3D structure

PDB id
5FDV (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of the Pyrrhocoricin antimicrobial peptide bound to the Thermus thermophilus 70S ribosome
Experimental method
X-RAY DIFFRACTION
Resolution
2.8 Å

Loop

Sequence
CAU*AG
Length
5 nucleotides
Bulged bases
None detected
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
IL_5FDV_119 not in the Motif Atlas
Homologous match to IL_6CZR_116
Geometric discrepancy: 0.1074
The information below is about IL_6CZR_116
Detailed Annotation
Minor groove platform
Broad Annotation
No text annotation
Motif group
IL_51454.1
Basepair signature
cWW-cSH-cWW
Number of instances in this motif group
45

Unit IDs

5FDV|1|1a|C|54
5FDV|1|1a|A|55
5FDV|1|1a|U|56
*
5FDV|1|1a|A|356
5FDV|1|1a|G|357

Current chains

Chain 1a
16S ribosomal RNA

Nearby chains

No other chains within 10Å

Coloring options:


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