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4pz9

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The native structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase Rv2419c

Structural highlights

4pz9 is a 2 chain structure with sequence from Mycobacterium tuberculosis H37Rv. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.94Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

GPGP_MYCTO Involved in the biosynthesis of mycobacterial methylglucose lipopolysaccharide (MGLP). Catalyzes the dephosphorylation of glucosyl-3-phosphoglycerate (GPG) to glucosylglycerate (GG) (By similarity).

Publication Abstract from PubMed

Mycobacterium tuberculosis (Mtb) synthesizes polymethylated polysaccharides that form complexes with long chain fatty acids. These complexes, referred to as methylglucose lipopolysaccharides (MGLPs), regulate fatty acid biosynthesis in vivo, including biosynthesis of mycolic acids that are essential for building the cell wall. Glucosyl-3-phosphoglycerate phosphatase (GpgP, EC 5.4.2.1), encoded by Rv2419c gene, catalyzes the second step of the pathway for the biosynthesis of MGLPs. The molecular basis for this dephosphorylation is currently not understood. Here, we describe the crystal structures of apo-, vanadate-bound, and phosphate-bound MtbGpgP, depicting unliganded, reaction intermediate mimic, and product-bound views of MtbGpgP, respectively. The enzyme consists of a single domain made up of a central beta-sheet flanked by alpha-helices on either side. The active site is located in a positively charged cleft situated above the central beta-sheet. Unambiguous electron density for vanadate covalently bound to His(11), mimicking the phosphohistidine intermediate, was observed. The role of residues interacting with the ligands in catalysis was probed by site-directed mutagenesis. Arg(10), His(11), Asn(17), Gln(23), Arg(60), Glu(84), His(159), and Leu(209) are important for enzymatic activity. Comparison of the structures of MtbGpgP revealed conformational changes in a key loop region connecting beta1 with alpha1. This loop regulates access to the active site. MtbGpgP functions as dimer. L209E mutation resulted in monomeric GpgP, rendering the enzyme incapable of dephosphorylation. The structures of GpgP reported here are the first crystal structures for histidine-phosphatase-type GpgPs. These structures shed light on a key step in biosynthesis of MGLPs that could be targeted for development of anti-tuberculosis therapeutics.

Mechanism of dephosphorylation of glucosyl-3-phosphoglycerate by a histidine phosphatase.,Zheng Q, Jiang D, Zhang W, Zhang Q, Zhao Q, Jin J, Li X, Yang H, Bartlam M, Shaw N, Zhou W, Rao Z J Biol Chem. 2014 Aug 1;289(31):21242-51. doi: 10.1074/jbc.M114.569913. Epub 2014, Jun 9. PMID:24914210^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Zheng Q, Jiang D, Zhang W, Zhang Q, Zhao Q, Jin J, Li X, Yang H, Bartlam M, Shaw N, Zhou W, Rao Z. Mechanism of dephosphorylation of glucosyl-3-phosphoglycerate by a histidine phosphatase. J Biol Chem. 2014 Aug 1;289(31):21242-51. doi: 10.1074/jbc.M114.569913. Epub 2014, Jun 9. PMID:24914210 doi:http://dx.doi.org/10.1074/jbc.M114.569913

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4pz9"

@@ Line 1: / Line 1: @@
 ==The native structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase Rv2419c==
-<StructureSection load='4pz9' size='340' side='right' caption='[[4pz9]], [[Resolution|resolution]] 1.94&Aring;' scene=''>
+<StructureSection load='4pz9' size='340' side='right'caption='[[4pz9]], [[Resolution|resolution]] 1.94&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4pz9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PZ9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PZ9 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4pz9]] is a 2 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=4PZ9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PZ9 FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4pza|4pza]], [[4qih|4qih]]</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]] 1.94&#8491;</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=4pz9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pz9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4pz9 RCSB], [http://www.ebi.ac.uk/pdbsum/4pz9 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=4pz9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pz9 OCA], [https://pdbe.org/4pz9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pz9 RCSB], [https://www.ebi.ac.uk/pdbsum/4pz9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pz9 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/GPGP_MYCTO GPGP_MYCTO]] Involved in the biosynthesis of mycobacterial methylglucose lipopolysaccharide (MGLP). Catalyzes the dephosphorylation of glucosyl-3-phosphoglycerate (GPG) to glucosylglycerate (GG) (By similarity).
+[https://www.uniprot.org/uniprot/GPGP_MYCTO GPGP_MYCTO] Involved in the biosynthesis of mycobacterial methylglucose lipopolysaccharide (MGLP). Catalyzes the dephosphorylation of glucosyl-3-phosphoglycerate (GPG) to glucosylglycerate (GG) (By similarity).
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 16: / Line 17: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 4pz9" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Jiang, D Q]]
+[[Category: Large Structures]]
-[[Category: Jin, J]]
+[[Category: Mycobacterium tuberculosis H37Rv]]
-[[Category: Li, X]]
+[[Category: Jiang DQ]]
-[[Category: Rao, Z]]
+[[Category: Jin J]]
-[[Category: Shaw, N]]
+[[Category: Li X]]
-[[Category: Yang, H T]]
+[[Category: Rao Z]]
-[[Category: Zhang, Q Q]]
+[[Category: Shaw N]]
-[[Category: Zhang, W]]
+[[Category: Yang HT]]
-[[Category: Zheng, Q Q]]
+[[Category: Zhang QQ]]
-[[Category: Zhou, W H]]
+[[Category: Zhang W]]
-[[Category: Glycolysis]]
+[[Category: Zheng QQ]]
-[[Category: Glycosyl-3-phosphoglycerate]]
+[[Category: Zhou WH]]
-[[Category: Hydrolase]]

4pz9

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Current revision

The native structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase Rv2419c

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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