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2ga8

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[[Image:2ga8.jpg|left|200px]]
 
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{{Structure
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==Crystal structure of YFH7 from Saccharomyces cerevisiae: a putative P-loop containing kinase with a circular permutation.==
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|PDB= 2ga8 |SIZE=350|CAPTION= <scene name='initialview01'>2ga8</scene>, resolution 1.775&Aring;
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<StructureSection load='2ga8' size='340' side='right'caption='[[2ga8]], [[Resolution|resolution]] 1.77&Aring;' scene=''>
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|SITE= <scene name='pdbsite=AC1:Hg+Binding+Site+For+Residue+A+360'>AC1</scene>, <scene name='pdbsite=AC2:Hg+Binding+Site+For+Residue+A+361'>AC2</scene>, <scene name='pdbsite=AC3:Hg+Binding+Site+For+Residue+A+362'>AC3</scene>, <scene name='pdbsite=AC4:So4+Binding+Site+For+Residue+A+401'>AC4</scene>, <scene name='pdbsite=AC5:So4+Binding+Site+For+Residue+A+402'>AC5</scene>, <scene name='pdbsite=AC6:So4+Binding+Site+For+Residue+A+403'>AC6</scene>, <scene name='pdbsite=AC7:So4+Binding+Site+For+Residue+A+404'>AC7</scene>, <scene name='pdbsite=AC8:So4+Binding+Site+For+Residue+A+405'>AC8</scene>, <scene name='pdbsite=AC9:Hg+Binding+Site+For+Residue+A+406'>AC9</scene> and <scene name='pdbsite=BC1:Bme+Binding+Site+For+Residue+A+501'>BC1</scene>
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
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<table><tr><td colspan='2'>[[2ga8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GA8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GA8 FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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|GENE=
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
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|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PRK09270 frcK], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=COG1072 CoaA]</span>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1uj2|1uj2]]</div></td></tr>
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|RELATEDENTRY=[[1uj2|1UJ2]]
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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=2ga8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ga8 OCA], [https://pdbe.org/2ga8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ga8 RCSB], [https://www.ebi.ac.uk/pdbsum/2ga8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ga8 ProSAT]</span></td></tr>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ga8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ga8 OCA], [http://www.ebi.ac.uk/pdbsum/2ga8 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2ga8 RCSB]</span>
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</table>
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}}
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== Function ==
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[[https://www.uniprot.org/uniprot/YFH7_YEAST YFH7_YEAST]] ATP-dependent kinase that could be involved in endoplasmic reticulum membrane assembly.<ref>PMID:12868057</ref>
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'''Crystal structure of YFH7 from Saccharomyces cerevisiae: a putative P-loop containing kinase with a circular permutation.'''
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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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==Overview==
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ga/2ga8_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=2ga8 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 ==
Genome sequencing projects have revealed that P-loop proteins are highly represented in all organisms and that many of them have no attributed function. They are characterized by a conserved nucleotide-binding domain and carry different activities implicated in many cellular processes. Saccharomyces cerevisiae YFH7 is one of these P-loop proteins of unknown function. In this work we tried to integrate bioinformatics, structure, and enzymology to discover the function of YFH7. Sequence analysis revealed that yeast YFH7 is a yeast-specific protein showing weak similarity with the phosphoribulokinase/uridine kinase/bacterial pantothenate kinase (PRK/URK/PANK) subfamily of P-loop containing kinases. A large insertion of about 100 residues distinguishes YFH7 from other members of the family. The 1.95 A resolution crystal structure of YFH7 solved using the SAD method confirmed that YFH7 has a fold similar to the PRK/URK/PANK family, with the characteristic core, lid, and NMP(bind) domains. An additional alpha/beta domain of novel topology corresponds to the large sequence insertion. Structural and ligand binding analysis combined with enzymatic assays suggest that YFH7 is an ATP-dependent small molecule kinase with new substrate specificity. Proteins 2007. (c) 2007 Wiley-Liss, Inc.
Genome sequencing projects have revealed that P-loop proteins are highly represented in all organisms and that many of them have no attributed function. They are characterized by a conserved nucleotide-binding domain and carry different activities implicated in many cellular processes. Saccharomyces cerevisiae YFH7 is one of these P-loop proteins of unknown function. In this work we tried to integrate bioinformatics, structure, and enzymology to discover the function of YFH7. Sequence analysis revealed that yeast YFH7 is a yeast-specific protein showing weak similarity with the phosphoribulokinase/uridine kinase/bacterial pantothenate kinase (PRK/URK/PANK) subfamily of P-loop containing kinases. A large insertion of about 100 residues distinguishes YFH7 from other members of the family. The 1.95 A resolution crystal structure of YFH7 solved using the SAD method confirmed that YFH7 has a fold similar to the PRK/URK/PANK family, with the characteristic core, lid, and NMP(bind) domains. An additional alpha/beta domain of novel topology corresponds to the large sequence insertion. Structural and ligand binding analysis combined with enzymatic assays suggest that YFH7 is an ATP-dependent small molecule kinase with new substrate specificity. Proteins 2007. (c) 2007 Wiley-Liss, Inc.
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==About this Structure==
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Crystal structure and functional analysis identify the P-loop containing protein YFH7 of Saccharomyces cerevisiae as an ATP-dependent kinase.,Gueguen-Chaignon V, Chaptal V, Lariviere L, Costa N, Lopes P, Morera S, Nessler S Proteins. 2007 Nov 14;. PMID:18004758<ref>PMID:18004758</ref>
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2GA8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GA8 OCA].
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==Reference==
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Crystal structure and functional analysis identify the P-loop containing protein YFH7 of Saccharomyces cerevisiae as an ATP-dependent kinase., Gueguen-Chaignon V, Chaptal V, Lariviere L, Costa N, Lopes P, Morera S, Nessler S, Proteins. 2007 Nov 14;. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18004758 18004758]
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[[Category: Saccharomyces cerevisiae]]
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[[Category: Single protein]]
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[[Category: Chaptal, V.]]
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[[Category: Morera, S.]]
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[[Category: unknown function]]
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[[Category: yfh7]]
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[[Category: yfr007w]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:13:55 2008''
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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 2ga8" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Atcc 18824]]
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[[Category: Large Structures]]
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[[Category: Chaptal, V]]
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[[Category: Morera, S]]
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[[Category: Unknown function]]
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[[Category: Yfh7]]
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[[Category: Yfr007w]]

Current revision

Crystal structure of YFH7 from Saccharomyces cerevisiae: a putative P-loop containing kinase with a circular permutation.

PDB ID 2ga8

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