J3_4D5Y_031
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
- GUGAGGCGGGGGGGCG*CUCGCUUCUGGCGCCAAG*CGACCCGCUC
- Length
- 44 nucleotides
- Bulged bases
- 4D5Y|1|2|G|4052, 4D5Y|1|2|G|4054, 4D5Y|1|2|G|4055, 4D5Y|1|2|G|4063, 4D5Y|1|2|G|4082, 4D5Y|1|2|C|4083, 4D5Y|1|2|U|4084, 4D5Y|1|2|U|4085, 4D5Y|1|2|C|4086, 4D5Y|1|2|U|4087, 4D5Y|1|2|G|4088, 4D5Y|1|2|C|4092, 4D5Y|1|2|C|4093, 4D5Y|1|2|C|4122, 4D5Y|1|2|U|4123
- 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|4050
4D5Y|1|2|U|4051
4D5Y|1|2|G|4052
4D5Y|1|2|A|4053
4D5Y|1|2|G|4054
4D5Y|1|2|G|4055
4D5Y|1|2|C|4056
4D5Y|1|2|G|4057
4D5Y|1|2|G|4058
4D5Y|1|2|G|4059
4D5Y|1|2|G|4060
4D5Y|1|2|G|4061
4D5Y|1|2|G|4062
4D5Y|1|2|G|4063
4D5Y|1|2|C|4064
4D5Y|1|2|G|4065
*
4D5Y|1|2|C|4079
4D5Y|1|2|U|4080
4D5Y|1|2|C|4081
4D5Y|1|2|G|4082
4D5Y|1|2|C|4083
4D5Y|1|2|U|4084
4D5Y|1|2|U|4085
4D5Y|1|2|C|4086
4D5Y|1|2|U|4087
4D5Y|1|2|G|4088
4D5Y|1|2|G|4089
4D5Y|1|2|C|4090
4D5Y|1|2|G|4091
4D5Y|1|2|C|4092
4D5Y|1|2|C|4093
4D5Y|1|2|A|4094
4D5Y|1|2|A|4095
4D5Y|1|2|G|4096
*
4D5Y|1|2|C|4115
4D5Y|1|2|G|4116
4D5Y|1|2|A|4117
4D5Y|1|2|C|4118
4D5Y|1|2|C|4119
4D5Y|1|2|C|4120
4D5Y|1|2|G|4121
4D5Y|1|2|C|4122
4D5Y|1|2|U|4123
4D5Y|1|2|C|4124
Current chains
- Chain 2
- 28S Ribosomal RNA
Nearby chains
- Chain 3
- 5.8S ribosomal RNA; 5.8S rRNA
- Chain A
- 60S RIBOSOMAL PROTEIN UL2
- Chain G
- 60S RIBOSOMAL PROTEIN EL8
- Chain X
- 60S RIBOSOMAL PROTEIN UL23
- Chain Z
- 60S RIBOSOMAL PROTEIN EL27
- Chain c
- 60S RIBOSOMAL PROTEIN EL30
- Chain g
- 60S RIBOSOMAL PROTEIN EL34
- Chain p
- 60S RIBOSOMAL PROTEIN EL43
Coloring options: