J5_4D5Y_003
3D structure
- PDB id
- 4D5Y (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 9 Å
Loop
- Sequence
- GCAAGCCGG*UG*UG*CGGACCAGG*CAC
- Length
- 25 nucleotides
- Bulged bases
- 4D5Y|1|2|G|3589, 4D5Y|1|2|G|3594
- QA status
- Unknown status
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_4D5Y_003 not in the Motif Atlas
- Homologous match to J5_8P9A_013
- Geometric discrepancy: 0.1787
- The information below is about J5_8P9A_013
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_99177.1
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 10
Unit IDs
4D5Y|1|2|G|2832
4D5Y|1|2|C|2833
4D5Y|1|2|A|2834
4D5Y|1|2|A|2835
4D5Y|1|2|G|2836
4D5Y|1|2|C|2837
4D5Y|1|2|C|2838
4D5Y|1|2|G|2839
4D5Y|1|2|G|2840
*
4D5Y|1|2|U|2864
4D5Y|1|2|G|2865
*
4D5Y|1|2|U|3582
4D5Y|1|2|G|3583
*
4D5Y|1|2|C|3587
4D5Y|1|2|G|3588
4D5Y|1|2|G|3589
4D5Y|1|2|A|3590
4D5Y|1|2|C|3591
4D5Y|1|2|C|3592
4D5Y|1|2|A|3593
4D5Y|1|2|G|3594
4D5Y|1|2|G|3595
*
4D5Y|1|2|C|3804
4D5Y|1|2|A|3805
4D5Y|1|2|C|3806
Current chains
- Chain 2
- 28S Ribosomal RNA
Nearby chains
- Chain B
- 60S RIBOSOMAL PROTEIN UL3
- Chain R
- 60S RIBOSOMAL PROTEIN UL19
- Chain V
- 60S RIBOSOMAL PROTEIN UL14
- Chain W
- 60S RIBOSOMAL PROTEIN EL24
Coloring options: