1v3y

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==The crystal structure of peptide deformylase from Thermus thermophilus HB8==
==The crystal structure of peptide deformylase from Thermus thermophilus HB8==
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<StructureSection load='1v3y' size='340' side='right' caption='[[1v3y]], [[Resolution|resolution]] 1.81&Aring;' scene=''>
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<StructureSection load='1v3y' size='340' side='right'caption='[[1v3y]], [[Resolution|resolution]] 1.81&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[1v3y]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V3Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V3Y FirstGlance]. <br>
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<table><tr><td colspan='2'>[[1v3y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V3Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V3Y FirstGlance]. <br>
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</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>
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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]] 1.81&#8491;</td></tr>
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<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </span></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=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>
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<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1v3y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v3y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v3y RCSB], [http://www.ebi.ac.uk/pdbsum/1v3y PDBsum], [http://www.topsan.org/Proteins/RSGI/1v3y TOPSAN]</span></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=1v3y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v3y OCA], [https://pdbe.org/1v3y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v3y RCSB], [https://www.ebi.ac.uk/pdbsum/1v3y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v3y ProSAT], [https://www.topsan.org/Proteins/RSGI/1v3y TOPSAN]</span></td></tr>
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<table>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/DEF_THETH DEF_THETH] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
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<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v3/1v3y_consurf.spt"</scriptWhenChecked>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v3/1v3y_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
</jmolCheckbox>
</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/chain_selection.php?pdb_ID=2ata ConSurf].
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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=1v3y ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Peptide deformylase]]
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[[Category: Large Structures]]
[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
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[[Category: Ito, K.]]
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[[Category: Ito K]]
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[[Category: Kamo, M.]]
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[[Category: Kamo M]]
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[[Category: Kudo, N.]]
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[[Category: Kudo N]]
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[[Category: Lee, W C.]]
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[[Category: Lee WC]]
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[[Category: Motoshim, H.]]
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[[Category: Motoshim H]]
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[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
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[[Category: Tanokura M]]
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[[Category: Tanokura, M.]]
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[[Category: Hydrolase]]
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[[Category: Peptide deformylase]]
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[[Category: Protein synthesis]]
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[[Category: Riken structural genomics/proteomics initiative]]
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[[Category: Rsgi]]
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[[Category: Structural genomic]]
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Current revision

The crystal structure of peptide deformylase from Thermus thermophilus HB8

PDB ID 1v3y

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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