J5_5NDJ_009
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
- UUUA*UUUG*CG*CG*CGGAUAAAA
- Length
- 21 nucleotides
- Bulged bases
- 5NDJ|1|14|U|2101, 5NDJ|1|14|G|2443, 5NDJ|1|14|G|2444, 5NDJ|1|14|A|2445, 5NDJ|1|14|U|2446
- 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
- J5_5NDJ_009 not in the Motif Atlas
- Homologous match to J5_9DFE_007
- Geometric discrepancy: 0.0736
- The information below is about J5_9DFE_007
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_39529.1
- Basepair signature
- cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 3
Unit IDs
5NDJ|1|14|U|2099
5NDJ|1|14|U|2100
5NDJ|1|14|U|2101
5NDJ|1|14|A|2102
*
5NDJ|1|14|U|2258
5NDJ|1|14|U|2259
5NDJ|1|14|U|2260
5NDJ|1|14|G|2261
*
5NDJ|1|14|C|2273
5NDJ|1|14|G|2274
*
5NDJ|1|14|C|2296
5NDJ|1|14|G|2297
*
5NDJ|1|14|C|2442
5NDJ|1|14|G|2443
5NDJ|1|14|G|2444
5NDJ|1|14|A|2445
5NDJ|1|14|U|2446
5NDJ|1|14|A|2447
5NDJ|1|14|A|2448
5NDJ|1|14|A|2449
5NDJ|1|14|A|2450
Current chains
- Chain 14
- 23S ribosomal RNA
Nearby chains
- Chain 19
- 50S ribosomal protein L2
- Chain 35
- 50S ribosomal protein L15
- Chain E5
- 50S ribosomal protein L27
- Chain F5
- 50S ribosomal protein L28
- Chain V4
- Transfer RNA; tRNA
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