J3_6Q8Y_038
3D structure
- PDB id
- 6Q8Y (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Cryo-EM structure of the mRNA translating and degrading yeast 80S ribosome-Xrn1 nuclease complex
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3.1 Å
Loop
- Sequence
- AUGAAAAGAAC*GAGUGAAAAAGUACG*CU
- Length
- 28 nucleotides
- Bulged bases
- 6Q8Y|1|BQ|A|398, 6Q8Y|1|BQ|A|402
- 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_6Q8Y_038 not in the Motif Atlas
- Homologous match to J3_8C3A_049
- Geometric discrepancy: 0.0944
- The information below is about J3_8C3A_049
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_91149.1
- Basepair signature
- cWW-cWS-tSH-F-tWH-cSS-cWW-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-F-cWW-cWW
- Number of instances in this motif group
- 6
Unit IDs
6Q8Y|1|BQ|A|369
6Q8Y|1|BQ|U|370
6Q8Y|1|BQ|G|371
6Q8Y|1|BQ|A|372
6Q8Y|1|BQ|A|373
6Q8Y|1|BQ|A|374
6Q8Y|1|BQ|A|375
6Q8Y|1|BQ|G|376
6Q8Y|1|BQ|A|377
6Q8Y|1|BQ|A|378
6Q8Y|1|BQ|C|379
*
6Q8Y|1|BQ|G|390
6Q8Y|1|BQ|A|391
6Q8Y|1|BQ|G|392
6Q8Y|1|BQ|U|393
6Q8Y|1|BQ|G|394
6Q8Y|1|BQ|A|395
6Q8Y|1|BQ|A|396
6Q8Y|1|BQ|A|397
6Q8Y|1|BQ|A|398
6Q8Y|1|BQ|A|399
6Q8Y|1|BQ|G|400
6Q8Y|1|BQ|U|401
6Q8Y|1|BQ|A|402
6Q8Y|1|BQ|C|403
6Q8Y|1|BQ|G|404
*
6Q8Y|1|BS|C|19
6Q8Y|1|BS|U|20
Current chains
- Chain BQ
- 25S ribosomal RNA
- Chain BS
- 5.8S ribosomal RNA
Nearby chains
- Chain AK
- 60S ribosomal protein L26-A
- Chain AL
- 60S ribosomal protein L39
- Chain AX
- 60S ribosomal protein L17-A
- Chain BE
- 60S ribosomal protein L4-A
Coloring options: