J3_5NDK_062
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
- GCC*GCCUAGUGAACC*GAUCAAC
- Length
- 22 nucleotides
- Bulged bases
- 5NDK|1|14|A|2403, 5NDK|1|14|U|2405, 5NDK|1|14|A|2441
- 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_062 not in the Motif Atlas
- Homologous match to J3_9DFE_015
- Geometric discrepancy: 0.0919
- The information below is about J3_9DFE_015
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_04772.1
- Basepair signature
- cWW-F-tHH-cWW-tHW-tHW-F-cWW-F-F-F-F-F
- Number of instances in this motif group
- 8
Unit IDs
5NDK|1|14|G|2297
5NDK|1|14|C|2298
5NDK|1|14|C|2299
*
5NDK|1|14|G|2399
5NDK|1|14|C|2400
5NDK|1|14|C|2401
5NDK|1|14|U|2402
5NDK|1|14|A|2403
5NDK|1|14|G|2404
5NDK|1|14|U|2405
5NDK|1|14|G|2406
5NDK|1|14|A|2407
5NDK|1|14|A|2408
5NDK|1|14|C|2409
5NDK|1|14|C|2410
*
5NDK|1|14|G|2436
5NDK|1|14|A|2437
5NDK|1|14|U|2438
5NDK|1|14|C|2439
5NDK|1|14|A|2440
5NDK|1|14|A|2441
5NDK|1|14|C|2442
Current chains
- Chain 14
- 23S ribosomal RNA
Nearby chains
- Chain 35
- 50S ribosomal protein L15
- Chain E5
- 50S ribosomal protein L27
- Chain F5
- 50S ribosomal protein L28
- Chain M5
- 50S ribosomal protein L35
- Chain V4
- Transfer RNA; tRNA
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