1v2x

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[[Image:1v2x.jpg|left|200px]]<br /><applet load="1v2x" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1v2x.jpg|left|200px]]
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caption="1v2x, resolution 1.50&Aring;" />
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'''TrmH'''<br />
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{{Structure
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|PDB= 1v2x |SIZE=350|CAPTION= <scene name='initialview01'>1v2x</scene>, resolution 1.50&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene> and <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>
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|ACTIVITY= [http://en.wikipedia.org/wiki/tRNA_guanosine-2'-O-methyltransferase tRNA guanosine-2'-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.34 2.1.1.34]
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|GENE=
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}}
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'''TrmH'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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1V2X is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with <scene name='pdbligand=PO4:'>PO4</scene> and <scene name='pdbligand=SAM:'>SAM</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/tRNA_guanosine-2'-O-methyltransferase tRNA guanosine-2'-O-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.34 2.1.1.34] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2X OCA].
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1V2X is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2X OCA].
==Reference==
==Reference==
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Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme., Nureki O, Watanabe K, Fukai S, Ishii R, Endo Y, Hori H, Yokoyama S, Structure. 2004 Apr;12(4):593-602. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15062082 15062082]
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Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme., Nureki O, Watanabe K, Fukai S, Ishii R, Endo Y, Hori H, Yokoyama S, Structure. 2004 Apr;12(4):593-602. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15062082 15062082]
[[Category: Single protein]]
[[Category: Single protein]]
[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
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[[Category: riken structural genomics/proteomics initiative]]
[[Category: riken structural genomics/proteomics initiative]]
[[Category: rsgi]]
[[Category: rsgi]]
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[[Category: structural genomics]]
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[[Category: structural genomic]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:30:54 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:40:06 2008''

Revision as of 12:40, 20 March 2008

Image:1v2x.jpg


PDB ID 1v2x

Drag the structure with the mouse to rotate
, resolution 1.50Å
Ligands: and
Activity: tRNA guanosine-2'-O-methyltransferase, with EC number 2.1.1.34
Coordinates: save as pdb, mmCIF, xml



TrmH


Overview

The tRNA(Gm18) methyltransferase (TrmH) catalyzes the 2'-O methylation of guanosine 18 (Gua18) of tRNA. We solved the crystal structure of Thermus thermophilus TrmH complexed with S-adenosyl-L-methionine at 1.85 A resolution. The catalytic domain contains a deep trefoil knot, which mutational analyses revealed to be crucial for the formation of the catalytic site and the cofactor binding pocket. The tRNA dihydrouridine(D)-arm can be docked onto the dimeric TrmH, so that the tRNA D-stem is clamped by the N- and C-terminal helices from one subunit while the Gua18 is modified by the other subunit. Arg41 from the other subunit enters the catalytic site and forms a hydrogen bond with a bound sulfate ion, an RNA main chain phosphate analog, thus activating its nucleophilic state. Based on Gua18 modeling onto the active site, we propose that once Gua18 binds, the phosphate group activates Arg41, which then deprotonates the 2'-OH group for methylation.

About this Structure

1V2X is a Single protein structure of sequence from Thermus thermophilus. Full crystallographic information is available from OCA.

Reference

Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme., Nureki O, Watanabe K, Fukai S, Ishii R, Endo Y, Hori H, Yokoyama S, Structure. 2004 Apr;12(4):593-602. PMID:15062082

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