2hvv

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{{Seed}}
 
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[[Image:2hvv.png|left|200px]]
 
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==Crystal structure of dCMP deaminase from Streptococcus mutans==
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The line below this paragraph, containing "STRUCTURE_2hvv", creates the "Structure Box" on the page.
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<StructureSection load='2hvv' size='340' side='right'caption='[[2hvv]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2hvv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_mutans Streptococcus mutans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HVV FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 3&#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=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_2hvv| PDB=2hvv | SCENE= }}
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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=2hvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hvv OCA], [https://pdbe.org/2hvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hvv RCSB], [https://www.ebi.ac.uk/pdbsum/2hvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hvv ProSAT]</span></td></tr>
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</table>
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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/hv/2hvv_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2hvv ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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2'-Deoxycytidylate deaminase [or deoxycytidine-5'-monophosphate (dCMP) deaminase, dCD] catalyzes the deamination of dCMP to deoxyuridine-5'-monophosphate to provide the main nucleotide substrate for thymidylate synthase, which is important in DNA synthesis. The activity of this homohexameric enzyme is allosterically regulated by deoxycytidine-5'-triphosphate (dCTP) as an activator and by deoxythymidine-5'-triphosphate as an inhibitor. In this article, we report the crystal structures of dCMP deaminase from Streptococcus mutans and its complex with dCTP and an intermediate analog at resolutions of 3.0 and 1.66 A. The protein forms a hexamer composed of subunits adopting a three-layer alpha/beta/alpha sandwich fold. The positive allosteric regulator dCTP mainly binds at the interface between two monomers in a molar ratio of 1:1 and rearranges the neighboring interaction networks. Structural comparisons and sequence alignments revealed that dCMP deaminase from Streptococcus mutans belongs to the cytidine deaminase superfamily, wherein the proteins exhibit a similar catalytic mechanism. In addition to the two conserved motifs involved in the binding of Zn(2+), a new conserved motif, (G(43)YNG(46)), related to the binding of dCTP was also identified. N-terminal Arg4, a key residue located between two monomers, binds strongly to the gamma phosphate group of dCTP. The regulation signal was transmitted by Arg4 from the allosteric site to the active site via modifications in the interactions at the interface where the substrate-binding pocket was involved and the relocations of Arg26, His65, Tyr120, and Arg121 to envelope the active site in order to stabilize substrate binding in the complex. Based on the enzyme-regulator complex structure observed in this study, we propose an allosteric mechanism for dCD regulation.
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===Crystal structure of dCMP deaminase from Streptococcus mutans===
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Crystal structures of Streptococcus mutans 2'-deoxycytidylate deaminase and its complex with substrate analog and allosteric regulator dCTP x Mg2+.,Hou HF, Liang YH, Li LF, Su XD, Dong YH J Mol Biol. 2008 Mar 14;377(1):220-31. Epub 2008 Jan 5. PMID:18255096<ref>PMID:18255096</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2hvv" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_18255096}}, adds the Publication Abstract to the page
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*[[Deaminase 3D structures|Deaminase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 18255096 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18255096}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2HVV is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Streptococcus_mutans Streptococcus mutans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HVV OCA].
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==Reference==
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Crystal structures of Streptococcus mutans 2'-deoxycytidylate deaminase and its complex with substrate analog and allosteric regulator dCTP x Mg2+., Hou HF, Liang YH, Li LF, Su XD, Dong YH, J Mol Biol. 2008 Mar 14;377(1):220-31. Epub 2008 Jan 5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18255096 18255096]
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[[Category: Single protein]]
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[[Category: Streptococcus mutans]]
[[Category: Streptococcus mutans]]
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[[Category: DCMP deaminase]]
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[[Category: Dong YH]]
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[[Category: Dong, Y H.]]
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[[Category: Gao ZQ]]
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[[Category: Gao, Z Q.]]
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[[Category: Hou HF]]
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[[Category: Hou, H F.]]
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[[Category: Li LF]]
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[[Category: Li, L F.]]
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[[Category: Liang YH]]
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[[Category: Liang, Y H.]]
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[[Category: Su XD]]
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[[Category: Su, X D.]]
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[[Category: Hydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 04:15:47 2008''
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Current revision

Crystal structure of dCMP deaminase from Streptococcus mutans

PDB ID 2hvv

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