J4_9SPF_015
3D structure
- PDB id
- 9SPF (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING N1-METHYLPSEUDOURIDINE
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.4 Å
Loop
- Sequence
- GU(1MG)G*C(M2G)U*AAGAUUC*GC
- Length
- 16 nucleotides
- Bulged bases
- 9SPF|1|Pt|U|8, 9SPF|1|Pt|U|47, 9SPF|1|Pt|U|48
- QA status
- Modified nucleotides: 1MG, M2G
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_9SPF_015 not in the Motif Atlas
- Homologous match to J4_6CFJ_015
- Geometric discrepancy: 0.1932
- The information below is about J4_6CFJ_015
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_95067.1
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 48
Unit IDs
9SPF|1|Pt|G|7
9SPF|1|Pt|U|8
9SPF|1|Pt|1MG|9
9SPF|1|Pt|G|10
*
9SPF|1|Pt|C|25
9SPF|1|Pt|M2G|26
9SPF|1|Pt|U|27
*
9SPF|1|Pt|A|43
9SPF|1|Pt|A|44
9SPF|1|Pt|G|45
9SPF|1|Pt|A|46
9SPF|1|Pt|U|47
9SPF|1|Pt|U|48
9SPF|1|Pt|C|49
*
9SPF|1|Pt|G|65
9SPF|1|Pt|C|66
Current chains
- Chain Pt
- P-site tRNA-Arg-ACG
Nearby chains
- Chain L5
- Large subunit ribosomal RNA; LSU rRNA
- Chain LI
- 60S ribosomal protein L10
- Chain LJ
- 60S ribosomal protein L11
- Chain S2
- Small subunit ribosomal RNA; SSU rRNA
- Chain SS
- 40S ribosomal protein S18
- Chain SZ
- 40S ribosomal protein S25
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