J4_8JDM_017
3D structure
- PDB id
- 8JDM (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state)
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.67 Å
Loop
- Sequence
- AUA(2MG)*C(M2G)(M2G)*UAG(G7M)(H2U)(5MC)G*CU
- Length
- 16 nucleotides
- Bulged bases
- 8JDM|1|B|U|8, 8JDM|1|B|H2U|47, 8JDM|1|B|5MC|48
- QA status
- Modified nucleotides: 2MG, M2G, G7M, H2U, 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_8JDM_017 not in the Motif Atlas
- Homologous match to J4_3KFU_002
- Geometric discrepancy: 0.3434
- The information below is about J4_3KFU_002
- 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
8JDM|1|B|A|7
8JDM|1|B|U|8
8JDM|1|B|A|9
8JDM|1|B|2MG|10
*
8JDM|1|B|C|25
8JDM|1|B|M2G|26
8JDM|1|B|M2G|27
*
8JDM|1|B|U|43
8JDM|1|B|A|44
8JDM|1|B|G|45
8JDM|1|B|G7M|46
8JDM|1|B|H2U|47
8JDM|1|B|5MC|48
8JDM|1|B|G|49
*
8JDM|1|B|C|65
8JDM|1|B|U|66
Current chains
- Chain B
- tRNA (Tyr)
Nearby chains
- Chain AE
- 40S ribosomal protein S18
- Chain D
- Large subunit ribosomal RNA; LSU rRNA
- Chain t
- 60S ribosomal protein L36a
- Chain w
- Small subunit ribosomal RNA; SSU rRNA
Coloring options: