7dcb: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[7dcb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DCB FirstGlance]. <br> | <table><tr><td colspan='2'>[[7dcb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DCB FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NOS:INOSINE'>NOS</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NOS:INOSINE'>NOS</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=7dcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dcb OCA], [https://pdbe.org/7dcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dcb RCSB], [https://www.ebi.ac.uk/pdbsum/7dcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dcb 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=7dcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dcb OCA], [https://pdbe.org/7dcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dcb RCSB], [https://www.ebi.ac.uk/pdbsum/7dcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dcb ProSAT]</span></td></tr> | ||
</table> | </table> | ||
Latest revision as of 19:30, 29 November 2023
The structure of the Arabidopsis thaliana guanosine deaminase complexed with inosineThe structure of the Arabidopsis thaliana guanosine deaminase complexed with inosine
Structural highlights
FunctionGSDA_ARATH Catalyzes the hydrolytic deamination of guanosine, producing xanthosine and ammonia. Deaminates exclusively guanosine and 2'-deoxyguanosine but no other aminated purines, pyrimidines, or pterines. Deamination of guanosine by GSDA is the only source of xanthosine production in Arabidopsis.[1] Publication Abstract from PubMedIn plants, guanosine deaminase (GSDA) catalyzes the deamination of guanosine for nitrogen recycling and re-utilization. We previously solved crystal structures of GSDA from Arabidopsis thaliana (AtGSDA) and identified several novel substrates for this enzyme, but the structural basis of the enzyme activation/inhibition is poorly understood. Here, we continued to solve 8 medium-to-high resolution (1.85-2.60 A) cocrystal structures, which involved AtGSDA and its variants bound by a few ligands, and investigated their binding modes through structural studies and thermal shift analysis. Besides the lack of a 2-amino group of these guanosine derivatives, we discovered that AtGSDA's inactivity was due to the its inability to seclude its active site. Furthermore, the C-termini of the enzyme displayed conformational diversities under certain circumstances. The lack of functional amino groups or poor interactions/geometries of the ligands at the active sites to meet the precise binding and activation requirements for deamination both contributed to AtGSDA's inactivity toward the ligands. Altogether, our combined structural and biochemical studies provide insight into GSDA. Substrate Specificity of GSDA Revealed by Cocrystal Structures and Binding Studies.,Jia Q, Zhang J, Zeng H, Tang J, Xiao N, Gao S, Li H, Xie W Int J Mol Sci. 2022 Nov 29;23(23):14976. doi: 10.3390/ijms232314976. PMID:36499303[2] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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