4z7a

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:13, 27 September 2023) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Structural and biochemical characterization of a non-functionally redundant M. tuberculosis (3,3) L,D-Transpeptidase, LdtMt5.==
==Structural and biochemical characterization of a non-functionally redundant M. tuberculosis (3,3) L,D-Transpeptidase, LdtMt5.==
-
<StructureSection load='4z7a' size='340' side='right' caption='[[4z7a]], [[Resolution|resolution]] 1.98&Aring;' scene=''>
+
<StructureSection load='4z7a' size='340' side='right'caption='[[4z7a]], [[Resolution|resolution]] 1.98&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[4z7a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Z7A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Z7A FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[4z7a]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Ra Mycobacterium tuberculosis H37Ra]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Z7A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Z7A FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</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]] 1.98&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3tur|3tur]], [[3u1q|3u1q]], [[3vae|3vae]], [[3u1p|3u1p]], [[3tx4|3tx4]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=4z7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4z7a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4z7a RCSB], [http://www.ebi.ac.uk/pdbsum/4z7a PDBsum]</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=4z7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4z7a OCA], [https://pdbe.org/4z7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4z7a RCSB], [https://www.ebi.ac.uk/pdbsum/4z7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4z7a ProSAT]</span></td></tr>
</table>
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/A5TZL1_MYCTA A5TZL1_MYCTA]
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
-
With multidrug-resistant cases of tuberculosis increasing globally, better antibiotic drugs and novel drug targets are becoming an urgent need. Traditional beta-lactam antibiotics that inhibit D,D-transpeptidases are not effective against mycobacteria, in part because mycobacteria rely mostly on L,D-transpeptidases for biosynthesis and maintenance of their peptidoglycan layer. This reliance plays a major role in drug resistance and persistence of Mycobacterium tuberculosis (Mtb) infections. The crystal structure at 1.7 A resolution of the Mtb L,D-transpeptidase Ldt(Mt2) containing a bound peptidoglycan fragment, reported here, provides information about catalytic site organization as well as substrate recognition by the enzyme. Based on our structural, kinetic, and calorimetric data, we propose a catalytic mechanism for Ldt(Mt2) in which both acyl-acceptor and acyl-donor substrates reach the catalytic site from the same, rather than different, entrances. Together, this information provides vital insights to facilitate development of drugs targeting this validated yet unexploited enzyme.
+
The final step of peptidoglycan (PG) biosynthesis in bacteria involves crosslinking of peptide side chains. This step in Mycobacterium tuberculosis is catalyzed by L,D- and D,D-transpeptidases that generate 3--&gt;3 and 4--&gt;3 transpeptide linkages, respectively. M. tuberculosis PG is predominantly 3--&gt;3 crosslinked and LdtMt2 is the dominant L,D-transpeptidase. There are four additional sequence paralogs of LdtMt2 encoded by the genome of this pathogen and the reason for this apparent redundancy is unknown. Here, we have studied one of the paralogs, LdtMt5, and found it to be structurally and functionaly distinct. The structures of apo-LdtMt5 and its Meropenem adduct presented here demonstrate that, despite overall architectural similarity to LdtMt2, the LdtMt5 active site has marked differences. The presence of a structurally divergent catalytic site and a proline-rich C-terminal subdomain suggest this protein may have a distinct role in PG metabolism, perhaps involving other cell wall-anchored proteins. Further, M. tuberculosis lacking a functional copy of LdtMt5 displays aberrant growth, and is more susceptible to killing by crystal violet, osmotic shock, and select carbapenem antibiotics. Therefore, we conclude LdtMt5 is not a functionally redundant L,D-transpeptidase, but rather it serves a unique and important role in maintaining the integrity of the M. tuberculosis cell wall.
-
Targeting the Cell Wall of Mycobacterium tuberculosis: Structure and Mechanism of L,D-Transpeptidase 2.,Erdemli SB, Gupta R, Bishai WR, Lamichhane G, Amzel LM, Bianchet MA Structure. 2012 Dec 5;20(12):2103-15. doi: 10.1016/j.str.2012.09.016. Epub 2012, Oct 25. PMID:23103390<ref>PMID:23103390</ref>
+
Loss of a functionally and structurally distinct L,D-transpeptidase, LdtMt5, compromises cell wall integrity in Mycobacterium tuberculosis.,Brammer Basta LA, Ghosh A, Pan Y, Jean J, Lloyd EP, Townsend CA, Lamichhane G, Bianchet MA J Biol Chem. 2015 Aug 24. pii: jbc.M115.660753. PMID:26304120<ref>PMID:26304120</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
</div>
 +
<div class="pdbe-citations 4z7a" style="background-color:#fffaf0;"></div>
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Basta, L]]
+
[[Category: Large Structures]]
-
[[Category: Bianchet, M A]]
+
[[Category: Mycobacterium tuberculosis H37Ra]]
-
[[Category: Ghosh, A]]
+
[[Category: Basta L]]
-
[[Category: Jakoncic, J]]
+
[[Category: Bianchet MA]]
-
[[Category: Lamichhane, G]]
+
[[Category: Ghosh A]]
-
[[Category: Lloyd, E]]
+
[[Category: Jakoncic J]]
-
[[Category: Pan, Y]]
+
[[Category: Lamichhane G]]
-
[[Category: Townsend, G]]
+
[[Category: Lloyd E]]
-
[[Category: Antibiotic]]
+
[[Category: Pan Y]]
-
[[Category: Carbapenem]]
+
[[Category: Townsend G]]
-
[[Category: Cell wall]]
+
-
[[Category: Cell wall biosynthesis]]
+
-
[[Category: Enzyme kinetic]]
+
-
[[Category: Enzyme structure]]
+
-
[[Category: Nitrocefin]]
+
-
[[Category: Peptidoglycan]]
+
-
[[Category: Transferase]]
+

Current revision

Structural and biochemical characterization of a non-functionally redundant M. tuberculosis (3,3) L,D-Transpeptidase, LdtMt5.

PDB ID 4z7a

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools