J5_5NDG_007
3D structure
- PDB id
- 5NDG (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of geneticin (G418) bound to the yeast 80S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 3.7 Å
Loop
- Sequence
- CAUG*CGAAUGGC*GAG*CAC*GGCAG
- Length
- 23 nucleotides
- Bulged bases
- 5NDG|1|2|A|93, 5NDG|1|2|C|424
- 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_5NDG_007 not in the Motif Atlas
- Homologous match to J5_8P9A_017
- Geometric discrepancy: 0.0772
- The information below is about J5_8P9A_017
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_58574.1
- Basepair signature
- cWW-F-tSS-cSS-F-cWW-cWW-cWW-F-F-cWW-F-F-cWW-cWW
- Number of instances in this motif group
- 5
Unit IDs
5NDG|1|2|C|54
5NDG|1|2|A|55
5NDG|1|2|U|56
5NDG|1|2|G|57
*
5NDG|1|2|C|90
5NDG|1|2|G|91
5NDG|1|2|A|92
5NDG|1|2|A|93
5NDG|1|2|U|94
5NDG|1|2|G|95
5NDG|1|2|G|96
5NDG|1|2|C|97
*
5NDG|1|2|G|386
5NDG|1|2|A|387
5NDG|1|2|G|388
*
5NDG|1|2|C|409
5NDG|1|2|A|410
5NDG|1|2|C|411
*
5NDG|1|2|G|422
5NDG|1|2|G|423
5NDG|1|2|C|424
5NDG|1|2|A|425
5NDG|1|2|G|426
Current chains
- Chain 2
- 18S ribosomal RNA
Nearby chains
- Chain D4
- 40S ribosomal protein S24-A
- Chain N3
- 60S ribosomal protein L23-A
- Chain S4
- 40S ribosomal protein S4-A
- Chain S6
- 40S ribosomal protein S6-A
- Chain S8
- 40S ribosomal protein S8-A
- Chain S9
- 40S ribosomal protein S9-A
Coloring options: