J4_5DGV_023
3D structure
- PDB id
- 5DGV (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.1 Å
Loop
- Sequence
- AAG*CGAAAG*CCAUAAACUAUG*UU
- Length
- 23 nucleotides
- Bulged bases
- 5DGV|1|6|A|623, 5DGV|1|6|A|1026, 5DGV|1|6|C|1028, 5DGV|1|6|U|1029, 5DGV|1|6|A|1030, 5DGV|1|6|U|1031
- 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_5DGV_023 not in the Motif Atlas
- Homologous match to J4_8P9A_022
- Geometric discrepancy: 0.0402
- The information below is about J4_8P9A_022
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_14595.1
- Basepair signature
- cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F
- Number of instances in this motif group
- 5
Unit IDs
5DGV|1|6|A|622
5DGV|1|6|A|623
5DGV|1|6|G|624
*
5DGV|1|6|C|975
5DGV|1|6|G|976
5DGV|1|6|A|977
5DGV|1|6|A|978
5DGV|1|6|A|979
5DGV|1|6|G|980
*
5DGV|1|6|C|1021
5DGV|1|6|C|1022
5DGV|1|6|A|1023
5DGV|1|6|U|1024
5DGV|1|6|A|1025
5DGV|1|6|A|1026
5DGV|1|6|A|1027
5DGV|1|6|C|1028
5DGV|1|6|U|1029
5DGV|1|6|A|1030
5DGV|1|6|U|1031
5DGV|1|6|G|1032
*
5DGV|1|6|U|1103
5DGV|1|6|U|1104
Current chains
- Chain 6
- Saccharomyces cerevisiae S288c RDN37-1 miscRNA
Nearby chains
- Chain 5
- Large subunit ribosomal RNA; LSU rRNA
- Chain c1
- 40S ribosomal protein S11-A
- Chain c3
- 40S ribosomal protein S13
- Chain c4
- 40S ribosomal protein S14-A
- Chain d2
- 40S ribosomal protein S22-A
- Chain d3
- 40S ribosomal protein S23-A
- Chain d6
- 40S ribosomal protein S26-B
- Chain q1
- 60S ribosomal protein L41-A
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