J4_5AFI_014
3D structure
- PDB id
- 5AFI (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- 2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.9 Å
Loop
- Sequence
- G(4SU)GG*CGU*AAGAUCG*CC
- Length
- 16 nucleotides
- Bulged bases
- 5AFI|1|v|4SU|8||||P_1, 5AFI|1|v|U|47||||P_1, 5AFI|1|v|C|48||||P_1
- QA status
- Modified nucleotides: 4SU
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_5AFI_014 not in the Motif Atlas
- Homologous match to J4_9DFC_015
- Geometric discrepancy: 0.149
- The information below is about J4_9DFC_015
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_70449.29
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 54
Unit IDs
5AFI|1|v|G|7||||P_1
5AFI|1|v|4SU|8||||P_1
5AFI|1|v|G|9||||P_1
5AFI|1|v|G|10||||P_1
*
5AFI|1|v|C|25||||P_1
5AFI|1|v|G|26||||P_1
5AFI|1|v|U|27||||P_1
*
5AFI|1|v|A|43||||P_1
5AFI|1|v|A|44||||P_1
5AFI|1|v|G|45||||P_1
5AFI|1|v|A|46||||P_1
5AFI|1|v|U|47||||P_1
5AFI|1|v|C|48||||P_1
5AFI|1|v|G|49||||P_1
*
5AFI|1|v|C|65||||P_1
5AFI|1|v|C|66||||P_1
Current chains
- Chain v
- P-site fMet-tRNAfMet
Nearby chains
- Chain A
- Large subunit ribosomal RNA; LSU rRNA
- Chain M
- 50S ribosomal protein L16
- Chain a
- Small subunit ribosomal RNA; SSU rRNA
- Chain m
- 30S ribosomal protein S13
Coloring options: