J3_7SYN_008
3D structure
- PDB id
- 7SYN (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of the HCV IRES bound to the 40S ribosomal subunit, head opening. Structure 8(delta dII)
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 4 Å
Loop
- Sequence
- CUUAAUUU*GGGAAACCUCAC*GGCUG
- Length
- 25 nucleotides
- Bulged bases
- 7SYN|1|2|G|1256, 7SYN|1|2|A|1258, 7SYN|1|2|A|1260
- 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_7SYN_008 not in the Motif Atlas
- Geometric match to J3_8C3A_040
- Geometric discrepancy: 0.2135
- 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
7SYN|1|2|C|1237
7SYN|1|2|U|1238
7SYN|1|2|U|1239
7SYN|1|2|A|1240
7SYN|1|2|A|1241
7SYN|1|2|U|1242
7SYN|1|2|U|1243
7SYN|1|2|U|1244
*
7SYN|1|2|G|1255
7SYN|1|2|G|1256
7SYN|1|2|G|1257
7SYN|1|2|A|1258
7SYN|1|2|A|1259
7SYN|1|2|A|1260
7SYN|1|2|C|1261
7SYN|1|2|C|1262
7SYN|1|2|U|1263
7SYN|1|2|C|1264
7SYN|1|2|A|1265
7SYN|1|2|C|1266
*
7SYN|1|2|G|1516
7SYN|1|2|G|1517
7SYN|1|2|C|1518
7SYN|1|2|U|1519
7SYN|1|2|G|1520
Current chains
- Chain 2
- 18S rRNA
Nearby chains
- Chain Q
- uS19
- Chain T
- uS13
- Chain V
- uS10
- Chain e
- uS14
Coloring options: