J3_5NDJ_067
3D structure
- PDB id
- 5NDJ (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.15 Å
Loop
- Sequence
- GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC
- Length
- 28 nucleotides
- Bulged bases
- 5NDJ|1|1H|U|531, 5NDJ|1|1H|G|535
- 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
- J3_5NDJ_067 not in the Motif Atlas
- Homologous match to J3_9DFE_002
- Geometric discrepancy: 0.0667
- The information below is about J3_9DFE_002
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_92134.2
- Basepair signature
- cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW
- Number of instances in this motif group
- 6
Unit IDs
5NDJ|1|1H|G|30
5NDJ|1|1H|C|31
*
5NDJ|1|1H|G|502
5NDJ|1|1H|U|503
5NDJ|1|1H|G|504
5NDJ|1|1H|A|505
5NDJ|1|1H|A|506
5NDJ|1|1H|A|507
5NDJ|1|1H|A|508
5NDJ|1|1H|G|509
5NDJ|1|1H|A|510
5NDJ|1|1H|A|511
5NDJ|1|1H|C|512
*
5NDJ|1|1H|G|523
5NDJ|1|1H|A|524
5NDJ|1|1H|G|525
5NDJ|1|1H|U|526
5NDJ|1|1H|G|527
5NDJ|1|1H|A|528
5NDJ|1|1H|A|529
5NDJ|1|1H|A|530
5NDJ|1|1H|U|531
5NDJ|1|1H|A|532
5NDJ|1|1H|G|533
5NDJ|1|1H|A|534
5NDJ|1|1H|G|535
5NDJ|1|1H|C|536
5NDJ|1|1H|C|537
Current chains
- Chain 1H
- 23S ribosomal RNA
Nearby chains
- Chain C8
- 50S ribosomal protein L20
- Chain E8
- 50S ribosomal protein L22
- Chain G8
- 50S ribosomal protein L24
Coloring options: