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| - | ==THE N69Q MUTANT OF VIBRIO CHOLERAE ENDONUCLEASE I== | + | ==The N69Q mutant of Vibrio cholerae endonuclease I== |
| - | <StructureSection load='2vnd' size='340' side='right' caption='[[2vnd]], [[Resolution|resolution]] 1.70Å' scene=''> | + | <StructureSection load='2vnd' size='340' side='right'caption='[[2vnd]], [[Resolution|resolution]] 1.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2vnd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VND OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VND FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2vnd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VND OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VND FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.7Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2g7f|2g7f]], [[2g7e|2g7e]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=2vnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vnd OCA], [http://pdbe.org/2vnd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vnd RCSB], [http://www.ebi.ac.uk/pdbsum/2vnd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vnd 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=2vnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vnd OCA], [https://pdbe.org/2vnd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vnd RCSB], [https://www.ebi.ac.uk/pdbsum/2vnd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vnd ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/DRNE_VIBCH DRNE_VIBCH] |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
| | Check<jmol> | | Check<jmol> |
| | <jmolCheckbox> | | <jmolCheckbox> |
| - | <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vn/2vnd_consurf.spt"</scriptWhenChecked> | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vn/2vnd_consurf.spt"</scriptWhenChecked> |
| - | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> |
| | <text>to colour the structure by Evolutionary Conservation</text> | | <text>to colour the structure by Evolutionary Conservation</text> |
| | </jmolCheckbox> | | </jmolCheckbox> |
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| | ==See Also== | | ==See Also== |
| - | *[[Endonuclease|Endonuclease]] | + | *[[Endonuclease 3D structures|Endonuclease 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bacillo virgola del koch trevisan 1884]] | + | [[Category: Large Structures]] |
| - | [[Category: Altermark, B]] | + | [[Category: Vibrio cholerae]] |
| - | [[Category: Brandsdal, B O]] | + | [[Category: Altermark B]] |
| - | [[Category: Helland, R]] | + | [[Category: Brandsdal BO]] |
| - | [[Category: Leiros, H K.S]] | + | [[Category: Helland R]] |
| - | [[Category: Niiranen, L]] | + | [[Category: Leiros H-KS]] |
| - | [[Category: Smalas, A O]] | + | [[Category: Niiranen L]] |
| - | [[Category: Willassen, N P]] | + | [[Category: Smalas AO]] |
| - | [[Category: Endonuclease]]
| + | [[Category: Willassen NP]] |
| - | [[Category: Endonuclease i]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Kinetic]]
| + | |
| - | [[Category: Nuclease]]
| + | |
| - | [[Category: Salt adaptation]]
| + | |
| - | [[Category: Secreted]]
| + | |
| - | [[Category: Thermodynamic stability]]
| + | |
| - | [[Category: Vibrio]]
| + | |
| Structural highlights
Function
DRNE_VIBCH
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Adaptation to extreme environments affects the stability and catalytic efficiency of enzymes, often endowing them with great industrial potential. We compared the environmental adaptation of the secreted endonuclease I from the cold-adapted marine fish pathogen Vibrio salmonicida (VsEndA) and the human pathogen Vibrio cholerae (VcEndA). Kinetic analysis showed that VsEndA displayed unique halotolerance. It retained a considerable amount of activity from low concentrations to at least 0.6 m NaCl, and was adapted to work at higher salt concentrations than VcEndA by maintaining a low K(m) value and increasing k(cat). In differential scanning calorimetry, salt stabilized both enzymes, but the effect on the calorimetric enthalpy and cooperativity of unfolding was larger for VsEndA, indicating salt dependence. Mutation of DNA binding site residues (VsEndA, Q69N and K71N; VcEndA, N69Q and N71K) affected the kinetic parameters. The VsEndA Q69N mutation also increased the T(m) value, whereas other mutations affected mainly DeltaH(cal). The determined crystal structure of VcEndA N69Q revealed the loss of one hydrogen bond present in native VcEndA, but also the formation of a new hydrogen bond involving residue 69 that could possibly explain the similar T(m) values for native and N69Q-mutated VcEndA. Structural analysis suggested that the stability, catalytic efficiency and salt tolerance of EndA were controlled by small changes in the hydrogen bonding networks and surface electrostatic potential. Our results indicate that endonuclease I adaptation is closely coupled to the conditions of the habitats of natural Vibrio, with VsEndA displaying a remarkable salt tolerance unique amongst the endonucleases characterized so far.
Effects of salt on the kinetics and thermodynamic stability of endonuclease I from Vibrio salmonicida and Vibrio cholerae.,Niiranen L, Altermark B, Brandsdal BO, Leiros HK, Helland R, Smalas AO, Willassen NP FEBS J. 2008 Apr;275(7):1593-605. Epub 2008 Feb 27. PMID:18312415[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Niiranen L, Altermark B, Brandsdal BO, Leiros HK, Helland R, Smalas AO, Willassen NP. Effects of salt on the kinetics and thermodynamic stability of endonuclease I from Vibrio salmonicida and Vibrio cholerae. FEBS J. 2008 Apr;275(7):1593-605. Epub 2008 Feb 27. PMID:18312415 doi:10.1111/j.1742-4658.2008.06317.x
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