J5_5VP2_015
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
- GCAAGUUGG*UG*CC*GUGAACAGG*CGC
- Length
- 25 nucleotides
- Bulged bases
- 5VP2|1|2A|G|1758, 5VP2|1|2A|G|1763
- 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_015 not in the Motif Atlas
- Homologous match to J5_9DFE_005
- Geometric discrepancy: 0.0738
- The information below is about J5_9DFE_005
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J5_99177.1
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Number of instances in this motif group
- 10
Unit IDs
5VP2|1|2A|G|1674
5VP2|1|2A|C|1675
5VP2|1|2A|A|1676
5VP2|1|2A|A|1677
5VP2|1|2A|G|1678
5VP2|1|2A|U|1679
5VP2|1|2A|U|1680
5VP2|1|2A|G|1681
5VP2|1|2A|G|1682
*
5VP2|1|2A|U|1706
5VP2|1|2A|G|1707
*
5VP2|1|2A|C|1751
5VP2|1|2A|C|1752
*
5VP2|1|2A|G|1756
5VP2|1|2A|U|1757
5VP2|1|2A|G|1758
5VP2|1|2A|A|1759
5VP2|1|2A|A|1760
5VP2|1|2A|C|1761
5VP2|1|2A|A|1762
5VP2|1|2A|G|1763
5VP2|1|2A|G|1764
*
5VP2|1|2A|C|1988
5VP2|1|2A|G|1989
5VP2|1|2A|C|1990
Current chains
- Chain 2A
- 23S Ribosomal RNA
Nearby chains
- Chain 2E
- 50S ribosomal protein L3
- Chain 2O
- 50S ribosomal protein L14
- Chain 2T
- 50S ribosomal protein L19
- Chain 2a
- Small subunit ribosomal RNA; SSU rRNA
Coloring options: