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4hrq

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Identification of Function and Mechanistic Insights of Guanine Deaminase from Nitrosomonas europaea: Role of the C-terminal Loop in Catalysis

Structural highlights

4hrq is a 2 chain structure with sequence from Nitrosomonas europaea ATCC 19718. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.9Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q82Y41_NITEU

Publication Abstract from PubMed

NE0047 from Nitrosomonas europaea has been annotated as a zinc-dependent deaminase; however, the substrate specificity is unknown because of the low level of structural similarity and sequence identity compared to other family members. In this study, the function of NE0047 was established as a guanine deaminase (catalytic efficiency of 1.2 x 105 M-1 s-1), exhibiting secondary activity towards ammeline. The structure of NE0047 in the presence of the substrate analogue 8-azaguanine was also determined to a resolution of 1.9 A. NE0047 crystallized as a homodimer in an asymmetric unit. It was found that the extreme nine-amino acid C-terminal loop forms an active site flap; in one monomer, the flap is in the closed conformation and in the other in the open conformation with this loop region exposed to the solvent. Calorimetric data obtained using the full-length version of the enzyme fit to a sequential binding model, thus supporting a cooperative mode of ligand occupancy. In contrast, the mutant form of the enzyme (DeltaC) with the deletion of the extreme nine amino acids follows an independent model of ligand occupancy. In addition, the DeltaC mutant also does not exhibit any enzyme activity. Therefore, we propose that the progress of the reaction is communicated via changes in the conformation of the C-terminal flap and the closed form of the enzyme is the catalytically active form, while the open form allows for product release. The catalytic mechanism of deamination was also investigated, and we found that the mutagenesis of the highly conserved active site residues Glu79 and Glu143 resulted in a complete loss of activity and concluded that they facilitate the reaction by serving as proton shuttles.

Identification of Function and Mechanistic Insights of Guanine Deaminase from Nitrosomonas europaea: Role of the C-Terminal Loop in Catalysis.,Bitra A, Hussain B, Tanwar AS, Anand R Biochemistry. 2013 May 6. PMID:23557066^[1]

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

References

↑ Bitra A, Hussain B, Tanwar AS, Anand R. Identification of Function and Mechanistic Insights of Guanine Deaminase from Nitrosomonas europaea: Role of the C-Terminal Loop in Catalysis. Biochemistry. 2013 May 6. PMID:23557066 doi:10.1021/bi400068g

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4hrq"

@@ Line 1: / Line 1: @@
 ==Identification of Function and Mechanistic Insights of Guanine Deaminase from Nitrosomonas europaea: Role of the C-terminal Loop in Catalysis==
-<StructureSection load='4hrq' size='340' side='right' caption='[[4hrq]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
+<StructureSection load='4hrq' size='340' side='right'caption='[[4hrq]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4hrq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Niteu Niteu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HRQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HRQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4hrq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Nitrosomonas_europaea_ATCC_19718 Nitrosomonas europaea ATCC 19718]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HRQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HRQ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZG:5-AMINO-1H-[1,2,3]TRIAZOLO[4,5-D]PYRIMIDIN-7-OL'>AZG</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]] 1.9&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2g84|2g84]], [[4hrw|4hrw]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AZG:5-AMINO-1H-[1,2,3]TRIAZOLO[4,5-D]PYRIMIDIN-7-OL'>AZG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">NE0047 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=228410 NITEU])</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=4hrq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hrq OCA], [https://pdbe.org/4hrq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hrq RCSB], [https://www.ebi.ac.uk/pdbsum/4hrq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hrq 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=4hrq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hrq OCA], [http://pdbe.org/4hrq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hrq RCSB], [http://www.ebi.ac.uk/pdbsum/4hrq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hrq ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q82Y41_NITEU Q82Y41_NITEU]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 19: @@
 </div>
 <div class="pdbe-citations 4hrq" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Deaminase 3D structures|Deaminase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Niteu]]
+[[Category: Large Structures]]
-[[Category: Anand, R]]
+[[Category: Nitrosomonas europaea ATCC 19718]]
-[[Category: Bhukya, H]]
+[[Category: Anand R]]
-[[Category: Bitra, A]]
+[[Category: Bhukya H]]
-[[Category: Tanwar, A S]]
+[[Category: Bitra A]]
-[[Category: Cytidine deaminase fold]]
+[[Category: Tanwar AS]]
-[[Category: Guanine deaminase]]
-[[Category: Hydrolase]]

4hrq

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Current revision

Identification of Function and Mechanistic Insights of Guanine Deaminase from Nitrosomonas europaea: Role of the C-terminal Loop in Catalysis

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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