J5_8RJD_001
3D structure
- PDB id
- 8RJD (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-TRAP, open conformation 2
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.78574 Å
Loop
- Sequence
- GUG*CGAUGAAG*CGAACG*CG*UAC
- Length
- 22 nucleotides
- Bulged bases
- 8RJD|1|v|U|38
- 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
- J5_8RJD_001 not in the Motif Atlas
- Homologous match to J5_8P9A_010
- Geometric discrepancy: 0.1037
- The information below is about J5_8P9A_010
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_01737.2
- Basepair signature
- cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F
- Number of instances in this motif group
- 5
Unit IDs
8RJD|1|K|G|19
8RJD|1|K|U|20
8RJD|1|K|G|21
*
8RJD|1|v|C|35
8RJD|1|v|G|36
8RJD|1|v|A|37
8RJD|1|v|U|38
8RJD|1|v|G|39
8RJD|1|v|A|40
8RJD|1|v|A|41
8RJD|1|v|G|42
*
8RJD|1|v|C|101
8RJD|1|v|G|102
8RJD|1|v|A|103
8RJD|1|v|A|104
8RJD|1|v|C|105
8RJD|1|v|G|106
*
8RJD|1|v|C|113
8RJD|1|v|G|114
*
8RJD|1|v|U|136
8RJD|1|v|A|137
8RJD|1|v|C|138
Current chains
- Chain K
- 28S rRNA
- Chain v
- 5.8S rRNA
Nearby chains
- Chain N
- Ribosomal protein L15
- Chain X
- Large ribosomal subunit protein uL23 N-terminal domain-containing protein
- Chain h
- 60S ribosomal protein L35
- Chain j
- Ribosomal protein L37
- Chain l
- 60S ribosomal protein L39-like
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