1q0s: Difference between revisions

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New page: left|200px<br /><applet load="1q0s" size="450" color="white" frame="true" align="right" spinBox="true" caption="1q0s, resolution 2.3Å" /> '''Binary Structure of T...
 
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[[Image:1q0s.jpg|left|200px]]<br /><applet load="1q0s" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1q0s, resolution 2.3&Aring;" />
'''Binary Structure of T4DAM with AdoHcy'''<br />


==Overview==
==Binary Structure of T4DAM with AdoHcy==
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='1q0s' size='340' side='right'caption='[[1q0s]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1q0s]] 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=1Q0S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q0S 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]] 2.3&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=1q0s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q0s OCA], [https://pdbe.org/1q0s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q0s RCSB], [https://www.ebi.ac.uk/pdbsum/1q0s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q0s 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/q0/1q0s_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=1q0s ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1Q0S 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 SAH as [http://en.wikipedia.org/wiki/ligand ligand]. 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=1Q0S 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: SAH]]
[[Category: methyltransferase]]
[[Category: t4dam]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 00:17:17 2007''

Latest revision as of 11:12, 14 February 2024

Binary Structure of T4DAM with AdoHcyBinary Structure of T4DAM with AdoHcy

Structural highlights

1q0s is a 1 chain structure with sequence from Escherichia virus T4. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.3Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DMA_BPT4 This methylase recognizes the double-stranded sequence GATC, causes specific methylation on A-2 on both strands.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

1q0s, resolution 2.30Å

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