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6rl5

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The first crystal structure of the DABA aminotransferase EctB in the ectoine biosynthesis pathway of the model organism Chromohalobacter salexigens DSM 3034

Structural highlights

6rl5 is a 8 chain structure with sequence from Chromohalobacter salexigens DSM 3043. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.45Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ECTB_CHRSD Catalyzes reversively the conversion of L-aspartate beta-semialdehyde (ASA) to L-2,4-diaminobutyrate (DABA) by transamination with L-glutamate.

Publication Abstract from PubMed

L-2,4-diaminobutyric acid (DABA) aminotransferases can catalyze the formation of amines at the distal omega-position of substrates but were also found as the first and characterized as the rate-limiting enzyme in the biosynthesis pathway of the cytoprotecting molecule ectoine. Although there is an industrial interest in the biosynthesis of ectoine, the DABA aminotransferases remain poorly characterized. Herein, we present the crystal structure of EctB (2.45A) a DABA aminotransferase from Chromohalobacter salexigens DSM 3043, a well-studied organism with respect to osmoadaptation by ectoine biosynthesis. We investigate the enzyme's oligomeric state to show that EctB from C. salexigens is a tetramer of two functional dimers, and suggest conserved recognition sites for dimerization that also includes the characteristic gating-loop that helps shape the active site of the neighboring monomer. Although omega-transaminases are known to have two binding pockets to accommodate for their dual substrate specificity, we herein provide the first description of two binding pockets in the active site that may account for the catalytic character of DABA-aminotransferases. Furthermore, our biochemical data reveal that the EctB enzyme from C. salexigens is a thermostable, halotolerant enzyme with a broad pH tolerance which may be linked to its tetrameric state. Put together, this study creates a solid foundation for a deeper structural understanding of DABA aminotransferases and opening up for future downstream studies of EctB's catalytic character and its redesign as a better catalyst for ectoine biosynthesis. In summary, we believe that the EctB enzyme from C. salexigens can serve as a benchmark enzyme for characterization of DABA aminotransferases.

The crystal structure of the tetrameric DABA-aminotransferase EctB, a rate-limiting enzyme in the ectoine biosynthesis pathway.,Hillier HT, Altermark B, Leiros I FEBS J. 2020 Feb 29. doi: 10.1111/febs.15265. PMID:32112674^[1]

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

References

↑ Hillier HT, Altermark B, Leiros I. The crystal structure of the tetrameric DABA-aminotransferase EctB, a rate-limiting enzyme in the ectoine biosynthesis pathway. FEBS J. 2020 Feb 29. doi: 10.1111/febs.15265. PMID:32112674 doi:http://dx.doi.org/10.1111/febs.15265

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/6rl5"

Categories: Chromohalobacter salexigens DSM 3043 | Large Structures | Altermark B | Hillier HT | Leiros I

@@ Line 3: / Line 3: @@
 <StructureSection load='6rl5' size='340' side='right'caption='[[6rl5]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6rl5]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RL5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6RL5 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6rl5]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Chromohalobacter_salexigens_DSM_3043 Chromohalobacter salexigens DSM 3043]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RL5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6RL5 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</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]] 2.45&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Diaminobutyrate--2-oxoglutarate_transaminase Diaminobutyrate--2-oxoglutarate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.76 2.6.1.76] </span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></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=6rl5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rl5 OCA], [http://pdbe.org/6rl5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6rl5 RCSB], [http://www.ebi.ac.uk/pdbsum/6rl5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6rl5 ProSAT]</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=6rl5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rl5 OCA], [https://pdbe.org/6rl5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6rl5 RCSB], [https://www.ebi.ac.uk/pdbsum/6rl5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6rl5 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/ECTB_CHRSD ECTB_CHRSD]] Catalyzes reversively the conversion of L-aspartate beta-semialdehyde (ASA) to L-2,4-diaminobutyrate (DABA) by transamination with L-glutamate.
+[https://www.uniprot.org/uniprot/ECTB_CHRSD ECTB_CHRSD] Catalyzes reversively the conversion of L-aspartate beta-semialdehyde (ASA) to L-2,4-diaminobutyrate (DABA) by transamination with L-glutamate.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 23: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Diaminobutyrate--2-oxoglutarate transaminase]]
+[[Category: Chromohalobacter salexigens DSM 3043]]
 [[Category: Large Structures]]
-[[Category: Altermark, B]]
+[[Category: Altermark B]]
-[[Category: Hillier, H T]]
+[[Category: Hillier HT]]
-[[Category: Leiros, I]]
+[[Category: Leiros I]]
-[[Category: Daba aminotransferase]]
-[[Category: Ectoine]]
-[[Category: Osmoadaptation]]
-[[Category: Transferase]]

6rl5

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Current revision

The first crystal structure of the DABA aminotransferase EctB in the ectoine biosynthesis pathway of the model organism Chromohalobacter salexigens DSM 3034

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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