J3_6Q8Y_008
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
- CUUAAUUU*GGGGAAACUCAC*GGCCG
- Length
- 25 nucleotides
- Bulged bases
- 6Q8Y|1|2|G|1199, 6Q8Y|1|2|G|1201
- 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_008 not in the Motif Atlas
- Homologous match to J3_8C3A_040
- Geometric discrepancy: 0.0641
- The information below is about J3_8C3A_040
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J3_83516.3
- Basepair signature
- cWW-F-F-F-tWW-F-tSH-tSS-cSS-F-F-F-F-F-cWW-cWW-F-F-F
- Number of instances in this motif group
- 4
Unit IDs
6Q8Y|1|2|C|1180
6Q8Y|1|2|U|1181
6Q8Y|1|2|U|1182
6Q8Y|1|2|A|1183
6Q8Y|1|2|A|1184
6Q8Y|1|2|U|1185
6Q8Y|1|2|U|1186
6Q8Y|1|2|U|1187
*
6Q8Y|1|2|G|1198
6Q8Y|1|2|G|1199
6Q8Y|1|2|G|1200
6Q8Y|1|2|G|1201
6Q8Y|1|2|A|1202
6Q8Y|1|2|A|1203
6Q8Y|1|2|A|1204
6Q8Y|1|2|C|1205
6Q8Y|1|2|U|1206
6Q8Y|1|2|C|1207
6Q8Y|1|2|A|1208
6Q8Y|1|2|C|1209
*
6Q8Y|1|2|G|1454
6Q8Y|1|2|G|1455
6Q8Y|1|2|C|1456
6Q8Y|1|2|C|1457
6Q8Y|1|2|G|1458
Current chains
- Chain 2
- 18S ribosomal RNA
Nearby chains
- Chain E
- 40S ribosomal protein S15
- Chain H
- 40S ribosomal protein S18-A
- Chain J
- 40S ribosomal protein S20
- Chain M
- 40S ribosomal protein S29-A
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