2fuc: Difference between revisions

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New page: left|200px<br /> <applet load="2fuc" size="450" color="white" frame="true" align="right" spinBox="true" caption="2fuc, resolution 2.10Å" /> '''Human alpha-Phospho...
 
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[[Image:2fuc.gif|left|200px]]<br />
<applet load="2fuc" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2fuc, resolution 2.10&Aring;" />
'''Human alpha-Phosphomannomutase 1 with Mg2+ cofactor bound'''<br />


==Overview==
==Human alpha-Phosphomannomutase 1 with Mg2+ cofactor bound==
Congenital disorder of glycosylation type 1a (CDG-1a) is a congenital, disease characterized by severe defects in nervous system development. It, is caused by mutations in alpha-phosphomannomutase (of which there are two, isozymes, alpha-PMM1 and alpha-PPM2). Here we report the x-ray crystal, structures of human alpha-PMM1 in the open conformation, with and without, the bound substrate, alpha-D-mannose 1-phosphate. Alpha-PMM1, like most, haloalkanoic acid dehalogenase superfamily (HADSF) members, consists of, two domains, the cap and core, which open to bind substrate and then close, to provide a solvent-exclusive environment for catalysis. The substrate, phosphate group is observed at a positively charged site of the cap, domain, rather than at the core domain phosphoryl-transfer site defined by, the Asp(19) nucleophile and Mg(2+) cofactor. This suggests that substrate, binds first to the cap and then is swept into the active site upon cap, closure. The orientation of the acid/base residue Asp(21) suggests that, alpha-phosphomannomutase (alpha-PMM) uses a different method of protecting, the aspartylphosphate from hydrolysis than the HADSF member, beta-phosphoglucomutase. It is hypothesized that the electrostatic, repulsion of positive charges at the interface of the cap and core domains, stabilizes alpha-PMM1 in the open conformation and that the negatively, charged substrate binds to the cap, thereby facilitating its closure over, the core domain. The two isozymes, alpha-PMM1 and alpha-PMM2, are shown to, have a conserved active-site structure and to display similar kinetic, properties. Analysis of the known mutation sites in the context of the, structures reveals the genotype-phenotype relationship underlying CDG-1a.
<StructureSection load='2fuc' size='340' side='right'caption='[[2fuc]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2fuc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FUC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FUC FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2fue|2fue]]</div></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phosphomannomutase Phosphomannomutase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.2.8 5.4.2.8] </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=2fuc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fuc OCA], [https://pdbe.org/2fuc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fuc RCSB], [https://www.ebi.ac.uk/pdbsum/2fuc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fuc ProSAT]</span></td></tr>
</table>
== Function ==
[[https://www.uniprot.org/uniprot/PMM1_HUMAN PMM1_HUMAN]] Involved in the synthesis of the GDP-mannose and dolichol-phosphate-mannose required for a number of critical mannosyl transfer reactions. In addition, may be responsible for the degradation of glucose-1,6-bisphosphate in ischemic brain.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fu/2fuc_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2fuc ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Congenital disorder of glycosylation type 1a (CDG-1a) is a congenital disease characterized by severe defects in nervous system development. It is caused by mutations in alpha-phosphomannomutase (of which there are two isozymes, alpha-PMM1 and alpha-PPM2). Here we report the x-ray crystal structures of human alpha-PMM1 in the open conformation, with and without the bound substrate, alpha-D-mannose 1-phosphate. Alpha-PMM1, like most haloalkanoic acid dehalogenase superfamily (HADSF) members, consists of two domains, the cap and core, which open to bind substrate and then close to provide a solvent-exclusive environment for catalysis. The substrate phosphate group is observed at a positively charged site of the cap domain, rather than at the core domain phosphoryl-transfer site defined by the Asp(19) nucleophile and Mg(2+) cofactor. This suggests that substrate binds first to the cap and then is swept into the active site upon cap closure. The orientation of the acid/base residue Asp(21) suggests that alpha-phosphomannomutase (alpha-PMM) uses a different method of protecting the aspartylphosphate from hydrolysis than the HADSF member beta-phosphoglucomutase. It is hypothesized that the electrostatic repulsion of positive charges at the interface of the cap and core domains stabilizes alpha-PMM1 in the open conformation and that the negatively charged substrate binds to the cap, thereby facilitating its closure over the core domain. The two isozymes, alpha-PMM1 and alpha-PMM2, are shown to have a conserved active-site structure and to display similar kinetic properties. Analysis of the known mutation sites in the context of the structures reveals the genotype-phenotype relationship underlying CDG-1a.


==About this Structure==
The X-ray crystal structures of human alpha-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a.,Silvaggi NR, Zhang C, Lu Z, Dai J, Dunaway-Mariano D, Allen KN J Biol Chem. 2006 May 26;281(21):14918-26. Epub 2006 Mar 15. PMID:16540464<ref>PMID:16540464</ref>
2FUC is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with MG as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Phosphomannomutase Phosphomannomutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.2.8 5.4.2.8] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2FUC OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
The X-ray crystal structures of human alpha-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a., Silvaggi NR, Zhang C, Lu Z, Dai J, Dunaway-Mariano D, Allen KN, J Biol Chem. 2006 May 26;281(21):14918-26. Epub 2006 Mar 15. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16540464 16540464]
</div>
[[Category: Homo sapiens]]
<div class="pdbe-citations 2fuc" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Phosphomannomutase|Phosphomannomutase]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Human]]
[[Category: Large Structures]]
[[Category: Phosphomannomutase]]
[[Category: Phosphomannomutase]]
[[Category: Single protein]]
[[Category: Allen, K N]]
[[Category: Allen, K.N.]]
[[Category: Dunaway-Mariano, D]]
[[Category: Dunaway-Mariano, D.]]
[[Category: Lu, Z]]
[[Category: Lu, Z.]]
[[Category: Silvaggi, N R]]
[[Category: Silvaggi, N.R.]]
[[Category: Zhang, C]]
[[Category: Zhang, C.]]
[[Category: Carbohydrate-deficient glycoprotein syndrome]]
[[Category: MG]]
[[Category: Haloalkanoic acid dehalogenase superfamily]]
[[Category: carbohydrate-deficient glycoprotein syndrome]]
[[Category: Isomerase]]
[[Category: haloalkanoic acid dehalogenase superfamily]]
[[Category: Protein glycosylation]]
[[Category: phosphomannomutase]]
[[Category: protein glycosylation]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 22:10:22 2007''

Latest revision as of 12:56, 5 May 2021

Human alpha-Phosphomannomutase 1 with Mg2+ cofactor boundHuman alpha-Phosphomannomutase 1 with Mg2+ cofactor bound

Structural highlights

2fuc is a 1 chain structure with sequence from Human. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
NonStd Res:
Activity:Phosphomannomutase, with EC number 5.4.2.8
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[PMM1_HUMAN] Involved in the synthesis of the GDP-mannose and dolichol-phosphate-mannose required for a number of critical mannosyl transfer reactions. In addition, may be responsible for the degradation of glucose-1,6-bisphosphate in ischemic brain.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Congenital disorder of glycosylation type 1a (CDG-1a) is a congenital disease characterized by severe defects in nervous system development. It is caused by mutations in alpha-phosphomannomutase (of which there are two isozymes, alpha-PMM1 and alpha-PPM2). Here we report the x-ray crystal structures of human alpha-PMM1 in the open conformation, with and without the bound substrate, alpha-D-mannose 1-phosphate. Alpha-PMM1, like most haloalkanoic acid dehalogenase superfamily (HADSF) members, consists of two domains, the cap and core, which open to bind substrate and then close to provide a solvent-exclusive environment for catalysis. The substrate phosphate group is observed at a positively charged site of the cap domain, rather than at the core domain phosphoryl-transfer site defined by the Asp(19) nucleophile and Mg(2+) cofactor. This suggests that substrate binds first to the cap and then is swept into the active site upon cap closure. The orientation of the acid/base residue Asp(21) suggests that alpha-phosphomannomutase (alpha-PMM) uses a different method of protecting the aspartylphosphate from hydrolysis than the HADSF member beta-phosphoglucomutase. It is hypothesized that the electrostatic repulsion of positive charges at the interface of the cap and core domains stabilizes alpha-PMM1 in the open conformation and that the negatively charged substrate binds to the cap, thereby facilitating its closure over the core domain. The two isozymes, alpha-PMM1 and alpha-PMM2, are shown to have a conserved active-site structure and to display similar kinetic properties. Analysis of the known mutation sites in the context of the structures reveals the genotype-phenotype relationship underlying CDG-1a.

The X-ray crystal structures of human alpha-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a.,Silvaggi NR, Zhang C, Lu Z, Dai J, Dunaway-Mariano D, Allen KN J Biol Chem. 2006 May 26;281(21):14918-26. Epub 2006 Mar 15. PMID:16540464[1]

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

See Also

References

  1. Silvaggi NR, Zhang C, Lu Z, Dai J, Dunaway-Mariano D, Allen KN. The X-ray crystal structures of human alpha-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a. J Biol Chem. 2006 May 26;281(21):14918-26. Epub 2006 Mar 15. PMID:16540464 doi:http://dx.doi.org/10.1074/jbc.M601505200

2fuc, resolution 2.10Å

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