1W3M: Crystal Structure Of Tsushimycin

Acta Crystallogr. D Biol. Crystallogr. (2005) 61 p.1160-1164
The amphomycin derivative tsushimycin has been crystallized and its structure determined at 1.0 A resolution. The asymmetric unit contains 12 molecules and with 1300 independent atoms this structure is one of the largest solved using ab initio direct methods. The antibiotic is comprised of a cyclodecapeptide core, an exocyclic amino acid and a fatty-acid residue. Its backbone adopts a saddle-like conformation that is stabilized by a Ca2+ ion bound within the peptide ring and accounts for the Ca2+-dependence of this antibiotic class. Additional Ca2+ ions link the antibiotic molecules to dimers that enclose an empty space resembling a binding cleft. The dimers possess a large hydrophobic surface capable of interacting with the bacterial cell membrane. The antibiotic daptomycin may exhibit a similar conformation, as the amino-acid sequence is conserved at positions involved in Ca2+ binding.
PDB ID: 1W3MDownload
MMDB ID: 104857
PDB Deposition Date: 2004/7/16
Updated in MMDB: 2012/11
Experimental Method:
x-ray diffraction
Resolution: 1  Å
Source Organism:
Similar Structures:
Biological Unit for 1W3M: dodecameric; determined by software (PISA)
Molecular Components in 1W3M
Label Count Molecule
Proteins (12 molecules)
Molecule annotation
Chemicals (47 molecules)
* Click molecule labels to explore molecular sequence information.

Citing MMDB