J5_9YDD_004
3D structure
- PDB id
- 9YDD (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Eukaryotic 80S ribosome with A/A, P/P tRNAs from uL16 P-site loop mutants in bypass condition
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.66 Å
Loop
- Sequence
- GCAAAAUAG*UG*UG*CGGACAAGG*CAC
- Length
- 25 nucleotides
- Bulged bases
- 9YDD|1|A|G|2116, 9YDD|1|A|G|2121
- 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
- J5_9YDD_004 not in the Motif Atlas
- Homologous match to J5_9PN5_004
- Geometric discrepancy: 0.0425
- The information below is about J5_9PN5_004
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_99177.4
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 12
Unit IDs
9YDD|1|A|G|1906
9YDD|1|A|C|1907
9YDD|1|A|A|1908
9YDD|1|A|A|1909
9YDD|1|A|A|1910
9YDD|1|A|A|1911
9YDD|1|A|U|1912
9YDD|1|A|A|1913
9YDD|1|A|G|1914
*
9YDD|1|A|U|1938
9YDD|1|A|G|1939
*
9YDD|1|A|U|2109
9YDD|1|A|G|2110
*
9YDD|1|A|C|2114
9YDD|1|A|G|2115
9YDD|1|A|G|2116
9YDD|1|A|A|2117
9YDD|1|A|C|2118
9YDD|1|A|A|2119
9YDD|1|A|A|2120
9YDD|1|A|G|2121
9YDD|1|A|G|2122
*
9YDD|1|A|C|2331
9YDD|1|A|A|2332
9YDD|1|A|C|2333
Current chains
- Chain A
- 25S RNA
Nearby chains
- Chain E
- Small subunit ribosomal RNA; SSU rRNA
- Chain LE
- 60S ribosomal protein L3
- Chain LT
- 60S ribosomal protein L19-A
- Chain LX
- 60S ribosomal protein L23-A
- Chain LY
- 60S ribosomal protein L24-A
Coloring options: