J9_4D5Y_002
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
- GUGGCGACC*GAGGAAAAGAAAC*GGAUU*AAGAG*CUAAAUACCGGCA*UGCGUCGAUGAAG*CGAACG*CG*UAC
- Length
- 69 nucleotides
- Bulged bases
- 4D5Y|1|2|A|66, 4D5Y|1|2|U|328, 4D5Y|1|2|C|331, 4D5Y|1|3|C|35, 4D5Y|1|3|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
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- Not in a motif group
- Basepair signature
- Not available
- Number of instances in this motif group
- 0
Unit IDs
4D5Y|1|2|G|19
4D5Y|1|2|U|20
4D5Y|1|2|G|21
4D5Y|1|2|G|22
4D5Y|1|2|C|23
4D5Y|1|2|G|24
4D5Y|1|2|A|25
4D5Y|1|2|C|26
4D5Y|1|2|C|27
*
4D5Y|1|2|G|55
4D5Y|1|2|A|56
4D5Y|1|2|G|57
4D5Y|1|2|G|58
4D5Y|1|2|A|59
4D5Y|1|2|A|60
4D5Y|1|2|A|61
4D5Y|1|2|A|62
4D5Y|1|2|G|63
4D5Y|1|2|A|64
4D5Y|1|2|A|65
4D5Y|1|2|A|66
4D5Y|1|2|C|67
*
4D5Y|1|2|G|74
4D5Y|1|2|G|75
4D5Y|1|2|A|76
4D5Y|1|2|U|77
4D5Y|1|2|U|78
*
4D5Y|1|2|A|105
4D5Y|1|2|A|106
4D5Y|1|2|G|107
4D5Y|1|2|A|108
4D5Y|1|2|G|109
*
4D5Y|1|2|C|323
4D5Y|1|2|U|324
4D5Y|1|2|A|325
4D5Y|1|2|A|326
4D5Y|1|2|A|327
4D5Y|1|2|U|328
4D5Y|1|2|A|329
4D5Y|1|2|C|330
4D5Y|1|2|C|331
4D5Y|1|2|G|332
4D5Y|1|2|G|333
4D5Y|1|2|C|334
4D5Y|1|2|A|335
*
4D5Y|1|3|U|30
4D5Y|1|3|G|31
4D5Y|1|3|C|32
4D5Y|1|3|G|33
4D5Y|1|3|U|34
4D5Y|1|3|C|35
4D5Y|1|3|G|36
4D5Y|1|3|A|37
4D5Y|1|3|U|38
4D5Y|1|3|G|39
4D5Y|1|3|A|40
4D5Y|1|3|A|41
4D5Y|1|3|G|42
*
4D5Y|1|3|C|101
4D5Y|1|3|G|102
4D5Y|1|3|A|103
4D5Y|1|3|A|104
4D5Y|1|3|C|105
4D5Y|1|3|G|106
*
4D5Y|1|3|C|113
4D5Y|1|3|G|114
*
4D5Y|1|3|U|136
4D5Y|1|3|A|137
4D5Y|1|3|C|138
Current chains
- Chain 2
- 28S Ribosomal RNA
- Chain 3
- 5.8S Ribosomal RNA
Nearby chains
- Chain L
- 60S RIBOSOMAL PROTEIN EL13
- Chain N
- 60S RIBOSOMAL PROTEIN EL15
- Chain X
- 60S RIBOSOMAL PROTEIN UL23
- Chain h
- 60S RIBOSOMAL PROTEIN UL29
- Chain i
- 60S RIBOSOMAL PROTEIN EL36
- Chain j
- 60S RIBOSOMAL PROTEIN EL37
- Chain l
- 60S RIBOSOMAL PROTEIN EL39
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