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[[Image:2z3i.gif|left|200px]]
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{{STRUCTURE_2z3i|  PDB=2z3i  |  SCENE=  }}
'''Crystal structure of blasticidin S deaminase (BSD) mutant E56Q complexed with substrate'''


==Crystal structure of blasticidin S deaminase (BSD) mutant E56Q complexed with substrate==
<StructureSection load='2z3i' size='340' side='right'caption='[[2z3i]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2z3i]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z3I FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BLS:BLASTICIDIN+S'>BLS</scene>, <scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2z3i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3i OCA], [https://pdbe.org/2z3i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z3i RCSB], [https://www.ebi.ac.uk/pdbsum/2z3i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z3i ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/BSD_ASPTE BSD_ASPTE] Catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z3/2z3i_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2z3i ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The set of blasticidin S (BS) and blasticidin S deaminase (BSD) is a widely used selectable marker for gene transfer experiments. BSD is a member of the cytidine deaminase (CDA) family; it is a zinc-dependent enzyme with three cysteines and one water molecule as zinc ligands. The crystal structures of BSD were determined in six states (i.e. native, substrate-bound, product-bound, cacodylate-bound, substrate-bound E56Q mutant, and R90K mutant). In the structures, the zinc position and coordination structures vary. The substrate-bound structure shows a large positional and geometrical shift of zinc with a double-headed electron density of the substrate that seems to be assigned to the amino and hydroxyl groups of the substrate and product, respectively. In this intermediate-like structure, the steric hindrance of the hydroxyl group pushes the zinc into the triangular plane consisting of three cysteines with a positional shift of approximately 0.6 A, and the fifth ligand water approaches the opposite direction of the substrate with a shift of 0.4 A. Accordingly, the zinc coordination is changed from tetrahedral to trigonal bipyramidal, and its coordination distance is extended between zinc and its intermediate. The shift of zinc and the recruited water is also observed in the structure of the inactivated E56Q mutant. This novel observation is different in two-cysteine cytidine deaminase Escherichia coli CDA and might be essential for the reaction mechanism in BSD, since it is useful for the easy release of the product by charge compensation and for the structural change of the substrate.


==Overview==
Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc.,Kumasaka T, Yamamoto M, Furuichi M, Nakasako M, Teh AH, Kimura M, Yamaguchi I, Ueki T J Biol Chem. 2007 Dec 21;282(51):37103-11. Epub 2007 Oct 23. PMID:17959604<ref>PMID:17959604</ref>
The set of blasticidin S (BS) and blasticidin S deaminase (BSD) is a widely used selectable marker for gene transfer experiments. BSD is a member of the cytidine deaminase (CDA) family; it is a zinc-dependent enzyme with three cysteines and one water molecule as zinc ligands. The crystal structures of BSD were determined in six states (i.e. native, substrate-bound, product-bound, cacodylate-bound, substrate-bound E56Q mutant, and R90K mutant). In the structures, the zinc position and coordination structures vary. The substrate-bound structure shows a large positional and geometrical shift of zinc with a double-headed electron density of the substrate that seems to be assigned to the amino and hydroxyl groups of the substrate and product, respectively. In this intermediate-like structure, the steric hindrance of the hydroxyl group pushes the zinc into the triangular plane consisting of three cysteines with a positional shift of approximately 0.6 A, and the fifth ligand water approaches the opposite direction of the substrate with a shift of 0.4 A. Accordingly, the zinc coordination is changed from tetrahedral to trigonal bipyramidal, and its coordination distance is extended between zinc and its intermediate. The shift of zinc and the recruited water is also observed in the structure of the inactivated E56Q mutant. This novel observation is different in two-cysteine cytidine deaminase Escherichia coli CDA and might be essential for the reaction mechanism in BSD, since it is useful for the easy release of the product by charge compensation and for the structural change of the substrate.


==About this Structure==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
2Z3I is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3I OCA].
</div>
<div class="pdbe-citations 2z3i" style="background-color:#fffaf0;"></div>


==Reference==
==See Also==
Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc., Kumasaka T, Yamamoto M, Furuichi M, Nakasako M, Teh AH, Kimura M, Yamaguchi I, Ueki T, J Biol Chem. 2007 Dec 21;282(51):37103-11. Epub 2007 Oct 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17959604 17959604]
*[[Deaminase 3D structures|Deaminase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Aspergillus terreus]]
[[Category: Aspergillus terreus]]
[[Category: Blasticidin-S deaminase]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Furuichi M]]
[[Category: Furuichi, M.]]
[[Category: Kimura M]]
[[Category: Kimura, M.]]
[[Category: Kumasaka T]]
[[Category: Kumasaka, T.]]
[[Category: Nakasako M]]
[[Category: Nakasako, M.]]
[[Category: Ueki T]]
[[Category: Ueki, T.]]
[[Category: Yamaguchi I]]
[[Category: Yamaguchi, I.]]
[[Category: Yamamoto M]]
[[Category: Yamamoto, M.]]
[[Category: Cytidine deaminase family]]
[[Category: Hydrolase]]
[[Category: Tetramer]]
[[Category: Zinc]]
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