1jg7

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:40, 16 August 2023) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1jg7.jpg|left|200px]]<br /><applet load="1jg7" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1jg7, resolution 1.65&Aring;" />
 
-
'''T4 phage BGT in complex with UDP and Mn2+'''<br />
 
-
==Overview==
+
==T4 phage BGT in complex with UDP and Mn2+==
 +
<StructureSection load='1jg7' size='340' side='right'caption='[[1jg7]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1jg7]] 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=1JG7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JG7 FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</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=1jg7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jg7 OCA], [https://pdbe.org/1jg7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jg7 RCSB], [https://www.ebi.ac.uk/pdbsum/1jg7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jg7 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.
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.
-
==About this Structure==
+
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>
-
1JG7 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4] with <scene name='pdbligand=MN:'>MN</scene> and <scene name='pdbligand=UDP:'>UDP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA_beta-glucosyltransferase DNA beta-glucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.27 2.4.1.27] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JG7 OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
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://ispc.weizmann.ac.il//pmbin/getpm?pmid=11493010 11493010]
+
</div>
-
[[Category: Bacteriophage t4]]
+
<div class="pdbe-citations 1jg7" style="background-color:#fffaf0;"></div>
-
[[Category: DNA beta-glucosyltransferase]]
+
== References ==
-
[[Category: Single protein]]
+
<references/>
-
[[Category: Aschke-Sonnenborn, U.]]
+
__TOC__
-
[[Category: Freemont, P S.]]
+
</StructureSection>
-
[[Category: Janin, J.]]
+
[[Category: Escherichia virus T4]]
-
[[Category: Kurzeck, J.]]
+
[[Category: Large Structures]]
-
[[Category: Lariviere, L.]]
+
[[Category: Aschke-Sonnenborn U]]
-
[[Category: Morera, S.]]
+
[[Category: Freemont PS]]
-
[[Category: Ruger, W.]]
+
[[Category: Janin J]]
-
[[Category: MN]]
+
[[Category: Kurzeck J]]
-
[[Category: UDP]]
+
[[Category: Lariviere L]]
-
[[Category: glycosyltransferase]]
+
[[Category: Morera S]]
-
 
+
[[Category: Ruger W]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:22:21 2008''
+

Current revision

T4 phage BGT in complex with UDP and Mn2+

PDB ID 1jg7

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools