6jcn: Difference between revisions

Latest revision as of 10:06, 22 November 2023

Yeast dehydrodolichyl diphosphate synthase complex subunit NUS1

Structural highlights

6jcn is a 2 chain structure with sequence from Saccharomyces cerevisiae S288C. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.998Å
Ligands:	SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

UPPS_YEAST With SRT1 or RER2, forms the dehydrodolichyl diphosphate synthase (DDS) complex, an essential component of the dolichol monophosphate (Dol-P) biosynthetic machinery. Adds multiple copies of isopentenyl pyrophosphate (IPP) to farnesyl pyrophosphate (FPP) to produce dehydrodolichyl diphosphate (Dedol-PP), a precursor of dolichol which is utilized as a sugar carrier in protein glycosylation in the endoplasmic reticulum (ER).^[1]

Publication Abstract from PubMed

The polyprenoid glycan carriers are produced by cis-prenyltransferases (cis-PTs), which function as heterodimers in metazoa and fungi or homodimers in bacteria, but both are found in plants, protista and archaea. Heterodimeric cis-PTs comprise catalytic and non-catalytic subunits while homodimeric enzymes contain two catalytic subunits. The non-catalytic subunits of cis-PT shows low sequence similarity to known cis-PTs and their structure information is of great interests. Here we report the crystal structure of Nus1, the non-catalytic subunit of cis-PT from Saccharomyces cerevisiae. We also investigate the heterodimer formation and active site conformation by constructing a homology model of Nus1 and its catalytic subunit. Nus1 does not contain an active site, but its C-terminus may participate in catalysis by interacting with the substrates bound to the catalytic subunit. These results provide important basis for further investigation of heterodimeric cis-PTs.

Structural insights to heterodimeric cis-prenyltransferases through yeast dehydrodolichyl diphosphate synthase subunit Nus1.,Ma J, Ko TP, Yu X, Zhang L, Ma L, Zhai C, Guo RT, Liu W, Li H, Chen CC Biochem Biophys Res Commun. 2019 Jun 6. pii: S0006-291X(19)31031-9. doi:, 10.1016/j.bbrc.2019.05.135. PMID:31178134^[2]

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

References

↑ Park EJ, Grabinska KA, Guan Z, Stranecky V, Hartmannova H, Hodanova K, Baresova V, Sovova J, Jozsef L, Ondruskova N, Hansikova H, Honzik T, Zeman J, Hulkova H, Wen R, Kmoch S, Sessa WC. Mutation of Nogo-B receptor, a subunit of cis-prenyltransferase, causes a congenital disorder of glycosylation. Cell Metab. 2014 Sep 2;20(3):448-57. doi: 10.1016/j.cmet.2014.06.016. Epub 2014, Jul 24. PMID:25066056 doi:https://dx.doi.org/10.1016/j.cmet.2014.06.016
↑ Ma J, Ko TP, Yu X, Zhang L, Ma L, Zhai C, Guo RT, Liu W, Li H, Chen CC. Structural insights to heterodimeric cis-prenyltransferases through yeast dehydrodolichyl diphosphate synthase subunit Nus1. Biochem Biophys Res Commun. 2019 Jun 6. pii: S0006-291X(19)31031-9. doi:, 10.1016/j.bbrc.2019.05.135. PMID:31178134 doi:https://dx.doi.org/10.1016/j.bbrc.2019.05.135

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Park EJ, Grabinska KA, Guan Z, Stranecky V, Hartmannova H, Hodanova K, Baresova V, Sovova J, Jozsef L, Ondruskova N, Hansikova H, Honzik T, Zeman J, Hulkova H, Wen R, Kmoch S, Sessa WC. Mutation of Nogo-B receptor, a subunit of cis-prenyltransferase, causes a congenital disorder of glycosylation. Cell Metab. 2014 Sep 2;20(3):448-57. doi: 10.1016/j.cmet.2014.06.016. Epub 2014, Jul 24. PMID:25066056 doi:https://dx.doi.org/10.1016/j.cmet.2014.06.016

[2] Ma J, Ko TP, Yu X, Zhang L, Ma L, Zhai C, Guo RT, Liu W, Li H, Chen CC. Structural insights to heterodimeric cis-prenyltransferases through yeast dehydrodolichyl diphosphate synthase subunit Nus1. Biochem Biophys Res Commun. 2019 Jun 6. pii: S0006-291X(19)31031-9. doi:, 10.1016/j.bbrc.2019.05.135. PMID:31178134 doi:https://dx.doi.org/10.1016/j.bbrc.2019.05.135

[1]

[2]

@@ Line 3: / Line 3: @@
 <StructureSection load='6jcn' size='340' side='right'caption='[[6jcn]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6jcn]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JCN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JCN FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6jcn]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JCN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JCN FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.998&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">NUS1, YDL193W, D1239 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ditrans,polycis-polyprenyl_diphosphate_synthase_((2E,6E)-farnesyl_diphosphate_specific) Ditrans,polycis-polyprenyl diphosphate synthase ((2E,6E)-farnesyl diphosphate specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.87 2.5.1.87] </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=6jcn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jcn OCA], [https://pdbe.org/6jcn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jcn RCSB], [https://www.ebi.ac.uk/pdbsum/6jcn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jcn ProSAT]</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=6jcn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jcn OCA], [http://pdbe.org/6jcn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jcn RCSB], [http://www.ebi.ac.uk/pdbsum/6jcn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jcn ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/UPPS_YEAST UPPS_YEAST]] With SRT1 or RER2, forms the dehydrodolichyl diphosphate synthase (DDS) complex, an essential component of the dolichol monophosphate (Dol-P) biosynthetic machinery. Adds multiple copies of isopentenyl pyrophosphate (IPP) to farnesyl pyrophosphate (FPP) to produce dehydrodolichyl diphosphate (Dedol-PP), a precursor of dolichol which is utilized as a sugar carrier in protein glycosylation in the endoplasmic reticulum (ER).<ref>PMID:25066056</ref>
+[https://www.uniprot.org/uniprot/UPPS_YEAST UPPS_YEAST] With SRT1 or RER2, forms the dehydrodolichyl diphosphate synthase (DDS) complex, an essential component of the dolichol monophosphate (Dol-P) biosynthetic machinery. Adds multiple copies of isopentenyl pyrophosphate (IPP) to farnesyl pyrophosphate (FPP) to produce dehydrodolichyl diphosphate (Dedol-PP), a precursor of dolichol which is utilized as a sugar carrier in protein glycosylation in the endoplasmic reticulum (ER).<ref>PMID:25066056</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Baker's yeast]]
 [[Category: Large Structures]]
-[[Category: Chen, C C]]
+[[Category: Saccharomyces cerevisiae S288C]]
-[[Category: Guo, R T]]
+[[Category: Chen C-C]]
-[[Category: Ko, T P]]
+[[Category: Guo R-T]]
-[[Category: Liu, W]]
+[[Category: Ko T-P]]
-[[Category: Ma, J]]
+[[Category: Liu W]]
-[[Category: Butterfly]]
+[[Category: Ma J]]
-[[Category: Cis-prenyl transferase]]
-[[Category: Dehydrodolichyl diphosphate synthesis]]
-[[Category: Heterodimer]]
-[[Category: Human ngbr]]
-[[Category: Rossmann-like fold]]
-[[Category: Transferase]]
-[[Category: Yeast rer2]]

6jcn: Difference between revisions

Latest revision as of 10:06, 22 November 2023

Yeast dehydrodolichyl diphosphate synthase complex subunit NUS1

Structural highlights

Function

Publication Abstract from PubMed

References

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