3lqs: Difference between revisions

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{{Seed}}
[[Image:3lqs.jpg|left|200px]]


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==Complex Structure of D-Amino Acid Aminotransferase and 4-amino-4,5-dihydro-thiophenecarboxylic acid (ADTA)==
The line below this paragraph, containing "STRUCTURE_3lqs", creates the "Structure Box" on the page.
<StructureSection load='3lqs' size='340' side='right'caption='[[3lqs]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3lqs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_sp._YM-1 Bacillus sp. YM-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LQS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LQS FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=PSZ:4-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]THIOPHENE-2-CARBOXYLIC+ACID'>PSZ</scene></td></tr>
{{STRUCTURE_3lqs| PDB=3lqs |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3lqs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lqs OCA], [https://pdbe.org/3lqs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lqs RCSB], [https://www.ebi.ac.uk/pdbsum/3lqs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lqs ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/DAAA_BACYM DAAA_BACYM] Acts on the D-isomers of alanine, leucine, aspartate, glutamate, aminobutyrate, norvaline and asparagine. The enzyme transfers an amino group from a substrate D-amino acid to the pyridoxal phosphate cofactor to form pyridoxamine and an alpha-keto acid in the first half-reaction. The second-half reaction is the reverse of the first, transferring the amino group from the pyridoxamine to a second alpha-keto acid to form the product D-amino acid via a ping-pong mechanism. This is an important process in the formation of D-alanine and D-glutamate, which are essential bacterial cell wall components.<ref>PMID:2914916</ref> <ref>PMID:9538014</ref>
== 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/lq/3lqs_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=3lqs ConSurf].
<div style="clear:both"></div>


===Complex Structure of D-Amino Acid Aminotransferase and 4-amino-4,5-dihydro-thiophenecarboxylic acid (ADTA)===
==See Also==
 
*[[Aminotransferase 3D structures|Aminotransferase 3D structures]]
 
== References ==
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<references/>
The line below this paragraph, {{ABSTRACT_PUBMED_20192272}}, adds the Publication Abstract to the page
__TOC__
(as it appears on PubMed at http://www.pubmed.gov), where 20192272 is the PubMed ID number.
</StructureSection>
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[[Category: Bacillus sp. YM-1]]
{{ABSTRACT_PUBMED_20192272}}
[[Category: Large Structures]]
 
[[Category: Fu M]]
==About this Structure==
[[Category: Lepore BW]]
3LQS is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacteria Bacteria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LQS OCA].
[[Category: Liu D]]
 
[[Category: Manning JM]]
==Reference==
[[Category: Peng Y]]
<ref group="xtra">PMID:20192272</ref><references group="xtra"/>
[[Category: Ringe D]]
[[Category: Bacteria]]
[[Category: Silverman RB]]
[[Category: D-amino-acid transaminase]]
[[Category: Yasuda C]]
[[Category: Fu, M.]]
[[Category: Lepore, B W.]]
[[Category: Liu, D.]]
[[Category: Manning, J M.]]
[[Category: Peng, Y.]]
[[Category: Ringe, D.]]
[[Category: Silverman, R B.]]
[[Category: Yasuda, C.]]
[[Category: Aminotransferase]]
[[Category: Mechanism-based inhibitor]]
[[Category: Plp aminotransferase]]
[[Category: Pyridoxal phosphate]]
[[Category: R-adta]]
[[Category: Stereo-specificity]]
[[Category: Transferase]]
 
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Retrieved from "https://proteopedia.org/3lqs"