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6dam

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Crystal structure of lanthanide-dependent methanol dehydrogenase XoxF from Methylomicrobium buryatense 5G

Structural highlights

6dam is a 1 chain structure with sequence from Methylotuvimicrobium buryatense 5G. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.85Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A0A3F2YLY8_9GAMM

Publication Abstract from PubMed

In methylotrophic bacteria, which use one-carbon (C1) compounds as a carbon source, methanol is oxidized by pyrroloquinoline quinone (PQQ)-dependent methanol dehydrogenase (MDH) enzymes. Methylotrophic genomes generally encode two distinct MDHs, MxaF and XoxF. MxaF is a well-studied, calcium-dependent heterotetrameric enzyme whereas XoxF is a lanthanide-dependent homodimer. Recent studies suggest that XoxFs are likely the functional MDHs in many environments. In methanotrophs, methylotrophs that utilize methane, interactions between particulate methane monooxygenase (pMMO) and MxaF have been detected. To investigate the possibility of interactions between pMMO and XoxF, XoxF was isolated from the methanotroph Methylomicrobium buryatense 5GB1C (5G-XoxF). Purified 5G-XoxF exhibits a specific activity of 0.16 mumol DCPIP reduced min(-1) mg(-1). The 1.85 A resolution crystal structure reveals a La(III) ion in the active site, in contrast to the calcium ion in MxaF. The overall fold is similar to other MDH structures, but 5G-XoxF is a monomer in solution. An interaction between 5G-XoxF and its cognate pMMO was detected by biolayer interferometry, with a KD value of 50 +/- 17 muM. These results suggest an alternative model of MDH-pMMO association, in which a XoxF monomer may bind to pMMO, and underscore the potential importance of lanthanide-dependent MDHs in biological methane oxidation.

Structure and function of the lanthanide-dependent methanol dehydrogenase XoxF from the methanotroph Methylomicrobium buryatense 5GB1C.,Deng YW, Ro SY, Rosenzweig AC J Biol Inorg Chem. 2018 Aug 21. pii: 10.1007/s00775-018-1604-2. doi:, 10.1007/s00775-018-1604-2. PMID:30132076^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Deng YW, Ro SY, Rosenzweig AC. Structure and function of the lanthanide-dependent methanol dehydrogenase XoxF from the methanotroph Methylomicrobium buryatense 5GB1C. J Biol Inorg Chem. 2018 Aug 21. pii: 10.1007/s00775-018-1604-2. doi:, 10.1007/s00775-018-1604-2. PMID:30132076 doi:http://dx.doi.org/10.1007/s00775-018-1604-2

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6dam"

Categories: Large Structures | Methylotuvimicrobium buryatense 5G | Deng Y | Ro SY | Rosenzweig AC

@@ Line 1: / Line 1: @@
 ==Crystal structure of lanthanide-dependent methanol dehydrogenase XoxF from Methylomicrobium buryatense 5G==
-<StructureSection load='6dam' size='340' side='right' caption='[[6dam]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
+<StructureSection load='6dam' size='340' side='right'caption='[[6dam]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6dam]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methylomicrobium_buryatense_5g Methylomicrobium buryatense 5g]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DAM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DAM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6dam]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methylotuvimicrobium_buryatense_5G Methylotuvimicrobium buryatense 5G]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DAM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DAM FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LA:LANTHANUM+(III)+ION'>LA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PQQ:PYRROLOQUINOLINE+QUINONE'>PQQ</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]] 1.85&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6dam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dam OCA], [http://pdbe.org/6dam PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dam RCSB], [http://www.ebi.ac.uk/pdbsum/6dam PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dam ProSAT]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LA:LANTHANUM+(III)+ION'>LA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PQQ:PYRROLOQUINOLINE+QUINONE'>PQQ</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=6dam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dam OCA], [https://pdbe.org/6dam PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dam RCSB], [https://www.ebi.ac.uk/pdbsum/6dam PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dam ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A0A3F2YLY8_9GAMM A0A3F2YLY8_9GAMM]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 16: / Line 19: @@
 </div>
 <div class="pdbe-citations 6dam" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Methanol dehydrogenase|Methanol dehydrogenase]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Methylomicrobium buryatense 5g]]
+[[Category: Large Structures]]
-[[Category: Deng, Y]]
+[[Category: Methylotuvimicrobium buryatense 5G]]
-[[Category: Ro, S Y]]
+[[Category: Deng Y]]
-[[Category: Rosenzweig, A C]]
+[[Category: Ro SY]]
-[[Category: Dehydrogenase]]
+[[Category: Rosenzweig AC]]
-[[Category: Lanthanide]]
-[[Category: Lanthanum]]
-[[Category: Methanol]]
-[[Category: Methanotroph]]
-[[Category: Oxidoreductase]]
-[[Category: Pqq]]
-[[Category: Xoxf]]

6dam

From Proteopedia

Current revision

Crystal structure of lanthanide-dependent methanol dehydrogenase XoxF from Methylomicrobium buryatense 5G

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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