3bm3: Difference between revisions
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<StructureSection load='3bm3' size='340' side='right'caption='[[3bm3]], [[Resolution|resolution]] 1.70Å' scene=''> | <StructureSection load='3bm3' size='340' side='right'caption='[[3bm3]], [[Resolution|resolution]] 1.70Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3bm3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_sp. | <table><tr><td colspan='2'>[[3bm3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_sp._GI-H Pyrococcus sp. GI-H]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BM3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BM3 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=3bm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bm3 OCA], [https://pdbe.org/3bm3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bm3 RCSB], [https://www.ebi.ac.uk/pdbsum/3bm3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bm3 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=3bm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bm3 OCA], [https://pdbe.org/3bm3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bm3 RCSB], [https://www.ebi.ac.uk/pdbsum/3bm3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bm3 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/O93646_9EURY O93646_9EURY] | |||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bm/3bm3_consurf.spt"</scriptWhenChecked> | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bm/3bm3_consurf.spt"</scriptWhenChecked> | ||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/ | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
</jmolCheckbox> | </jmolCheckbox> | ||
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<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
An extremely thermostable restriction endonuclease, PspGI, was purified from Pyrococcus sp. strain GI-H. PspGI is an isoschizomer of EcoRII and cleaves DNA before the first C in the sequence 5' CCWGG 3' (W is A or T). PspGI digestion can be carried out at 65 to 85 degrees C. To express PspGI at high levels, the PspGI restriction-modification genes (pspGIR and pspGIM) were cloned in Escherichia coli. M.PspGI contains the conserved sequence motifs of alpha-aminomethyltransferases; therefore, it must be an N4-cytosine methylase. M.PspGI shows 53% similarity to (44% identity with) its isoschizomer, M.MvaI from Micrococcus variabilis. In a segment of 87 amino acid residues, PspGI shows significant sequence similarity to EcoRII and to regions of SsoII and StyD4I which have a closely related recognition sequence (5' CCNGG 3'). PspGI was expressed in E. coli via a T7 expression system. Recombinant PspGI was purified to near homogeneity and had a half-life of 2 h at 95 degrees C. PspGI remained active following 30 cycles of thermocycling; thus, it can be used in DNA-based diagnostic applications. | |||
Characterization of an extremely thermostable restriction enzyme, PspGI, from a Pyrococcus strain and cloning of the PspGI restriction-modification system in Escherichia coli.,Morgan R, Xiao J, Xu S Appl Environ Microbiol. 1998 Oct;64(10):3669-73. PMID:009758783<ref>PMID:009758783</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Pyrococcus sp. | [[Category: Pyrococcus sp. GI-H]] | ||
[[Category: Bhagwat | [[Category: Bhagwat A]] | ||
[[Category: Bochtler | [[Category: Bochtler M]] | ||
[[Category: Carpenter | [[Category: Carpenter M]] | ||
[[Category: Czapinska | [[Category: Czapinska H]] | ||
[[Category: Siksnys | [[Category: Siksnys V]] | ||
[[Category: Szczepanowski | [[Category: Szczepanowski RH]] | ||
[[Category: Tamulaitis | [[Category: Tamulaitis G]] | ||