J5_8JDK_002
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
- GGAGU(OMC)*GGAC*GUUC*GCC*GCAGAU(OMC)
- Length
- 24 nucleotides
- Bulged bases
- 8JDK|1|D|C|2289, 8JDK|1|D|U|2350
- QA status
- Modified nucleotides: OMC
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_8JDK_002 not in the Motif Atlas
- Homologous match to J5_8P9A_011
- Geometric discrepancy: 0.0661
- The information below is about J5_8P9A_011
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_08384.1
- Basepair signature
- cWW-tSH-tSS-tHW-F-cWS-F-tWS-cWW-cWW-F-cWW-cWW-F
- Number of instances in this motif group
- 4
Unit IDs
8JDK|1|D|G|1335
8JDK|1|D|G|1336
8JDK|1|D|A|1337
8JDK|1|D|G|1338
8JDK|1|D|U|1339
8JDK|1|D|OMC|1340
*
8JDK|1|D|G|1516
8JDK|1|D|G|1517
8JDK|1|D|A|1518
8JDK|1|D|C|1519
*
8JDK|1|D|G|1658
8JDK|1|D|U|1659
8JDK|1|D|U|1660
8JDK|1|D|C|1661
*
8JDK|1|D|G|2288
8JDK|1|D|C|2289
8JDK|1|D|C|2290
*
8JDK|1|D|G|2345
8JDK|1|D|C|2346
8JDK|1|D|A|2347
8JDK|1|D|G|2348
8JDK|1|D|A|2349
8JDK|1|D|U|2350
8JDK|1|D|OMC|2351
Current chains
- Chain D
- 28S ribosomal RNA
Nearby chains
- Chain F
- 5.8S ribosomal RNA; 5.8S rRNA
- Chain I
- 60S ribosomal protein L4
- Chain Q
- 60S ribosomal protein L13
- Chain S
- 60S ribosomal protein L15
- Chain f
- 60S ribosomal protein L27a
- Chain j
- 60S ribosomal protein L32
- Chain v
- 60S ribosomal protein L28
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