3rnf: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
← Older edit
No edit summary
No edit summary
 
(3 intermediate revisions by the same user not shown)
Line 1: Line 1:
==Structure of the Toluene/o-Xylene Monooxygenase Hydroxylase T201S/V271A Double Mutant==
==Structure of the Toluene/o-Xylene Monooxygenase Hydroxylase T201S/V271A Double Mutant==
<StructureSection load='3rnf' size='340' side='right' caption='[[3rnf]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='3rnf' size='340' side='right'caption='[[3rnf]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3rnf]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_sp._ox1 Pseudomonas sp. ox1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RNF FirstGlance]. <br>
<table><tr><td colspan='2'>[[3rnf]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_sp._OX1 Pseudomonas sp. OX1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RNF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RNF FirstGlance]. <br>
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene><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]] 2.2&#8491;</td></tr>
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3rn9|3rn9]], [[3rna|3rna]], [[3rnb|3rnb]], [[3rnc|3rnc]], [[3rne|3rne]], [[3rng|3rng]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
<tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">touA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320855 Pseudomonas sp. OX1]), touE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320855 Pseudomonas sp. OX1]), touB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320855 Pseudomonas sp. OX1])</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=3rnf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rnf OCA], [https://pdbe.org/3rnf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rnf RCSB], [https://www.ebi.ac.uk/pdbsum/3rnf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rnf ProSAT]</span></td></tr>
<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=3rnf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rnf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rnf RCSB], [http://www.ebi.ac.uk/pdbsum/3rnf PDBsum]</span></td></tr>
</table>
<table>
== Function ==
<div style="background-color:#fffaf0;">
[https://www.uniprot.org/uniprot/Q6IV66_9PSED Q6IV66_9PSED]
== Publication Abstract from PubMed ==
For numerous enzymes reactive toward small gaseous compounds, growing evidence indicates that these substrates diffuse into active site pockets through defined pathways in the protein matrix. Toluene/o-xylene monooxygenase hydroxylase is a dioxygen-activating enzyme. Structural analysis suggests two possible pathways for dioxygen access through the alpha-subunit to the diiron center: a channel or a series of hydrophobic cavities. To distinguish which is utilized as the O(2) migration pathway, the dimensions of the cavities and the channel were independently varied by site-directed mutagenesis and confirmed by X-ray crystallography. The rate constants for dioxygen access to the diiron center were derived from the formation rates of a peroxodiiron(III) intermediate, generated upon treatment of the diiron(II) enzyme with O(2). This reaction depends on the concentration of dioxygen to the first order. Altering the dimensions of the cavities, but not the channel, changed the rate of dioxygen reactivity with the enzyme. These results strongly suggest that voids comprising the cavities in toluene/o-xylene monooxygenase hydroxylase are not artifacts of protein packing/folding, but rather programmed routes for dioxygen migration through the protein matrix. Because the cavities are not fully connected into the diiron active center in the enzyme resting state, conformational changes will be required to facilitate dioxygen access to the diiron center. We propose that such temporary opening and closing of the cavities may occur in all bacterial multicomponent monooxygenases to control O(2) consumption for efficient catalysis. Our findings suggest that other gas-utilizing enzymes may employ similar structural features to effect substrate passage through a protein matrix.
 
Tracking a defined route for O2 migration in a dioxygen-activating diiron enzyme.,Song WJ, Gucinski G, Sazinsky MH, Lippard SJ Proc Natl Acad Sci U S A. 2011 Aug 22. PMID:21859951<ref>PMID:21859951</ref>


From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
==See Also==
</div>
*[[Monooxygenase 3D structures|Monooxygenase 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Pseudomonas sp. ox1]]
[[Category: Large Structures]]
[[Category: Gucinski, G.]]
[[Category: Pseudomonas sp. OX1]]
[[Category: Lippard, S J.]]
[[Category: Gucinski G]]
[[Category: Sazinsky, M H.]]
[[Category: Lippard SJ]]
[[Category: Song, W J.]]
[[Category: Sazinsky MH]]
[[Category: Diiron]]
[[Category: Song WJ]]
[[Category: Four-helix bundle]]
[[Category: Hydroxylase]]
[[Category: Oxidoreductase]]
[[Category: Oxygen pathway]]
[[Category: Toluene]]

Latest revision as of 15:30, 14 March 2024

Structure of the Toluene/o-Xylene Monooxygenase Hydroxylase T201S/V271A Double MutantStructure of the Toluene/o-Xylene Monooxygenase Hydroxylase T201S/V271A Double Mutant

Structural highlights

3rnf is a 3 chain structure with sequence from Pseudomonas sp. OX1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.2Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q6IV66_9PSED

See Also

3rnf, resolution 2.20Å

Drag the structure with the mouse to rotate

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

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=3rnf&oldid=4096836"