J5_5VP2_009
3D structure
- PDB id
- 5VP2 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.8 Å
Loop
- Sequence
- CAAG*CGGACGGG*CAG*CAC*GGCAG
- Length
- 23 nucleotides
- Bulged bases
- 5VP2|1|1a|A|109, 5VP2|1|1a|C|352
- 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
- J5_5VP2_009 not in the Motif Atlas
- Homologous match to J5_4LFB_002
- Geometric discrepancy: 0.0885
- The information below is about J5_4LFB_002
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_58574.1
- Basepair signature
- cWW-F-tSS-cSS-F-cWW-cWW-cWW-F-F-cWW-F-F-cWW-cWW
- Number of instances in this motif group
- 5
Unit IDs
5VP2|1|1a|C|58
5VP2|1|1a|A|59
5VP2|1|1a|A|60
5VP2|1|1a|G|61
*
5VP2|1|1a|C|106
5VP2|1|1a|G|107
5VP2|1|1a|G|108
5VP2|1|1a|A|109
5VP2|1|1a|C|110
5VP2|1|1a|G|111
5VP2|1|1a|G|112
5VP2|1|1a|G|113
*
5VP2|1|1a|C|314
5VP2|1|1a|A|315
5VP2|1|1a|G|316
*
5VP2|1|1a|C|337
5VP2|1|1a|A|338
5VP2|1|1a|C|339
*
5VP2|1|1a|G|350
5VP2|1|1a|G|351
5VP2|1|1a|C|352
5VP2|1|1a|A|353
5VP2|1|1a|G|354
Current chains
- Chain 1a
- 16S ribosomal RNA
Nearby chains
- Chain 1O
- 50S ribosomal protein L14
- Chain 1T
- 50S ribosomal protein L19
- Chain 1p
- 30S ribosomal protein S16
- Chain 1t
- 30S ribosomal protein S20
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