J4_8S8D_003
3D structure
- PDB id
- 8S8D (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2)
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3.45 Å
Loop
- Sequence
- AAG*CGAAAG*CCAUAAACUAUG*UU
- Length
- 23 nucleotides
- Bulged bases
- 8S8D|1|2|A|622, 8S8D|1|2|A|1025, 8S8D|1|2|C|1027, 8S8D|1|2|U|1028, 8S8D|1|2|A|1029, 8S8D|1|2|U|1030
- 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
- J4_8S8D_003 not in the Motif Atlas
- Homologous match to J4_8C3A_022
- Geometric discrepancy: 0.0701
- The information below is about J4_8C3A_022
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_61885.4
- Basepair signature
- cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F-F-F
- Number of instances in this motif group
- 5
Unit IDs
8S8D|1|2|A|621
8S8D|1|2|A|622
8S8D|1|2|G|623
*
8S8D|1|2|C|974
8S8D|1|2|G|975
8S8D|1|2|A|976
8S8D|1|2|A|977
8S8D|1|2|A|978
8S8D|1|2|G|979
*
8S8D|1|2|C|1020
8S8D|1|2|C|1021
8S8D|1|2|A|1022
8S8D|1|2|U|1023
8S8D|1|2|A|1024
8S8D|1|2|A|1025
8S8D|1|2|A|1026
8S8D|1|2|C|1027
8S8D|1|2|U|1028
8S8D|1|2|A|1029
8S8D|1|2|U|1030
8S8D|1|2|G|1031
*
8S8D|1|2|U|1102
8S8D|1|2|U|1103
Current chains
- Chain 2
- 18S ribosomal RNA
Nearby chains
- Chain L
- KLLA0A10483p
- Chain N
- KLLA0F18040p
- Chain O
- Small ribosomal subunit protein uS11
- Chain W
- Small ribosomal subunit protein uS8
- Chain X
- KLLA0B11231p
- Chain a
- 40S ribosomal protein S26
- Chain h
- 40S ribosomal protein L41-A
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