1q0t

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1q0t" size="450" color="white" frame="true" align="right" spinBox="true" caption="1q0t, resolution 3.1&Aring;" /> '''Ternary Structure of ...)
Current revision (08:12, 14 February 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1q0t.gif|left|200px]]<br /><applet load="1q0t" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1q0t, resolution 3.1&Aring;" />
 
-
'''Ternary Structure of T4DAM with AdoHcy and DNA'''<br />
 
-
==Overview==
+
==Ternary Structure of T4DAM with AdoHcy and DNA==
-
DNA-adenine methylation at certain GATC sites plays a pivotal role in, bacterial and phage gene expression as well as bacterial virulence. We, report here the crystal structures of the bacteriophage T4Dam DNA adenine, methyltransferase (MTase) in a binary complex with the methyl-donor, product S-adenosyl-L-homocysteine (AdoHcy) and in a ternary complex with a, synthetic 12-bp DNA duplex and AdoHcy. T4Dam contains two domains: a, seven-stranded catalytic domain that harbors the binding site for AdoHcy, and a DNA binding domain consisting of a five-helix bundle and a, beta-hairpin that is conserved in the family of GATC-related MTase, orthologs. Unexpectedly, the sequence-specific T4Dam bound to DNA in a, nonspecific mode that contained two Dam monomers per synthetic duplex, even though the DNA contains a single GATC site. The ternary structure, provides a rare snapshot of an enzyme poised for linear diffusion along, the DNA.
+
<StructureSection load='1q0t' size='340' side='right'caption='[[1q0t]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1q0t]] is a 4 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=1Q0T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q0T 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]] 3.1&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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=1q0t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q0t OCA], [https://pdbe.org/1q0t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q0t RCSB], [https://www.ebi.ac.uk/pdbsum/1q0t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q0t ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/DMA_BPT4 DMA_BPT4] This methylase recognizes the double-stranded sequence GATC, causes specific methylation on A-2 on both strands.
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q0/1q0t_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1q0t ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1Q0T 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 IOD and SAH as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Site-specific_DNA-methyltransferase_(adenine-specific) Site-specific DNA-methyltransferase (adenine-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.72 2.1.1.72] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1Q0T OCA].
+
*[[DNA adenine methylase|DNA adenine methylase]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Structure of the bacteriophage T4 DNA adenine methyltransferase., Yang Z, Horton JR, Zhou L, Zhang XJ, Dong A, Zhang X, Schlagman SL, Kossykh V, Hattman S, Cheng X, Nat Struct Biol. 2003 Oct;10(10):849-55. Epub 2003 Aug 24. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12937411 12937411]
+
[[Category: Escherichia virus T4]]
-
[[Category: Bacteriophage t4]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Cheng X]]
-
[[Category: Site-specific DNA-methyltransferase (adenine-specific)]]
+
[[Category: Dong A]]
-
[[Category: Cheng, X.]]
+
[[Category: Hattman S]]
-
[[Category: Dong, A.]]
+
[[Category: Horton JR]]
-
[[Category: Hattman, S.]]
+
[[Category: Kossykh V]]
-
[[Category: Horton, J.R.]]
+
[[Category: Schlagman SL]]
-
[[Category: Kossykh, V.]]
+
[[Category: Yang Z]]
-
[[Category: Schlagman, S.L.]]
+
[[Category: Zhang X]]
-
[[Category: Yang, Z.]]
+
[[Category: Zhang XJ]]
-
[[Category: Zhang, X.]]
+
[[Category: Zhou L]]
-
[[Category: Zhang, X.J.]]
+
-
[[Category: Zhou, L.]]
+
-
[[Category: IOD]]
+
-
[[Category: SAH]]
+
-
[[Category: dna]]
+
-
[[Category: methyltransferase]]
+
-
[[Category: t4dam]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 00:17:20 2007''
+

Current revision

Ternary Structure of T4DAM with AdoHcy and DNA

PDB ID 1q0t

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1q0t"
Personal tools