J4_6FYX_001
3D structure
- PDB id
- 6FYX (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3.5 Å
Loop
- Sequence
- GU(1MG)(2MG)*C(M2G)C*GAU(7MG)(H2U)(5MC)(5MC)*GC
- Length
- 16 nucleotides
- Bulged bases
- 6FYX|1|1|U|8, 6FYX|1|1|H2U|47, 6FYX|1|1|5MC|48
- QA status
- Modified nucleotides: 1MG, 2MG, M2G, 7MG, H2U, 5MC
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
- J4_6FYX_001 not in the Motif Atlas
- Homologous match to J4_6UGG_002
- Geometric discrepancy: 0.4416
- The information below is about J4_6UGG_002
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_95067.3
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 50
Unit IDs
6FYX|1|1|G|7
6FYX|1|1|U|8
6FYX|1|1|1MG|9
6FYX|1|1|2MG|10
*
6FYX|1|1|C|25
6FYX|1|1|M2G|26
6FYX|1|1|C|27
*
6FYX|1|1|G|43
6FYX|1|1|A|44
6FYX|1|1|U|45
6FYX|1|1|7MG|46
6FYX|1|1|H2U|47
6FYX|1|1|5MC|48
6FYX|1|1|5MC|49
*
6FYX|1|1|G|65
6FYX|1|1|C|66
Current chains
- Chain 1
- tRNAi
Nearby chains
- Chain 2
- Small subunit ribosomal RNA; SSU rRNA
- Chain j
- Eukaryotic translation initiation factor 2 subunit alpha
- Chain l
- Eukaryotic translation initiation factor 2 subunit beta
- Chain m
- Eukaryotic translation initiation factor 5
Coloring options: