5jf3

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Current revision (11:01, 6 September 2023) (edit) (undo)
 
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<StructureSection load='5jf3' size='340' side='right'caption='[[5jf3]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
<StructureSection load='5jf3' size='340' side='right'caption='[[5jf3]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5jf3]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JF3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JF3 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5jf3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_agalactiae Streptococcus agalactiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JF3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JF3 FirstGlance]. <br>
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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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SF5:METHYL+4-({5-[(3R)-1-(HYDROXYAMINO)-1-OXOHEPTAN-3-YL]-1,2,4-OXADIAZOL-3-YL}METHYL)BENZOATE'>SF5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.6&#8491;</td></tr>
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<tr id='NonStdRes'><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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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene>, <scene name='pdbligand=SF5:METHYL+4-({5-[(3R)-1-(HYDROXYAMINO)-1-OXOHEPTAN-3-YL]-1,2,4-OXADIAZOL-3-YL}METHYL)BENZOATE'>SF5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr id='activity'><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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5jf3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jf3 OCA], [https://pdbe.org/5jf3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jf3 RCSB], [https://www.ebi.ac.uk/pdbsum/5jf3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jf3 ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5jf3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jf3 OCA], [http://pdbe.org/5jf3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jf3 RCSB], [http://www.ebi.ac.uk/pdbsum/5jf3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jf3 ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/DEF_STRA3 DEF_STRA3]] 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.
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[https://www.uniprot.org/uniprot/DEF_STRA3 DEF_STRA3] 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.
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
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</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Peptide deformylase]]
 
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[[Category: Fieulaine, S]]
 
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[[Category: Giglione, C]]
 
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[[Category: Meinnel, T]]
 
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[[Category: At018]]
 
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[[Category: Hydrolase]]
 
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[[Category: Inhibitor]]
 
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[[Category: N-terminal methionine excision]]
 
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[[Category: Nme]]
 
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[[Category: Pdf]]
 
[[Category: Streptococcus agalactiae]]
[[Category: Streptococcus agalactiae]]
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[[Category: Type 2]]
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[[Category: Fieulaine S]]
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[[Category: Giglione C]]
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[[Category: Meinnel T]]

Current revision

Crystal structure of type 2 PDF from Streptococcus agalactiae in complex with inhibitor AT018

PDB ID 5jf3

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