J4_5NDJ_030
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
- AUAG*CAG*CGUGUCC*GU
- Length
- 16 nucleotides
- Bulged bases
- 5NDJ|1|W1|U|8, 5NDJ|1|W1|U|47, 5NDJ|1|W1|C|48
- 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
- J4_5NDJ_030 not in the Motif Atlas
- Homologous match to J4_6CFJ_015
- Geometric discrepancy: 0.3956
- The information below is about J4_6CFJ_015
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_70449.29
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 54
Unit IDs
5NDJ|1|W1|A|7
5NDJ|1|W1|U|8
5NDJ|1|W1|A|9
5NDJ|1|W1|G|10
*
5NDJ|1|W1|C|25
5NDJ|1|W1|A|26
5NDJ|1|W1|G|27
*
5NDJ|1|W1|C|43
5NDJ|1|W1|G|44
5NDJ|1|W1|U|45
5NDJ|1|W1|G|46
5NDJ|1|W1|U|47
5NDJ|1|W1|C|48
5NDJ|1|W1|C|49
*
5NDJ|1|W1|G|65
5NDJ|1|W1|U|66
Current chains
- Chain W1
- tRNA-Phe
Nearby chains
- Chain 1H
- Large subunit ribosomal RNA; LSU rRNA
Coloring options: