J3_4D5Y_017
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
- CGAUAGUCAACAAGUAC*GGAAAG*CUCG
- Length
- 27 nucleotides
- Bulged bases
- 4D5Y|1|2|U|345, 4D5Y|1|2|A|353, 4D5Y|1|3|C|23
- 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
- J3_4D5Y_017 not in the Motif Atlas
- Homologous match to J3_8P9A_045
- Geometric discrepancy: 0.1475
- The information below is about J3_8P9A_045
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_30040.2
- Basepair signature
- cWW-tWH-F-cWW-tSS-tHH-cSS-tWH-tSW-tHS-cWW-tWH-F-cSH-tSS-F-F
- Number of instances in this motif group
- 7
Unit IDs
4D5Y|1|2|C|342
4D5Y|1|2|G|343
4D5Y|1|2|A|344
4D5Y|1|2|U|345
4D5Y|1|2|A|346
4D5Y|1|2|G|347
4D5Y|1|2|U|348
4D5Y|1|2|C|349
4D5Y|1|2|A|350
4D5Y|1|2|A|351
4D5Y|1|2|C|352
4D5Y|1|2|A|353
4D5Y|1|2|A|354
4D5Y|1|2|G|355
4D5Y|1|2|U|356
4D5Y|1|2|A|357
4D5Y|1|2|C|358
*
4D5Y|1|2|G|365
4D5Y|1|2|G|366
4D5Y|1|2|A|367
4D5Y|1|2|A|368
4D5Y|1|2|A|369
4D5Y|1|2|G|370
*
4D5Y|1|3|C|21
4D5Y|1|3|U|22
4D5Y|1|3|C|23
4D5Y|1|3|G|24
Current chains
- Chain 2
- 28S Ribosomal RNA
- Chain 3
- 5.8S Ribosomal RNA
Nearby chains
- Chain C
- 60S RIBOSOMAL PROTEIN UL4
- Chain Y
- 60S RIBOSOMAL PROTEIN UL24
- Chain j
- 60S RIBOSOMAL PROTEIN EL37
- Chain l
- 60S RIBOSOMAL PROTEIN EL39
Coloring options: