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| | ==Crystal structure of a putative fumarylacetoacetate isomerase/hydrolase from Oleispira antarctica== | | ==Crystal structure of a putative fumarylacetoacetate isomerase/hydrolase from Oleispira antarctica== |
| - | <StructureSection load='3v77' size='340' side='right' caption='[[3v77]], [[Resolution|resolution]] 2.10Å' scene=''> | + | <StructureSection load='3v77' size='340' side='right'caption='[[3v77]], [[Resolution|resolution]] 2.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3v77]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_14852 Dsm 14852]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3l53 3l53]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3V77 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3V77 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3v77]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Oleispira_antarctica Oleispira antarctica]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3l53 3l53]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3V77 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3V77 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=TAR:D(-)-TARTARIC+ACID'>TAR</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]] 2.1Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></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=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=TAR:D(-)-TARTARIC+ACID'>TAR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=3v77 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3v77 OCA], [http://pdbe.org/3v77 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3v77 RCSB], [http://www.ebi.ac.uk/pdbsum/3v77 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3v77 ProSAT]</span></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=3v77 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3v77 OCA], [https://pdbe.org/3v77 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3v77 RCSB], [https://www.ebi.ac.uk/pdbsum/3v77 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3v77 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/D2YW46_OLEAN D2YW46_OLEAN] |
| - | Ubiquitous bacteria from the genus Oleispira drive oil degradation in the largest environment on Earth, the cold and deep sea. Here we report the genome sequence of Oleispira antarctica and show that compared with Alcanivorax borkumensis-the paradigm of mesophilic hydrocarbonoclastic bacteria-O. antarctica has a larger genome that has witnessed massive gene-transfer events. We identify an array of alkane monooxygenases, osmoprotectants, siderophores and micronutrient-scavenging pathways. We also show that at low temperatures, the main protein-folding machine Cpn60 functions as a single heptameric barrel that uses larger proteins as substrates compared with the classical double-barrel structure observed at higher temperatures. With 11 protein crystal structures, we further report the largest set of structures from one psychrotolerant organism. The most common structural feature is an increased content of surface-exposed negatively charged residues compared to their mesophilic counterparts. Our findings are relevant in the context of microbial cold-adaptation mechanisms and the development of strategies for oil-spill mitigation in cold environments.
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| - | Genome sequence and functional genomic analysis of the oil-degrading bacterium Oleispira antarctica.,Kube M, Chernikova TN, Al-Ramahi Y, Beloqui A, Lopez-Cortez N, Guazzaroni ME, Heipieper HJ, Klages S, Kotsyurbenko OR, Langer I, Nechitaylo TY, Lunsdorf H, Fernandez M, Juarez S, Ciordia S, Singer A, Kagan O, Egorova O, Alain Petit P, Stogios P, Kim Y, Tchigvintsev A, Flick R, Denaro R, Genovese M, Albar JP, Reva ON, Martinez-Gomariz M, Tran H, Ferrer M, Savchenko A, Yakunin AF, Yakimov MM, Golyshina OV, Reinhardt R, Golyshin PN Nat Commun. 2013 Jul 23;4:2156. doi: 10.1038/ncomms3156. PMID:23877221<ref>PMID:23877221</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| - | </div>
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| - | <div class="pdbe-citations 3v77" style="background-color:#fffaf0;"></div>
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| - | == References ==
| + | |
| - | <references/>
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Dsm 14852]] | + | [[Category: Large Structures]] |
| - | [[Category: Bochkarev, A]] | + | [[Category: Oleispira antarctica]] |
| - | [[Category: Edwards, A M]] | + | [[Category: Bochkarev A]] |
| - | [[Category: Joachimiak, A]] | + | [[Category: Di Leo R]] |
| - | [[Category: Kagan, O]] | + | [[Category: Edwards AM]] |
| - | [[Category: Leo, R Di]] | + | [[Category: Joachimiak A]] |
| - | [[Category: Structural genomic]] | + | [[Category: Kagan O]] |
| - | [[Category: Savchenko, A]] | + | [[Category: Savchenko A]] |
| - | [[Category: Stogios, P J]] | + | [[Category: Stogios PJ]] |
| - | [[Category: Hydrolase]]
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| - | [[Category: Mcsg]]
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| - | [[Category: Ocean metagenomic]]
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| - | [[Category: PSI, Protein structure initiative]]
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