J5_5NDK_019
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
- UUUA*UUUG*CG*CG*CGGAUAAAA
- Length
- 21 nucleotides
- Bulged bases
- 5NDK|1|1H|U|2101, 5NDK|1|1H|G|2443, 5NDK|1|1H|G|2444, 5NDK|1|1H|A|2445, 5NDK|1|1H|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_5NDK_019 not in the Motif Atlas
- Homologous match to J5_9DFE_007
- Geometric discrepancy: 0.0738
- 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
5NDK|1|1H|U|2099
5NDK|1|1H|U|2100
5NDK|1|1H|U|2101
5NDK|1|1H|A|2102
*
5NDK|1|1H|U|2258
5NDK|1|1H|U|2259
5NDK|1|1H|U|2260
5NDK|1|1H|G|2261
*
5NDK|1|1H|C|2273
5NDK|1|1H|G|2274
*
5NDK|1|1H|C|2296
5NDK|1|1H|G|2297
*
5NDK|1|1H|C|2442
5NDK|1|1H|G|2443
5NDK|1|1H|G|2444
5NDK|1|1H|A|2445
5NDK|1|1H|U|2446
5NDK|1|1H|A|2447
5NDK|1|1H|A|2448
5NDK|1|1H|A|2449
5NDK|1|1H|A|2450
Current chains
- Chain 1H
- 23S ribosomal RNA
Nearby chains
- Chain 11
- 50S ribosomal protein L2
- Chain 78
- 50S ribosomal protein L15
- Chain I8
- 50S ribosomal protein L27
- Chain J8
- 50S ribosomal protein L28
- Chain Q8
- 50S ribosomal protein L35
- Chain V1
- Transfer RNA; tRNA
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