J4_5HD1_008
3D structure
- PDB id
- 5HD1 (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome
- Experimental method
- X-RAY DIFFRACTION
- Resolution
- 2.7 Å
Loop
- Sequence
- UUG*CG*CCUAAGGUAG*CGAAAA
- Length
- 21 nucleotides
- Bulged bases
- 5HD1|1|1A|A|1992
- 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_5HD1_008 not in the Motif Atlas
- Homologous match to J4_9DFE_008
- Geometric discrepancy: 0.0646
- The information below is about J4_9DFE_008
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- J4_93343.1
- Basepair signature
- cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F
- Number of instances in this motif group
- 4
Unit IDs
5HD1|1|1A|U|1863
5HD1|1|1A|U|1864
5HD1|1|1A|G|1865
*
5HD1|1|1A|C|1926
5HD1|1|1A|G|1927
*
5HD1|1|1A|C|1945
5HD1|1|1A|C|1946
5HD1|1|1A|U|1947
5HD1|1|1A|A|1948
5HD1|1|1A|A|1949
5HD1|1|1A|G|1950
5HD1|1|1A|G|1951
5HD1|1|1A|U|1952
5HD1|1|1A|A|1953
5HD1|1|1A|G|1954
*
5HD1|1|1A|C|1988
5HD1|1|1A|G|1989
5HD1|1|1A|A|1990
5HD1|1|1A|A|1991
5HD1|1|1A|A|1992
5HD1|1|1A|A|1993
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: