3py5: Difference between revisions

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<StructureSection load='3py5' size='340' side='right'caption='[[3py5]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
<StructureSection load='3py5' size='340' side='right'caption='[[3py5]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3py5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Brua2 Brua2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PY5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PY5 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3py5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Brucella_abortus_2308 Brucella abortus 2308]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PY5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PY5 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</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]] 1.7&#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;'>[[3md7|3md7]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">BAB1_1016 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=359391 BRUA2])</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=3py5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3py5 OCA], [https://pdbe.org/3py5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3py5 RCSB], [https://www.ebi.ac.uk/pdbsum/3py5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3py5 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=3py5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3py5 OCA], [https://pdbe.org/3py5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3py5 RCSB], [https://www.ebi.ac.uk/pdbsum/3py5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3py5 ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q2YQ74_BRUA2 Q2YQ74_BRUA2]
The crystal structure of a beta-lactamase-like protein from Brucella melitensis was initially solved by SAD phasing from an in-house data set collected on a crystal soaked with iodide. A high-resolution data set was collected at a synchroton at the Se edge wavelength, which also provided an independent source of phasing using a small anomalous signal from metal ions in the active site. Comparisons of anomalous peak heights at various wavelengths allowed the identification of the active-site metal ions as manganese. In the native data set a partially occupied GMP could be identified. When co-crystallized with AMPPNP or GMPPNP, clear density for the hydrolyzed analogs was observed, providing hints to the function of the protein.
 
BrabA.11339.a: anomalous diffraction and ligand binding guide towards the elucidation of the function of a `putative beta-lactamase-like protein' from Brucella melitensis.,Abendroth J, Sankaran B, Edwards TE, Gardberg AS, Dieterich S, Bhandari J, Napuli AJ, Van Voorhis WC, Staker BL, Myler PJ, Stewart LJ Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Sep 1;67(Pt, 9):1106-12. Epub 2011 Aug 16. PMID:21904058<ref>PMID:21904058</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3py5" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Brua2]]
[[Category: Brucella abortus 2308]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Structural genomic]]
[[Category: Amp]]
[[Category: Beta-lactamase like]]
[[Category: Brucella melitensis]]
[[Category: Gmp]]
[[Category: Hydrolase]]
[[Category: Mn centre]]
[[Category: Ssgcid]]

Latest revision as of 16:35, 1 March 2024

Crystal structure of a beta-lactamase-like protein from brucella melitensis bound to AMPCrystal structure of a beta-lactamase-like protein from brucella melitensis bound to AMP

Structural highlights

3py5 is a 1 chain structure with sequence from Brucella abortus 2308. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.7Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q2YQ74_BRUA2

3py5, resolution 1.70Å

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