4hm7: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-{{STRUCTURE_4hm7|  PDB=4hm7  |  SCENE=  }}
-===Naphthalene 1,2-Dioxygenase bound to styrene===
-==Function==
+==Naphthalene 1,2-Dioxygenase bound to styrene==
-[[http://www.uniprot.org/uniprot/NDOB_PSEU8 NDOB_PSEU8]] Component of the naphthalene dioxygenase (NDO) multicomponent enzyme system which catalyzes the incorporation of both atoms of molecular oxygen into naphthalene to form cis-naphthalene dihydrodiol. [[http://www.uniprot.org/uniprot/NDOC_PSEU8 NDOC_PSEU8]] Component of the naphthalene dioxygenase (NDO) multicomponent enzyme system which catalyzes the incorporation of both atoms of molecular oxygen into naphthalene to form cis-naphthalene dihydrodiol. The beta subunit may be responsible for the substrate specificity of the enzyme.
+<StructureSection load='4hm7' size='340' side='right'caption='[[4hm7]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[4hm7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_sp._C18 Pseudomonas sp. C18]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HM7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HM7 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=SYN:ETHENYLBENZENE'>SYN</scene></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=4hm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hm7 OCA], [https://pdbe.org/4hm7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hm7 RCSB], [https://www.ebi.ac.uk/pdbsum/4hm7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hm7 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NDOB_PSEU8 NDOB_PSEU8] Component of the naphthalene dioxygenase (NDO) multicomponent enzyme system which catalyzes the incorporation of both atoms of molecular oxygen into naphthalene to form cis-naphthalene dihydrodiol.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Rieske nonheme iron oxygenases (ROs) are a well studied class of enzymes. Naphthalene 1,2-dioxygenase (NDO) is used as a model to study ROs. Previous work has shown how side-on binding of oxygen to the mononuclear iron provides this enzyme with the ability to catalyze stereospecific and regiospecific cis-dihydroxylation reactions. It has been well documented that ROs catalyze a variety of other reactions, including mono-oxygenation, desaturation, O- and N-dealkylation, sulfoxidation etc. NDO itself catalyzes a variety of these reactions. Structures of NDO in complex with a number of different substrates show that the orientation of the substrate in the active site controls not only the regiospecificity and stereospecificity, but also the type of reaction catalyzed. It is proposed that the mononuclear iron-activated dioxygen attacks the atoms of the substrate that are most proximal to it. The promiscuity of delivering two products (apparently by two different reactions) from the same substrate can be explained by the possible binding of the substrate in slightly different orientations aided by the observed flexibility of residues in the binding pocket.
-==About this Structure==
+One enzyme, many reactions: structural basis for the various reactions catalyzed by naphthalene 1,2-dioxygenase.,Ferraro DJ, Okerlund A, Brown E, Ramaswamy S IUCrJ. 2017 Aug 8;4(Pt 5):648-656. doi: 10.1107/S2052252517008223. eCollection , 2017 Sep 1. PMID:28989720<ref>PMID:28989720</ref>
-[[4hm7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_sp._c18 Pseudomonas sp. c18]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HM7 OCA].
-[[Category: Naphthalene 1,2-dioxygenase]]
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Pseudomonas sp. c18]]
+</div>
-[[Category: Ferraro, D J.]]
+<div class="pdbe-citations 4hm7" style="background-color:#fffaf0;"></div>
-[[Category: Ramaswamy, S.]]
-[[Category: Oxidoreductase-oxidoreductase inhibitor complex]]
+==See Also==
+*[[Dioxygenase 3D structures|Dioxygenase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Pseudomonas sp. C18]]
+[[Category: Ferraro DJ]]
+[[Category: Ramaswamy S]]