J4_8JDK_001
3D structure
- PDB id
- 8JDK (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.26 Å
Loop
- Sequence
- UU(1MA)G*UCC*GAGA(5MC)(5MC)*GA
- Length
- 15 nucleotides
- Bulged bases
- 8JDK|1|B|U|8, 8JDK|1|B|5MC|47
- QA status
- Modified nucleotides: 1MA, 5MC
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_8JDK_001 not in the Motif Atlas
- Homologous match to J4_1IL2_001
- Geometric discrepancy: 0.16
- The information below is about J4_1IL2_001
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_95067.1
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 48
Unit IDs
8JDK|1|B|U|7
8JDK|1|B|U|8
8JDK|1|B|1MA|9
8JDK|1|B|G|10
*
8JDK|1|B|U|25
8JDK|1|B|C|26
8JDK|1|B|C|27
*
8JDK|1|B|G|43
8JDK|1|B|A|44
8JDK|1|B|G|45
8JDK|1|B|A|46
8JDK|1|B|5MC|47
8JDK|1|B|5MC|48
*
8JDK|1|B|G|64
8JDK|1|B|A|65
Current chains
- Chain B
- tRNA (Asp)
Nearby chains
- Chain AE
- 40S ribosomal protein S18
- Chain AL
- 40S ribosomal protein S25
- Chain D
- Large subunit ribosomal RNA; LSU rRNA
- Chain O
- 60S ribosomal protein L10-like
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