4ppr: Difference between revisions

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 ==Crystal structure of Mycobacterium tuberculosis D,D-peptidase Rv3330 in complex with meropenem==
-<StructureSection load='4ppr' size='340' side='right' caption='[[4ppr]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='4ppr' size='340' side='right'caption='[[4ppr]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ppr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PPR FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ppr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PPR FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MER:(4R,5S)-3-{[(3S,5S)-5-(DIMETHYLCARBAMOYL)PYRROLIDIN-3-YL]SULFANYL}-5-[(2S,3R)-3-HYDROXY-1-OXOBUTAN-2-YL]-4-METHYL-4,5-DIHYDRO-1H-PYRROLE-2-CARBOXYLIC+ACID'>MER</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&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4p0m|4p0m]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MER:(4R,5S)-3-{[(3S,5S)-5-(DIMETHYLCARBAMOYL)PYRROLIDIN-3-YL]SULFANYL}-5-[(2S,3R)-3-HYDROXY-1-OXOBUTAN-2-YL]-4-METHYL-4,5-DIHYDRO-1H-PYRROLE-2-CARBOXYLIC+ACID'>MER</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=4ppr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppr OCA], [http://pdbe.org/4ppr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ppr RCSB], [http://www.ebi.ac.uk/pdbsum/4ppr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppr 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=4ppr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppr OCA], [https://pdbe.org/4ppr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ppr RCSB], [https://www.ebi.ac.uk/pdbsum/4ppr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppr ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/DACB1_MYCTU DACB1_MYCTU] Probably cleaves the terminal D-Ala-D-Ala dipeptide of the peptidoglycan stem peptide (Probable). Shows weak D,D-carboxypeptidase activity in vitro (PubMed:22906310). Acts on the synthetic penta-peptide substrate Penta-DAP (L-Ala-gamma-D-Gln-DAP-D-Ala-D-Ala) (PubMed:22906310). The catalytic domain binds weakly to peptidoglycan in vitro (PubMed:25551456).<ref>PMID:22906310</ref> <ref>PMID:25551456</ref> <ref>PMID:22906310</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 17: / Line 19: @@
 </div>
 <div class="pdbe-citations 4ppr" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Penicillin-binding protein 3D structures|Penicillin-binding protein 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Alber, T]]
+[[Category: Large Structures]]
-[[Category: Huizar, J P]]
+[[Category: Mycobacterium tuberculosis H37Rv]]
-[[Category: Mavrici, D]]
+[[Category: Alber T]]
-[[Category: Prigozhin, D M]]
+[[Category: Huizar JP]]
-[[Category: Structural genomic]]
+[[Category: Mavrici D]]
-[[Category: D-peptidase]]
+[[Category: Prigozhin DM]]
-[[Category: Hydrolase]]
-[[Category: National institute of allergy and infectious disease]]
-[[Category: Niaid]]
-[[Category: Penicillin-binding protein]]
-[[Category: Peptidoglycan d]]
-[[Category: Tbsgc]]