J5_7OYD_002
3D structure
- PDB id
- 7OYD (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Cryo-EM structure of a rabbit 80S ribosome with zebrafish Dap1b
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.3 Å
Loop
- Sequence
- GGAGUC*G(2MG)AC*G(I4U)UC*GCC*GCAGAUC
- Length
- 24 nucleotides
- Bulged bases
- 7OYD|1|5|C|2293, 7OYD|1|5|U|2354
- QA status
- Modified nucleotides: 2MG, I4U
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
- J5_7OYD_002 not in the Motif Atlas
- Homologous match to J5_8P9A_011
- Geometric discrepancy: 0.0611
- The information below is about J5_8P9A_011
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_63811.1
- Basepair signature
- cWW-tSH-tSS-tHW-F-cWS-F-tWS-cWW-cWW-F-cWW-cWW-F
- Number of instances in this motif group
- 2
Unit IDs
7OYD|1|5|G|1339
7OYD|1|5|G|1340
7OYD|1|5|A|1341
7OYD|1|5|G|1342
7OYD|1|5|U|1343
7OYD|1|5|C|1344
*
7OYD|1|5|G|1520
7OYD|1|5|2MG|1521
7OYD|1|5|A|1522
7OYD|1|5|C|1523
*
7OYD|1|5|G|1662
7OYD|1|5|I4U|1663
7OYD|1|5|U|1664
7OYD|1|5|C|1665
*
7OYD|1|5|G|2292
7OYD|1|5|C|2293
7OYD|1|5|C|2294
*
7OYD|1|5|G|2349
7OYD|1|5|C|2350
7OYD|1|5|A|2351
7OYD|1|5|G|2352
7OYD|1|5|A|2353
7OYD|1|5|U|2354
7OYD|1|5|C|2355
Current chains
- Chain 5
- 28S rRNA
Nearby chains
- Chain 8
- 5.8S ribosomal RNA; 5.8S rRNA
- Chain C
- 60S ribosomal protein L4
- Chain L
- L13
- Chain N
- Ribosomal protein L15
- Chain a
- uL15
- Chain e
- eL32
- Chain r
- eL28
- Chain s1
- Dap1b
Coloring options: