1jiv: Difference between revisions

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-{{Seed}}
-[[Image:1jiv.png|left|200px]]
-<!--
+==T4 phage BGT in complex with Mg2+ : Form II==
-The line below this paragraph, containing "STRUCTURE_1jiv", creates the "Structure Box" on the page.
+<StructureSection load='1jiv' size='340' side='right'caption='[[1jiv]], [[Resolution|resolution]] 2.07&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1jiv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JIV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JIV FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.07&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-{{STRUCTURE_1jiv|  PDB=1jiv  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1jiv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jiv OCA], [https://pdbe.org/1jiv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jiv RCSB], [https://www.ebi.ac.uk/pdbsum/1jiv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jiv ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/GSTB_BPT4 GSTB_BPT4] Catalyzes the transfer of glucose (Glc) from uridine diphosphoglucose (UDP-Glc) to 5-hydroxymethylcytosine (5-HMC) in double-stranded DNA. Is involved in a DNA modification process to protect the phage genome against its own nucleases and the host restriction endonuclease system.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+beta-Glucosyltransferase (BGT) is a DNA-modifying enzyme encoded by bacteriophage T4 that transfers glucose from uridine diphosphoglucose to 5-hydroxymethyl cytosine bases of phage T4 DNA. We report six X-ray structures of the substrate-free and the UDP-bound enzyme. Four also contain metal ions which activate the enzyme, including Mg(2+) in forms 1 and 2 and Mn(2+) or Ca(2+). The substrate-free BGT structure differs by a domain movement from one previously determined in another space group. Further domain movements are seen in the complex with UDP and the four UDP-metal complexes. Mg(2+), Mn(2+) and Ca(2+) bind near the beta-phosphate of the nucleotide, but they occupy slightly different positions and have different ligands depending on the metal and the crystal form. Whilst the metal site observed in these complexes with the product UDP is not compatible with a role in activating glucose transfer, it approximates the position of the positive charge in the oxocarbonium ion thought to form on the glucose moiety of the substrate during catalysis.
-===T4 phage BGT in complex with Mg2+ : Form II===
+High resolution crystal structures of T4 phage beta-glucosyltransferase: induced fit and effect of substrate and metal binding.,Morera S, Lariviere L, Kurzeck J, Aschke-Sonnenborn U, Freemont PS, Janin J, Ruger W J Mol Biol. 2001 Aug 17;311(3):569-77. PMID:11493010<ref>PMID:11493010</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_11493010}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1jiv" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 11493010 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_11493010}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Escherichia virus T4]]
-JIV is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JIV OCA].
+[[Category: Large Structures]]
+[[Category: Aschke-Sonnenborn U]]
-==Reference==
+[[Category: Freemont PS]]
-High resolution crystal structures of T4 phage beta-glucosyltransferase: induced fit and effect of substrate and metal binding., Morera S, Lariviere L, Kurzeck J, Aschke-Sonnenborn U, Freemont PS, Janin J, Ruger W, J Mol Biol. 2001 Aug 17;311(3):569-77. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11493010 11493010]
+[[Category: Janin J]]
-[[Category: DNA beta-glucosyltransferase]]
+[[Category: Kurzeck J]]
-[[Category: Enterobacteria phage t4]]
+[[Category: Lariviere L]]
-[[Category: Single protein]]
+[[Category: Morera S]]
-[[Category: Aschke-Sonnenborn, U.]]
+[[Category: Ruger W]]
-[[Category: Freemont, P S.]]
-[[Category: Janin, J.]]
-[[Category: Kurzeck, J.]]
-[[Category: Lariviere, L.]]
-[[Category: Morera, S.]]
-[[Category: Ruger, W.]]
-[[Category: Glycosyltransferase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul  1 20:18:45 2008''