J3_5NDG_052
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
- CCAGAC*GGGUG*UUAGACG
- Length
- 18 nucleotides
- Bulged bases
- 5NDG|1|6|A|1217, 5NDG|1|6|G|1445
- 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_5NDG_052 not in the Motif Atlas
- Homologous match to J3_4V88_038
- Geometric discrepancy: 0.0804
- The information below is about J3_4V88_038
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_75993.1
- Basepair signature
- cWW-tWH-F-F-tHS-cWW-cWW-cWW-F
- Number of instances in this motif group
- 2
Unit IDs
5NDG|1|6|C|1215
5NDG|1|6|C|1216
5NDG|1|6|A|1217
5NDG|1|6|G|1218
5NDG|1|6|A|1219
5NDG|1|6|C|1220
*
5NDG|1|6|G|1263
5NDG|1|6|G|1264
5NDG|1|6|G|1265
5NDG|1|6|U|1266
5NDG|1|6|G|1267
*
5NDG|1|6|U|1442
5NDG|1|6|U|1443
5NDG|1|6|A|1444
5NDG|1|6|G|1445
5NDG|1|6|A|1446
5NDG|1|6|C|1447
5NDG|1|6|G|1448
Current chains
- Chain 6
- 18S ribosomal RNA
Nearby chains
- Chain c0
- 40S ribosomal protein S10-A
- Chain d9
- 40S ribosomal protein S29-A
- Chain e1
- Ubiquitin-40S ribosomal protein S31
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