1w3m
From Proteopedia
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|PDB= 1w3m |SIZE=350|CAPTION= <scene name='initialview01'>1w3m</scene>, resolution 1.00Å | |PDB= 1w3m |SIZE=350|CAPTION= <scene name='initialview01'>1w3m</scene>, resolution 1.00Å | ||
|SITE= <scene name='pdbsite=AC1:Cl+Binding+Site+For+Chain+C'>AC1</scene> | |SITE= <scene name='pdbsite=AC1:Cl+Binding+Site+For+Chain+C'>AC1</scene> | ||
| - | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene> | + | |LIGAND= <scene name='pdbligand=3MD:2S,3S-3-METHYLASPARTIC+ACID'>3MD</scene>, <scene name='pdbligand=ACB:3-METHYL-ASPARTIC+ACID'>ACB</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CPI:6-CARBOXYPIPERIDINE'>CPI</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=LNG:12-METHYLTRIDECANOIC+ACID'>LNG</scene>, <scene name='pdbligand=VDL:(2R,3R)-2,3-DIAMINOBUTANOIC+ACID'>VDL</scene>, <scene name='pdbligand=VLL:(2S)-2,3-DIAMINOBUTANOIC+ACID'>VLL</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1w3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w3m OCA], [http://www.ebi.ac.uk/pdbsum/1w3m PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1w3m RCSB]</span> | ||
}} | }} | ||
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[[Category: Sheldrick, G M.]] | [[Category: Sheldrick, G M.]] | ||
[[Category: Vertesy, L.]] | [[Category: Vertesy, L.]] | ||
| - | [[Category: CA]] | ||
| - | [[Category: CL]] | ||
| - | [[Category: EOH]] | ||
[[Category: amphomycin]] | [[Category: amphomycin]] | ||
[[Category: antibiotic]] | [[Category: antibiotic]] | ||
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[[Category: lipopetide]] | [[Category: lipopetide]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:30:46 2008'' |
Revision as of 21:30, 30 March 2008
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| , resolution 1.00Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | |||||||
| Ligands: | , , , , , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CRYSTAL STRUCTURE OF TSUSHIMYCIN
Overview
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.
About this Structure
1W3M is a Single protein structure of sequence from Actinoplanes friuliensis. Full crystallographic information is available from OCA.
Reference
Structure of the lipopeptide antibiotic tsushimycin., Bunkoczi G, Vertesy L, Sheldrick GM, Acta Crystallogr D Biol Crystallogr. 2005 Aug;61(Pt 8):1160-4. Epub 2005, Jul 20. PMID:16041082
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