J3_5NDK_012
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
- CAAUG*CCCAGUUC*GCCG
- Length
- 17 nucleotides
- Bulged bases
- 5NDK|1|13|U|1867, 5NDK|1|13|U|1929
- 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_012 not in the Motif Atlas
- Homologous match to J3_4LFB_009
- Geometric discrepancy: 0.1032
- The information below is about J3_4LFB_009
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_03192.1
- Basepair signature
- cWW-cSS-tHW-F-F-F-cWW-cWW-cSH-cSH-F
- Number of instances in this motif group
- 5
Unit IDs
5NDK|1|13|C|1864
5NDK|1|13|A|1865
5NDK|1|13|A|1866
5NDK|1|13|U|1867
5NDK|1|13|G|1868
*
5NDK|1|13|C|1923
5NDK|1|13|C|1924
5NDK|1|13|C|1925
5NDK|1|13|A|1926
5NDK|1|13|G|1927
5NDK|1|13|U|1928
5NDK|1|13|U|1929
5NDK|1|13|C|1930
*
5NDK|1|13|G|1961
5NDK|1|13|C|1962
5NDK|1|13|C|1963
5NDK|1|13|G|1964
Current chains
- Chain 13
- 16S ribosomal RNA
Nearby chains
- Chain 1F
- 30S ribosomal protein Thx
- Chain 4I
- 30S ribosomal protein S13
- Chain 6E
- 30S ribosomal protein S7
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