1q0t: Difference between revisions

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[[Image:1q0t.gif|left|200px]]


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==Ternary Structure of T4DAM with AdoHcy and DNA==
The line below this paragraph, containing "STRUCTURE_1q0t", creates the "Structure Box" on the page.
<StructureSection load='1q0t' size='340' side='right'caption='[[1q0t]], [[Resolution|resolution]] 3.10&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'>[[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>
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]] 3.1&#8491;</td></tr>
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<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>
{{STRUCTURE_1q0t| PDB=1q0t |  SCENE= }}
<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>


'''Ternary Structure of T4DAM with AdoHcy and DNA'''
==See Also==
 
*[[DNA adenine methylase|DNA adenine methylase]]
 
__TOC__
==Overview==
</StructureSection>
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.
[[Category: Escherichia virus T4]]
 
[[Category: Large Structures]]
==About this Structure==
[[Category: Cheng X]]
1Q0T 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=1Q0T OCA].
[[Category: Dong A]]
 
[[Category: Hattman S]]
==Reference==
[[Category: Horton JR]]
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://www.ncbi.nlm.nih.gov/pubmed/12937411 12937411]
[[Category: Kossykh V]]
[[Category: Enterobacteria phage t4]]
[[Category: Schlagman SL]]
[[Category: Single protein]]
[[Category: Yang Z]]
[[Category: Cheng, X.]]
[[Category: Zhang X]]
[[Category: Dong, A.]]
[[Category: Zhang XJ]]
[[Category: Hattman, S.]]
[[Category: Zhou L]]
[[Category: Horton, J R.]]
[[Category: Kossykh, V.]]
[[Category: Schlagman, S L.]]
[[Category: Yang, Z.]]
[[Category: Zhang, X.]]
[[Category: Zhang, X J.]]
[[Category: Zhou, L.]]
[[Category: Dna]]
[[Category: Methyltransferase]]
[[Category: T4dam]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 05:43:35 2008''

Latest revision as of 11:12, 14 February 2024

Ternary Structure of T4DAM with AdoHcy and DNATernary Structure of T4DAM with AdoHcy and DNA

Structural highlights

1q0t is a 4 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 3.1Å
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

1q0t, resolution 3.10Å

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