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3o07

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Revision as of 16:55, 4 August 2016

Crystal structure of yeast pyridoxal 5-phosphate synthase Snz1 complexed with substrate G3P

Structural highlights

3o07 is a 3 chain structure with sequence from Atcc 18824. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	3o06, 3o05, 2zbt, 3fem, 1znn
Gene:	SNZ1 (ATCC 18824)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[SNZ1_YEAST] Required for the production of pyridoxine (vitamin B6). May be involved in growth arrest and cellular response to nutrient limitation. Required for growth in the presence of low level of intracellular pyridoxine.^[1] ^[2]

Publication Abstract from PubMed

In most eubacteria, fungi, apicomplexa, plants, and some metazoans, the active form of vitamin B6, pyridoxal 5-phosphate (PLP) is de novo synthesized from three substrates, ribose 5-phosphate (R5P), dihydroxyacetone phosphate (DHAP), and ammonia hydrolyzed from glutamine by a complexed glutaminase. Of the three active sites of deoxyxylulose 5-phosphate (DXP)-independent PLP synthase (Pdx1), the R5P isomerization site has been assigned, but the sites for DHAP isomerization and PLP formation remain unknown. Here, we present the crystal structures of yeast Pdx1/Snz1, in apo-, glyceraldehyde 3-phosphate (G3P)- and PLP-bound forms, at 2.30, 1.80, and 2.20 A, respectively. Structural and biochemical analysis enabled us to assign the PLP-formation site, a G3P-binding site and a G3P-transfer site. We propose a putative catalytic mechanism for Pdx1/Snz1 in which R5P and DHAP are isomerized at two distinct sites and transferred along well-defined routes to a final destination for PLP synthesis.

Structural insights into the catalytic mechanism of the yeast pyridoxal 5-phosphate synthase Snz1.,Zhang X, Teng YB, Liu JP, He YX, Zhou K, Chen Y, Zhou CZ Biochem J. 2010 Oct 5. PMID:20919991^[3]

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

References

↑ Rodriguez-Navarro S, Llorente B, Rodriguez-Manzaneque MT, Ramne A, Uber G, Marchesan D, Dujon B, Herrero E, Sunnerhagen P, Perez-Ortin JE. Functional analysis of yeast gene families involved in metabolism of vitamins B1 and B6. Yeast. 2002 Oct;19(14):1261-76. PMID:12271461 doi:10.1002/yea.916
↑ Stolz J, Vielreicher M. Tpn1p, the plasma membrane vitamin B6 transporter of Saccharomyces cerevisiae. J Biol Chem. 2003 May 23;278(21):18990-6. Epub 2003 Mar 20. PMID:12649274 doi:10.1074/jbc.M300949200
↑ Zhang X, Teng YB, Liu JP, He YX, Zhou K, Chen Y, Zhou CZ. Structural insights into the catalytic mechanism of the yeast pyridoxal 5-phosphate synthase Snz1. Biochem J. 2010 Oct 5. PMID:20919991 doi:10.1042/BJ20101241

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/3o07"

@@ Line 1: / Line 1: @@
 ==Crystal structure of yeast pyridoxal 5-phosphate synthase Snz1 complexed with substrate G3P==
 <StructureSection load='3o07' size='340' side='right' caption='[[3o07]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
@@ Line 6: / Line 7: @@
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3o06|3o06]], [[3o05|3o05]], [[2zbt|2zbt]], [[3fem|3fem]], [[1znn|1znn]]</td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SNZ1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</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=3o07 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o07 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o07 RCSB], [http://www.ebi.ac.uk/pdbsum/3o07 PDBsum]</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=3o07 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o07 OCA], [http://pdbe.org/3o07 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3o07 RCSB], [http://www.ebi.ac.uk/pdbsum/3o07 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3o07 ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 18: / Line 19: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3o07" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>

3o07

From Proteopedia

Revision as of 16:55, 4 August 2016

Crystal structure of yeast pyridoxal 5-phosphate synthase Snz1 complexed with substrate G3P

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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