3wwm: Difference between revisions

Latest revision as of 13:32, 8 November 2023

Crystal structure of LysZ from Thermus thermophilus with ADP

Structural highlights

3wwm is a 1 chain structure with sequence from Thermus thermophilus HB27. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.8Å
Ligands:	ADP
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

LYSZ_THET2 Catalyzes the phosphorylation of LysW-gamma-alpha-aminoadipate. Does not phosphorylate N-acetyl-glutamate.^[1]

Publication Abstract from PubMed

In the biosynthesis of lysine by Thermus thermophilus, the metabolite alpha-ketoglutarate is converted to the intermediate alpha-aminoadipate (AAA), which is protected by the 54-amino acid acidic protein LysW. In this study, we determined the crystal structure of LysZ from T. thermophilus (TtLysZ), an amino acid kinase that catalyzes the second step in the AAA to lysine conversion, which was in a complex with LysW at a resolution of 1.85 A. A crystal analysis coupled with isothermal titration calorimetry of the TtLysZ mutants for TtLysW revealed tight interactions between LysZ and the globular and C-terminal extension domains of the LysW protein, which were mainly attributed to electrostatic forces. These results provided structural evidence for LysW acting as a protecting molecule for the alpha-amino group of AAA and also as a carrier protein to guarantee better recognition by biosynthetic enzymes for the efficient biosynthesis of lysine.

Structural insight into amino group-carrier protein-mediated lysine biosynthesis: crystal structure of the LysZ.LysW complex from Thermus thermophilus.,Yoshida A, Tomita T, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M J Biol Chem. 2015 Jan 2;290(1):435-47. doi: 10.1074/jbc.M114.595983. Epub 2014, Nov 12. PMID:25392000^[2]

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

References

↑ Yoshida A, Tomita T, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M. Structural insight into amino group-carrier protein-mediated lysine biosynthesis: crystal structure of the LysZ.LysW complex from Thermus thermophilus. J Biol Chem. 2015 Jan 2;290(1):435-47. doi: 10.1074/jbc.M114.595983. Epub 2014, Nov 12. PMID:25392000 doi:https://dx.doi.org/10.1074/jbc.M114.595983
↑ Yoshida A, Tomita T, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M. Structural insight into amino group-carrier protein-mediated lysine biosynthesis: crystal structure of the LysZ.LysW complex from Thermus thermophilus. J Biol Chem. 2015 Jan 2;290(1):435-47. doi: 10.1074/jbc.M114.595983. Epub 2014, Nov 12. PMID:25392000 doi:https://dx.doi.org/10.1074/jbc.M114.595983

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Yoshida A, Tomita T, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M. Structural insight into amino group-carrier protein-mediated lysine biosynthesis: crystal structure of the LysZ.LysW complex from Thermus thermophilus. J Biol Chem. 2015 Jan 2;290(1):435-47. doi: 10.1074/jbc.M114.595983. Epub 2014, Nov 12. PMID:25392000 doi:https://dx.doi.org/10.1074/jbc.M114.595983

[2] Yoshida A, Tomita T, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M. Structural insight into amino group-carrier protein-mediated lysine biosynthesis: crystal structure of the LysZ.LysW complex from Thermus thermophilus. J Biol Chem. 2015 Jan 2;290(1):435-47. doi: 10.1074/jbc.M114.595983. Epub 2014, Nov 12. PMID:25392000 doi:https://dx.doi.org/10.1074/jbc.M114.595983

[1]

[2]

@@ Line 3: / Line 3: @@
 <StructureSection load='3wwm' size='340' side='right'caption='[[3wwm]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3wwm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet2 Thet2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WWM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3WWM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3wwm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WWM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3WWM FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</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]] 2.8&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3wwl|3wwl]], [[3wwn|3wwn]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">TT_C1541 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=262724 THET2])</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=3wwm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wwm OCA], [https://pdbe.org/3wwm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3wwm RCSB], [https://www.ebi.ac.uk/pdbsum/3wwm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3wwm ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/LYSZ_THET2 LYSZ_THET2] Catalyzes the phosphorylation of LysW-gamma-alpha-aminoadipate. Does not phosphorylate N-acetyl-glutamate.<ref>PMID:25392000</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 23: / Line 24: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Thet2]]
+[[Category: Thermus thermophilus HB27]]
-[[Category: Kuzuyama, T]]
+[[Category: Kuzuyama T]]
-[[Category: Nishiyama, M]]
+[[Category: Nishiyama M]]
-[[Category: Tomita, T]]
+[[Category: Tomita T]]
-[[Category: Yoshida, A]]
+[[Category: Yoshida A]]
-[[Category: Amino acid kinase]]
-[[Category: Transferase]]

3wwm: Difference between revisions

Latest revision as of 13:32, 8 November 2023

Crystal structure of LysZ from Thermus thermophilus with ADP

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools