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| | ==PSEUDO T4 LYSOZYME MUTANT - Y88PHE-METHYL== | | ==PSEUDO T4 LYSOZYME MUTANT - Y88PHE-METHYL== |
| - | <StructureSection load='5kii' size='340' side='right' caption='[[5kii]], [[Resolution|resolution]] 1.56Å' scene=''> | + | <StructureSection load='5kii' size='340' side='right'caption='[[5kii]], [[Resolution|resolution]] 1.56Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5kii]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KII OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KII FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5kii]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KII OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KII FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HED:2-HYDROXYETHYL+DISULFIDE'>HED</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.56Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4PH:4-METHYL-L-PHENYLALANINE'>4PH</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=4PH:4-METHYL-L-PHENYLALANINE'>4PH</scene>, <scene name='pdbligand=HED:2-HYDROXYETHYL+DISULFIDE'>HED</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5khz|5khz]], [[5ki1|5ki1]], [[5ki2|5ki2]], [[5ki3|5ki3]], [[5ki8|5ki8]], [[5kig|5kig]], [[5kim|5kim]], [[5kio|5kio]]</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=5kii FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kii OCA], [https://pdbe.org/5kii PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kii RCSB], [https://www.ebi.ac.uk/pdbsum/5kii PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kii ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>
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| - | <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=5kii FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kii OCA], [http://pdbe.org/5kii PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kii RCSB], [http://www.ebi.ac.uk/pdbsum/5kii PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kii ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4]] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref> | + | [https://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 5kii" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5kii" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Lysin 3D structures|Lysin 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Lysozyme]] | + | [[Category: Escherichia virus T4]] |
| - | [[Category: Scholfield, M R]] | + | [[Category: Large Structures]] |
| - | [[Category: Halogen bond]] | + | [[Category: Scholfield MR]] |
| - | [[Category: Hydrolase]]
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| - | [[Category: T4 lysozyme]]
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| Structural highlights
Function
ENLYS_BPT4 Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.[1]
Publication Abstract from PubMed
The structures and stabilities of proteins are defined by a series of weak non-covalent electrostatic, van der Waals, and hydrogen bond (HB) interactions. In this study, we have designed and engineered halogen bonds (XBs) site-specifically in order to study their structure-energy relationship in a model protein, T4 lysozyme. The evidence for XBs is the displacement of the aromatic side chain towards an oxygen acceptor, at distances that are at or less than the sums of their respective van der Waals radii, when the hydroxyl substituent of the wildtype tyrosine is replaced by an iodine. In addition, thermal melting studies show that the iodine XB rescues the stabilization energy from an otherwise destabilizing substitution (at an equivalent non-interacting site), indicating that the interaction is also present in solution. Quantum chemical calculations show that the XB complements an HB at this site and that solvent structure must also be considered in trying to design molecular interactions such as XBs into biological systems. A bromine substitution also shows displacement of the side chain, but the distances and geometries do not indicate formation of an XB. Thus, we have dissected the contributions from various non-covalent interactions of halogens introduced into proteins, to drive the application of XBs, particularly in biomolecular design.
Structure-Energy Relationships of Halogen Bonds in Proteins.,Scholfield MR, Ford MC, Carlsson AC, Butta H, Mehl RA, Ho PS Biochemistry. 2017 Mar 27. doi: 10.1021/acs.biochem.7b00022. PMID:28345933[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Moussa SH, Kuznetsov V, Tran TA, Sacchettini JC, Young R. Protein determinants of phage T4 lysis inhibition. Protein Sci. 2012 Apr;21(4):571-82. doi: 10.1002/pro.2042. Epub 2012 Mar 2. PMID:22389108 doi:http://dx.doi.org/10.1002/pro.2042
- ↑ Scholfield MR, Ford MC, Carlsson AC, Butta H, Mehl RA, Ho PS. Structure-Energy Relationships of Halogen Bonds in Proteins. Biochemistry. 2017 Mar 27. doi: 10.1021/acs.biochem.7b00022. PMID:28345933 doi:http://dx.doi.org/10.1021/acs.biochem.7b00022
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