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1drb

From Proteopedia

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(New page: 200px<br /><applet load="1drb" size="450" color="white" frame="true" align="right" spinBox="true" caption="1drb, resolution 1.96&Aring;" /> '''CRYSTAL STRUCTURE OF...)
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[[Image:1drb.gif|left|200px]]<br /><applet load="1drb" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1drb, resolution 1.96&Aring;" />
 
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'''CRYSTAL STRUCTURE OF UNLIGANDED ESCHERICHIA COLI DIHYDROFOLATE REDUCTASE. LIGAND-INDUCED CONFORMATIONAL CHANGES AND COOPERATIVITY IN BINDING'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF UNLIGANDED ESCHERICHIA COLI DIHYDROFOLATE REDUCTASE. LIGAND-INDUCED CONFORMATIONAL CHANGES AND COOPERATIVITY IN BINDING==
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The crystal structure of unliganded dihydrofolate reductase (DHFR) from, Escherichia coli has been solved and refined to an R factor of 19% at, 2.3-A resolution in a crystal form that is nonisomorphous with each of the, previously reported E. coli DHFR crystal structures [Bolin, J. T., Filman, D. J., Matthews, D. A., Hamlin, B. C., &amp; Kraut, J. (1982) J. Biol. Chem., 257, 13650-13662; Bystroff, C., Oatley, S. J., &amp; Kraut, J. (1990), Biochemistry 29, 3263-3277]. Significant conformational changes occur, between the apoenzyme and each of the complexes: the NADP+ holoenzyme, the, folate-NADP+ ternary complex, and the methotrexate (MTX) binary complex., The changes are small, with the largest about 3 A and most of them less, than 1 A. For simplicity a two-domain description is adopted in which one, domain contains the NADP+ 2'-phosphate binding site and the binding sites, for the rest of the coenzyme and for the substrate lie between the two, domains. Binding of either NADP+ or MTX induces a closing of the, PABG-binding cleft and realignment of alpha-helices C and F which bind the, pyrophosphate of the coenzyme. Formation of the ternary complex from the, holoenzyme does not involve further relative domain shifts but does, involve a shift of alpha-helix B and a floppy loop (the Met-20 loop) that, precedes alpha B. These observations suggest a mechanism for cooperativity, in binding between substrate and coenzyme wherein the greatest degree of, cooperativity is expressed in the transition-state complex. We explore the, idea that the MTX binary complex in some ways resembles the, transition-state complex.
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<StructureSection load='1drb' size='340' side='right'caption='[[1drb]], [[Resolution|resolution]] 1.96&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1drb]] is a 2 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=1DRB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DRB FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.96&#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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=MTX:METHOTREXATE'>MTX</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1drb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1drb OCA], [https://pdbe.org/1drb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1drb RCSB], [https://www.ebi.ac.uk/pdbsum/1drb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1drb ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/DYR_ECOLI DYR_ECOLI] Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dr/1drb_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1drb ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1DRB is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with CL, CA, MTX and EOH as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Dihydrofolate_reductase Dihydrofolate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.1.3 1.5.1.3] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DRB OCA].
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*[[Dihydrofolate reductase 3D structures|Dihydrofolate reductase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystal structure of unliganded Escherichia coli dihydrofolate reductase. Ligand-induced conformational changes and cooperativity in binding., Bystroff C, Kraut J, Biochemistry. 1991 Feb 26;30(8):2227-39. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=1998681 1998681]
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[[Category: Dihydrofolate reductase]]
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: David, C.]]
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[[Category: David C]]
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[[Category: Kraut, J.]]
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[[Category: Kraut J]]
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[[Category: CA]]
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[[Category: CL]]
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[[Category: EOH]]
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[[Category: MTX]]
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[[Category: oxidoreductase]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 13:31:21 2007''
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Current revision

CRYSTAL STRUCTURE OF UNLIGANDED ESCHERICHIA COLI DIHYDROFOLATE REDUCTASE. LIGAND-INDUCED CONFORMATIONAL CHANGES AND COOPERATIVITY IN BINDING

PDB ID 1drb

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