J4_5VP2_008
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
- UUG*CG*CCUAAGGUAG*CGAAAA
- Length
- 21 nucleotides
- Bulged bases
- 5VP2|1|1A|A|1993
- 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
- J4_5VP2_008 not in the Motif Atlas
- Homologous match to J4_9DFE_008
- Geometric discrepancy: 0.0659
- The information below is about J4_9DFE_008
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_42306.1
- Basepair signature
- cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F
- Number of instances in this motif group
- 5
Unit IDs
5VP2|1|1A|U|1864
5VP2|1|1A|U|1865
5VP2|1|1A|G|1866
*
5VP2|1|1A|C|1927
5VP2|1|1A|G|1928
*
5VP2|1|1A|C|1946
5VP2|1|1A|C|1947
5VP2|1|1A|U|1948
5VP2|1|1A|A|1949
5VP2|1|1A|A|1950
5VP2|1|1A|G|1951
5VP2|1|1A|G|1952
5VP2|1|1A|U|1953
5VP2|1|1A|A|1954
5VP2|1|1A|G|1955
*
5VP2|1|1A|C|1989
5VP2|1|1A|G|1990
5VP2|1|1A|A|1991
5VP2|1|1A|A|1992
5VP2|1|1A|A|1993
5VP2|1|1A|A|1994
Current chains
- Chain 1A
- 23S Ribosomal RNA
Nearby chains
- Chain 1D
- 50S ribosomal protein L2
- Chain 1a
- Small subunit ribosomal RNA; SSU rRNA
- Chain 1x
- Transfer RNA; tRNA
Coloring options: