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[[Image:2efu.jpg|left|200px]]


{{Structure
==The crystal structure of D-amino acid amidase from Ochrobactrum anthropi SV3 complexed with L-phenylalanine==
|PDB= 2efu |SIZE=350|CAPTION= <scene name='initialview01'>2efu</scene>, resolution 2.30&Aring;
<StructureSection load='2efu' size='340' side='right'caption='[[2efu]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
|SITE= <scene name='pdbsite=AC1:Ba+Binding+Site+For+Residue+C+3001'>AC1</scene>, <scene name='pdbsite=AC2:Ba+Binding+Site+For+Residue+B+3002'>AC2</scene>, <scene name='pdbsite=AC3:Ba+Binding+Site+For+Residue+A+3003'>AC3</scene>, <scene name='pdbsite=AC4:Ba+Binding+Site+For+Residue+A+3004'>AC4</scene>, <scene name='pdbsite=AC5:Ba+Binding+Site+For+Residue+C+3005'>AC5</scene>, <scene name='pdbsite=AC6:Ba+Binding+Site+For+Residue+F+3008'>AC6</scene>, <scene name='pdbsite=AC7:Ba+Binding+Site+For+Residue+A+3009'>AC7</scene>, <scene name='pdbsite=AC8:Ba+Binding+Site+For+Residue+B+3010'>AC8</scene>, <scene name='pdbsite=AC9:Ba+Binding+Site+For+Residue+C+3011'>AC9</scene>, <scene name='pdbsite=BC1:Ba+Binding+Site+For+Residue+E+3012'>BC1</scene>, <scene name='pdbsite=BC2:Ba+Binding+Site+For+Residue+C+3013'>BC2</scene>, <scene name='pdbsite=BC3:Ba+Binding+Site+For+Residue+D+3014'>BC3</scene>, <scene name='pdbsite=BC4:Ba+Binding+Site+For+Residue+D+3015'>BC4</scene>, <scene name='pdbsite=BC5:Ba+Binding+Site+For+Residue+F+3016'>BC5</scene>, <scene name='pdbsite=BC6:Ba+Binding+Site+For+Residue+D+3017'>BC6</scene>, <scene name='pdbsite=BC7:Ba+Binding+Site+For+Residue+E+3018'>BC7</scene>, <scene name='pdbsite=BC8:Ba+Binding+Site+For+Residue+E+3019'>BC8</scene>, <scene name='pdbsite=BC9:Ba+Binding+Site+For+Residue+A+3020'>BC9</scene>, <scene name='pdbsite=CC1:Ba+Binding+Site+For+Residue+D+3022'>CC1</scene>, <scene name='pdbsite=CC2:Ba+Binding+Site+For+Residue+D+3023'>CC2</scene>, <scene name='pdbsite=CC3:Ba+Binding+Site+For+Residue+E+3024'>CC3</scene>, <scene name='pdbsite=CC4:Ba+Binding+Site+For+Residue+F+3025'>CC4</scene>, <scene name='pdbsite=CC5:PHE+Binding+Site+For+Residue+A+2001'>CC5</scene>, <scene name='pdbsite=CC6:PHE+Binding+Site+For+Residue+B+2002'>CC6</scene>, <scene name='pdbsite=CC7:PHE+Binding+Site+For+Residue+C+2003'>CC7</scene>, <scene name='pdbsite=CC8:PHE+Binding+Site+For+Residue+D+2004'>CC8</scene>, <scene name='pdbsite=CC9:PHE+Binding+Site+For+Residue+E+2005'>CC9</scene> and <scene name='pdbsite=DC1:PHE+Binding+Site+For+Residue+F+2006'>DC1</scene>
== Structural highlights ==
|LIGAND= <scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=PHE:PHENYLALANINE'>PHE</scene>
<table><tr><td colspan='2'>[[2efu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Brucella_anthropi Brucella anthropi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EFU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EFU FirstGlance]. <br>
|ACTIVITY=
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</td></tr>
|GENE=
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=PHE:PHENYLALANINE'>PHE</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2efu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2efu OCA], [https://pdbe.org/2efu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2efu RCSB], [https://www.ebi.ac.uk/pdbsum/2efu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2efu ProSAT]</span></td></tr>
|RELATEDENTRY=[[2efx|2efx]]
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2efu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2efu OCA], [http://www.ebi.ac.uk/pdbsum/2efu PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2efu RCSB]</span>
== Function ==
}}
[https://www.uniprot.org/uniprot/Q9LCC8_BRUAN Q9LCC8_BRUAN]
== 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/ef/2efu_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=2efu ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystal structures of D-amino-acid amidase (DAA) from Ochrobactrum anthropi SV3 in complex with L-phenylalanine and with L-phenylalanine amide were determined at 2.3 and 2.2 A resolution, respectively. Comparison of the L-phenylalanine amide complex with the D-phenylalanine complex reveals that the D-stereospecificity of DAA might be achieved as a consequence of three structural factors: (i) the hydrophobic cavity in the region in which the hydrophobic side chain of the substrate is held, (ii) the spatial arrangement of Gln310 O and Glu114 O epsilon2 that fixes the amino N atom of the substrate and (iii) the existence of two cavities that keep the carboxyl/amide group of the substrate near or apart from Ser60 O gamma.


'''The crystal structure of D-amino acid amidase from Ochrobactrum anthropi SV3 complexed with L-phenylalanine'''
Structures of D-amino-acid amidase complexed with L-phenylalanine and with L-phenylalanine amide: insight into the D-stereospecificity of D-amino-acid amidase from Ochrobactrum anthropi SV3.,Okazaki S, Suzuki A, Mizushima T, Komeda H, Asano Y, Yamane T Acta Crystallogr D Biol Crystallogr. 2008 Mar;64(Pt 3):331-4. Epub 2008, Feb 20. PMID:18323628<ref>PMID:18323628</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
2EFU is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Ochrobactrum_anthropi Ochrobactrum anthropi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EFU OCA].
<div class="pdbe-citations 2efu" style="background-color:#fffaf0;"></div>
[[Category: Ochrobactrum anthropi]]
== References ==
[[Category: Single protein]]
<references/>
[[Category: Asano, Y.]]
__TOC__
[[Category: Komeda, H.]]
</StructureSection>
[[Category: Mizushima, T.]]
[[Category: Brucella anthropi]]
[[Category: Okazaki, S.]]
[[Category: Large Structures]]
[[Category: Suzuki, A.]]
[[Category: Asano Y]]
[[Category: Yamane, T.]]
[[Category: Komeda H]]
[[Category: amidase]]
[[Category: Mizushima T]]
[[Category: d-stereospecific]]
[[Category: Okazaki S]]
[[Category: hydrolase]]
[[Category: Suzuki A]]
[[Category: l-phenylalanine]]
[[Category: Yamane T]]
[[Category: penicillin recognizing protein]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:48:26 2008''
Retrieved from "https://proteopedia.org/2efu"