J3_5NDK_068
3D structure
- PDB id
- 5NDK (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.95 Å
Loop
- Sequence
- GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC
- Length
- 28 nucleotides
- Bulged bases
- 5NDK|1|1H|U|531, 5NDK|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_5NDK_068 not in the Motif Atlas
- Homologous match to J3_9DFE_002
- Geometric discrepancy: 0.0631
- The information below is about J3_9DFE_002
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_17917.1
- Basepair signature
- cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F
- Number of instances in this motif group
- 9
Unit IDs
5NDK|1|1H|G|30
5NDK|1|1H|C|31
*
5NDK|1|1H|G|502
5NDK|1|1H|U|503
5NDK|1|1H|G|504
5NDK|1|1H|A|505
5NDK|1|1H|A|506
5NDK|1|1H|A|507
5NDK|1|1H|A|508
5NDK|1|1H|G|509
5NDK|1|1H|A|510
5NDK|1|1H|A|511
5NDK|1|1H|C|512
*
5NDK|1|1H|G|523
5NDK|1|1H|A|524
5NDK|1|1H|G|525
5NDK|1|1H|U|526
5NDK|1|1H|G|527
5NDK|1|1H|A|528
5NDK|1|1H|A|529
5NDK|1|1H|A|530
5NDK|1|1H|U|531
5NDK|1|1H|A|532
5NDK|1|1H|G|533
5NDK|1|1H|A|534
5NDK|1|1H|G|535
5NDK|1|1H|C|536
5NDK|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: