J4_5MDY_015
3D structure
- PDB id
- 5MDY (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state)
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 3.35 Å
Loop
- Sequence
- GU(4SU)G*CGU*AAGAUCG*CC
- Length
- 16 nucleotides
- Bulged bases
- 5MDY|1|5|U|7, 5MDY|1|5|U|47, 5MDY|1|5|C|48
- 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_5MDY_015 not in the Motif Atlas
- Homologous match to J4_3WQY_001
- Geometric discrepancy: 0.2577
- The information below is about J4_3WQY_001
- Detailed Annotation
- tRNA junction
- Broad Annotation
- No text annotation
- Motif group
- J4_58311.1
- Basepair signature
- cWW-F-cWW-cWW-cHS-F-cWW-cWW
- Number of instances in this motif group
- 30
Unit IDs
5MDY|1|5|G|6
5MDY|1|5|U|7
5MDY|1|5|4SU|8
5MDY|1|5|G|9
*
5MDY|1|5|C|25
5MDY|1|5|G|26
5MDY|1|5|U|27
*
5MDY|1|5|A|43
5MDY|1|5|A|44
5MDY|1|5|G|45
5MDY|1|5|A|46
5MDY|1|5|U|47
5MDY|1|5|C|48
5MDY|1|5|G|49
*
5MDY|1|5|C|65
5MDY|1|5|C|66
Current chains
- Chain 5
- fMet-NH-tRNA(fMet)
Nearby chains
- Chain 1
- Large subunit ribosomal RNA; LSU rRNA
- Chain 2
- Small subunit ribosomal RNA; SSU rRNA
- Chain M
- 50S ribosomal protein L16
- Chain r
- 30S ribosomal protein S13
Coloring options: