A|979
8K2D|1|C2|G|980
*
8K2D|1|C2|C|1021
8K2D|1|C2|C|1022
8K2D|1|C2|A|1023
8K2D|1|C2|U|1024
8K2D|1|C2|A|1025
8K2D|1|C2|A|1026
8K2D|1|C2|A|1027
8K2D|1|C2|C|1028
8K2D|1|C2|U|1029
8K2D|1|C2|A|1030
8K2D|1|C2|U|1031
8K2D|1|C2|G|1032
*
8K2D|1|C2|U|1103
8K2D|1|C2|U|1104
Current chains
- Chain C2
- 18S rRNA
Nearby chains
- Chain C1
- Large subunit ribosomal RNA; LSU rRNA
- Chain Ln
- Large ribosomal subunit protein eL41A
- Chain Lp
- Large ribosomal subunit protein eL43A
- Chain SL
- Small ribosomal subunit protein uS17A
- Chain SN
- 40S ribosomal protein S13
- Chain SO
- 40S ribosomal protein S14-A
- Chain SW
- 40S ribosomal protein S22-A
- Chain SX
- 40S ribosomal protein S23-A
- Chain Sa
- Small ribosomal subunit protein eS26B
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