1yfj

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[[Image:1yfj.gif|left|200px]]
[[Image:1yfj.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 1yfj |SIZE=350|CAPTION= <scene name='initialview01'>1yfj</scene>, resolution 2.69&Aring;
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The line below this paragraph, containing "STRUCTURE_1yfj", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY= <span class='plainlinks'>[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] </span>
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or leave the SCENE parameter empty for the default display.
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|GENE= DAM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 Enterobacteria phage T4])
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-->
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|DOMAIN=
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{{STRUCTURE_1yfj| PDB=1yfj | SCENE= }}
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|RELATEDENTRY=[[1q0s|1Q0S]], [[1q0t|1Q0T]], [[1yf3|1YF3]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yfj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yfj OCA], [http://www.ebi.ac.uk/pdbsum/1yfj PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1yfj RCSB]</span>
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}}
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'''T4Dam in Complex with AdoHcy and 15-mer Oligonucleotide Showing Semi-specific and Specific Contact'''
'''T4Dam in Complex with AdoHcy and 15-mer Oligonucleotide Showing Semi-specific and Specific Contact'''
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[[Category: Enterobacteria phage t4]]
[[Category: Enterobacteria phage t4]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: Site-specific DNA-methyltransferase (adenine-specific)]]
 
[[Category: Cheng, X.]]
[[Category: Cheng, X.]]
[[Category: Hattman, S.]]
[[Category: Hattman, S.]]
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[[Category: Jeltsch, A.]]
[[Category: Jeltsch, A.]]
[[Category: Liebert, K.]]
[[Category: Liebert, K.]]
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[[Category: dna,protein-dna complex]]
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[[Category: Dna,protein-dna complex]]
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[[Category: methyltransferase]]
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[[Category: Methyltransferase]]
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[[Category: t4dam]]
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[[Category: T4dam]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 16:15:32 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:05:39 2008''
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Revision as of 13:15, 3 May 2008

Image:1yfj.gif

Template:STRUCTURE 1yfj

T4Dam in Complex with AdoHcy and 15-mer Oligonucleotide Showing Semi-specific and Specific Contact


Overview

DNA methyltransferases methylate target bases within specific nucleotide sequences. Three structures are described for bacteriophage T4 DNA-adenine methyltransferase (T4Dam) in ternary complexes with partially and fully specific DNA and a methyl-donor analog. We also report the effects of substitutions in the related Escherichia coli DNA methyltransferase (EcoDam), altering residues corresponding to those involved in specific interaction with the canonical GATC target sequence in T4Dam. We have identified two types of protein-DNA interactions: discriminatory contacts, which stabilize the transition state and accelerate methylation of the cognate site, and antidiscriminatory contacts, which do not significantly affect methylation of the cognate site but disfavor activity at noncognate sites. These structures illustrate the transition in enzyme-DNA interaction from nonspecific to specific interaction, suggesting that there is a temporal order for formation of specific contacts.

About this Structure

1YFJ is a Single protein structure of sequence from Enterobacteria phage t4. Full crystallographic information is available from OCA.

Reference

Transition from nonspecific to specific DNA interactions along the substrate-recognition pathway of dam methyltransferase., Horton JR, Liebert K, Hattman S, Jeltsch A, Cheng X, Cell. 2005 May 6;121(3):349-61. PMID:15882618 Page seeded by OCA on Sat May 3 16:15:32 2008

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