5i2b: Difference between revisions

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<StructureSection load='5i2b' size='340' side='right'caption='[[5i2b]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
<StructureSection load='5i2b' size='340' side='right'caption='[[5i2b]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5i2b]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_ambifaria_iop40-10 Burkholderia ambifaria iop40-10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I2B OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5I2B FirstGlance]. <br>
<table><tr><td colspan='2'>[[5i2b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_ambifaria_IOP40-10 Burkholderia ambifaria IOP40-10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I2B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5I2B FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BB2:ACTINONIN'>BB2</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5hgw|5hgw]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BB2:ACTINONIN'>BB2</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">def, BamIOP4010DRAFT_5965 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=396596 Burkholderia ambifaria IOP40-10])</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5i2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i2b OCA], [https://pdbe.org/5i2b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5i2b RCSB], [https://www.ebi.ac.uk/pdbsum/5i2b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5i2b ProSAT]</span></td></tr>
<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>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5i2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i2b OCA], [http://pdbe.org/5i2b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i2b RCSB], [http://www.ebi.ac.uk/pdbsum/5i2b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i2b ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/B1FPK4_9BURK B1FPK4_9BURK]] 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.[HAMAP-Rule:MF_00163]  
[https://www.uniprot.org/uniprot/B1FPK4_9BURK B1FPK4_9BURK] 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.[HAMAP-Rule:MF_00163]
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Burkholderia ambifaria iop40-10]]
[[Category: Burkholderia ambifaria IOP40-10]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Peptide deformylase]]
[[Category: Structural genomic]]
[[Category: Burkholderia ambifaria]]
[[Category: Hydrolase]]
[[Category: Ssgcid]]

Latest revision as of 11:20, 23 August 2023

Crystal structure of a peptide deformylase from Burkholderia ambifaria with actinoninCrystal structure of a peptide deformylase from Burkholderia ambifaria with actinonin

Structural highlights

5i2b is a 1 chain structure with sequence from Burkholderia ambifaria IOP40-10. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.7Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

B1FPK4_9BURK 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.[HAMAP-Rule:MF_00163]

5i2b, resolution 1.70Å

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