|
|
Line 1: |
Line 1: |
| | | |
| ==Structure of the catalytic domain of XlyA== | | ==Structure of the catalytic domain of XlyA== |
- | <StructureSection load='3rdr' size='340' side='right' caption='[[3rdr]], [[Resolution|resolution]] 2.20Å' scene=''> | + | <StructureSection load='3rdr' size='340' side='right'caption='[[3rdr]], [[Resolution|resolution]] 2.20Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
- | <table><tr><td colspan='2'>[[3rdr]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3hma 3hma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RDR FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3rdr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3hma 3hma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RDR 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=ZN:ZINC+ION'>ZN</scene></td></tr> | + | </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=ZN:ZINC+ION'>ZN</scene></td></tr> |
- | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">xlyA, BSU12810 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</td></tr> | + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">xlyA, BSU12810 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr> |
- | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr> | + | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></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=3rdr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdr OCA], [http://pdbe.org/3rdr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rdr RCSB], [http://www.ebi.ac.uk/pdbsum/3rdr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdr 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=3rdr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdr OCA], [https://pdbe.org/3rdr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rdr RCSB], [https://www.ebi.ac.uk/pdbsum/3rdr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdr ProSAT]</span></td></tr> |
| </table> | | </table> |
| == Function == | | == Function == |
- | [[http://www.uniprot.org/uniprot/XLYA_BACSU XLYA_BACSU]] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. | + | [[https://www.uniprot.org/uniprot/XLYA_BACSU XLYA_BACSU]] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. |
| <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
Line 24: |
Line 24: |
| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
- | [[Category: Bacillus globigii migula 1900]] | + | [[Category: Vibrio subtilis ehrenberg 1835]] |
| + | [[Category: Large Structures]] |
| [[Category: N-acetylmuramoyl-L-alanine amidase]] | | [[Category: N-acetylmuramoyl-L-alanine amidase]] |
| [[Category: Liddington, R C]] | | [[Category: Liddington, R C]] |
| Structural highlights
Function
[XLYA_BACSU] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation.
Publication Abstract from PubMed
The recombinant lysins of lytic phages, when applied externally to Gram-positive bacteria, can be efficient bactericidal agents, typically retaining high specificity. Their development as novel antibacterial agents offer many potential advantages over conventional antibiotics. Protein engineering could exploit this potential further by generating novel lysins fit for distinct target populations and environments. However, access to the peptidoglycan (PG) layer is controlled by a variety of secondary cell wall polymers (SCWPs), chemical modifications, and (in some cases) S-layers and capsules. Classical lysins require a cell wall-binding domain (CBD) that targets the catalytic domain to the PG layer via binding to an SCWP component. The cell walls of Gram-positive bacteria generally have a negative charge, and we noticed a correlation between (positive) charge on the catalytic domain and bacteriolytic activity in the absence of the CBD (non-classical behavior). We investigated a physical basis for this correlation by comparing the structures and activities of pairs of lysins where the lytic activity of one of each pair was CBD-independent. We found that by engineering a reversal of sign of the net charge of the catalytic domain, we could either eliminate or create CBD-dependence. We also provide evidence that the S-layer of Bacillus anthracis acts as a molecular sieve that is chiefly size-dependent, favoring catalytic domains over full-length lysins. Our work suggests a number of facile approaches for fine-tuning lysin activity, either to enhance or reduce specificity/host-range and/or bactericidal potential, as required.
The role of net charge on the catalytic domain and the influence of the cell-wall binding domain on the bactericidal activity, specificity and host-range of phage lysins.,Low LY, Yang C, Perego M, Osterman A, Liddington R J Biol Chem. 2011 Aug 4. PMID:21816821[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Low LY, Yang C, Perego M, Osterman A, Liddington R. The role of net charge on the catalytic domain and the influence of the cell-wall binding domain on the bactericidal activity, specificity and host-range of phage lysins. J Biol Chem. 2011 Aug 4. PMID:21816821 doi:10.1074/jbc.M111.244160
|