J3_6ZVK_047
3D structure
- PDB id
- 6ZVK (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3.49 Å
Loop
- Sequence
- AGAUGG*CGUUCCGAAGGG*CGGCCGAU
- Length
- 26 nucleotides
- Bulged bases
- 6ZVK|1|e2|C|2470, 6ZVK|1|e2|A|2472, 6ZVK|1|e2|G|2475, 6ZVK|1|e2|G|2503, 6ZVK|1|e2|C|2504, 6ZVK|1|e2|C|2505
- 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_6ZVK_047 not in the Motif Atlas
- Homologous match to J3_8GLP_031
- Geometric discrepancy: 0.4238
- The information below is about J3_8GLP_031
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_53783.2
- Basepair signature
- cWW-tSH-tHW-F-tWW-F-tHS-F-cWW-cWW-F-tWW-F
- Number of instances in this motif group
- 3
Unit IDs
6ZVK|1|e2|A|2451
6ZVK|1|e2|G|2452
6ZVK|1|e2|A|2453
6ZVK|1|e2|U|2454
6ZVK|1|e2|G|2455
6ZVK|1|e2|G|2456
*
6ZVK|1|e2|C|2465
6ZVK|1|e2|G|2466
6ZVK|1|e2|U|2467
6ZVK|1|e2|U|2468
6ZVK|1|e2|C|2469
6ZVK|1|e2|C|2470
6ZVK|1|e2|G|2471
6ZVK|1|e2|A|2472
6ZVK|1|e2|A|2473
6ZVK|1|e2|G|2474
6ZVK|1|e2|G|2475
6ZVK|1|e2|G|2476
*
6ZVK|1|e2|C|2501
6ZVK|1|e2|G|2502
6ZVK|1|e2|G|2503
6ZVK|1|e2|C|2504
6ZVK|1|e2|C|2505
6ZVK|1|e2|G|2506
6ZVK|1|e2|A|2507
6ZVK|1|e2|U|2508
Current chains
- Chain e2
- 28S RIBOSOMAL RNA
Nearby chains
- Chain 12
- Ribosomal protein L15
- Chain 92
- 60S RIBOSOMAL PROTEIN UL2
- Chain C2
- Ribosomal protein L37
- Chain V2
- 60S RIBOSOMAL PROTEIN EL8
- Chain h2
- 5.8S ribosomal RNA; 5.8S rRNA
- Chain m2
- 60S RIBOSOMAL PROTEIN UL23
Coloring options: