1g7x: Difference between revisions

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-{{Seed}}
-[[Image:1g7x.png|left|200px]]
-<!--
+==ASPARTATE AMINOTRANSFERASE ACTIVE SITE MUTANT N194A/R292L/R386L==
-The line below this paragraph, containing "STRUCTURE_1g7x", creates the "Structure Box" on the page.
+<StructureSection load='1g7x' size='340' side='right'caption='[[1g7x]], [[Resolution|resolution]] 2.20&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'>[[1g7x]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G7X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G7X 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]] 2.2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-{{STRUCTURE_1g7x|  PDB=1g7x  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1g7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g7x OCA], [https://pdbe.org/1g7x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g7x RCSB], [https://www.ebi.ac.uk/pdbsum/1g7x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g7x ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/AAT_ECOLI AAT_ECOLI]
+== 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/g7/1g7x_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=1g7x ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Systematic single and multiple replacement studies have been applied to Escherichia coli aspartate aminotransferase to probe the electrostatic effect of the two substrate-binding arginine residues, Arg292 and Arg386, and the structural effect of the pyridoxal 5'-phosphate-Asn194-Arg386 hydrogen-bond linkage system (PLP-N-R) on the pK(a) value of the Schiff base formed between pyridoxal 5'-phosphate (PLP) and Lys258. The electrostatic effects of the two arginine residues cannot be assessed by simple mutational studies of the residues. PLP-N-R lowers the pK(a) value of the PLP-Lys258 Schiff base by keeping it in the distorted conformation, which is unfavorable for protonation. Mutation of Arg386 eliminates its hydrogen bond with Asn194 and partially disrupts PLP-N-R, thereby relaxing the strain of the Schiff base. On the other hand, mutation of Arg292, the large domain residue that interacts with the small domain residue Asp15, makes the domain opening easier. Because PLP-N-R lies between the two domains, the domain opening increases the strain of the Schiff base. Therefore, the true electrostatic effects of Arg292 and Arg386 could be derived from mutational analysis of the enzyme in which PLP-N-R had been completely disrupted by the Asn194Ala mutation. Through the analyses, we could dissect the electrostatic and structural effects of the arginine mutations on the Schiff base pK(a). The positive charges of the two arginine residues and the PLP-N-R-mediated strain of the Schiff base lower the Schiff base pK(a) by 0.7 and 1.7, respectively. Thus, the electrostatic effect of the arginine residues is not as strong as has historically been thought, and this finding substantiates our recent finding that the imine-pyridine torsion of the Schiff base is the primary determinant (2.8 unit decrease) of the extremely low pK(a) value of the Schiff base [Hayashi, H., Mizuguchi, H., and Kagamiyama, H. (1998) Biochemistry 37, 15076-15085].
-===ASPARTATE AMINOTRANSFERASE ACTIVE SITE MUTANT N194A/R292L/R386L===
+Strain is more important than electrostatic interaction in controlling the pKa of the catalytic group in aspartate aminotransferase.,Mizuguchi H, Hayashi H, Okada K, Miyahara I, Hirotsu K, Kagamiyama H Biochemistry. 2001 Jan 16;40(2):353-60. PMID:11148029<ref>PMID:11148029</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1g7x" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_11148029}}, adds the Publication Abstract to the page
+*[[Aspartate aminotransferase 3D structures|Aspartate aminotransferase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 11148029 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_11148029}}
+__TOC__
+</StructureSection>
-==About this Structure==
-G7X is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G7X OCA].
-==Reference==
-<ref group="xtra">PMID:11148029</ref><references group="xtra"/>
-[[Category: Aspartate transaminase]]
 [[Category: Escherichia coli]]
-[[Category: Hayashi, H.]]
+[[Category: Large Structures]]
-[[Category: Hirotsu, K.]]
+[[Category: Hayashi H]]
-[[Category: Kagamiyama, H.]]
+[[Category: Hirotsu K]]
-[[Category: Miyahara, I.]]
+[[Category: Kagamiyama H]]
-[[Category: Mizuguchi, H.]]
+[[Category: Miyahara I]]
-[[Category: Okada, K.]]
+[[Category: Mizuguchi H]]
-[[Category: Active site mutant]]
+[[Category: Okada K]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:56:17 2009''