J5_5NDJ_007
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
- GCAAGUUGG*UG*CC*GUGAACAGG*CGC
- Length
- 25 nucleotides
- Bulged bases
- 5NDJ|1|14|G|1792, 5NDJ|1|14|G|1797
- 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_007 not in the Motif Atlas
- Homologous match to J5_9DFE_005
- Geometric discrepancy: 0.1087
- The information below is about J5_9DFE_005
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_62523.6
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 7
Unit IDs
5NDJ|1|14|G|1724
5NDJ|1|14|C|1725
5NDJ|1|14|A|1726
5NDJ|1|14|A|1727
5NDJ|1|14|G|1728
5NDJ|1|14|U|1729
5NDJ|1|14|U|1730
5NDJ|1|14|G|1731
5NDJ|1|14|G|1732
*
5NDJ|1|14|U|1756
5NDJ|1|14|G|1757
*
5NDJ|1|14|C|1785
5NDJ|1|14|C|1786
*
5NDJ|1|14|G|1790
5NDJ|1|14|U|1791
5NDJ|1|14|G|1792
5NDJ|1|14|A|1793
5NDJ|1|14|A|1794
5NDJ|1|14|C|1795
5NDJ|1|14|A|1796
5NDJ|1|14|G|1797
5NDJ|1|14|G|1798
*
5NDJ|1|14|C|2013
5NDJ|1|14|G|2014
5NDJ|1|14|C|2015
Current chains
- Chain 14
- 23S ribosomal RNA
Nearby chains
- Chain 1G
- Small subunit ribosomal RNA; SSU rRNA
- Chain 25
- 50S ribosomal protein L14
- Chain 29
- 50S ribosomal protein L3
- Chain 75
- 50S ribosomal protein L19
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