1nbi: Difference between revisions

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[[Image:1nbi.jpg|left|200px]]<br /><applet load="1nbi" size="~~450~~" color="white" frame="true" align="right" spinBox="true"

[[Image:1nbi.jpg|left|200px]]<br /><applet load="1nbi" size="350" color="white" frame="true" align="right" spinBox="true"

caption="1nbi, resolution 3.0Å" />

'''Structure of R175K mutated glycine N-methyltransferase complexed with S-adenosylmethionine, R175K:SAM.'''<br />

==Overview==

Methyltransfer reactions are some of the most important reactions in, biological systems. Glycine N-methyltransferase (GNMT) catalyzes the, S-adenosyl-l-methionine- (SAM-) dependent methylation of glycine to form, sarcosine. Unlike most SAM-dependent methyltransferases, GNMT has a, relatively high value and is weakly inhibited by the product, S-adenosyl-l-homocysteine (SAH). The major role of GNMT is believed to be, the regulation of the cellular SAM/SAH ratio, which is thought to play a, key role in SAM-dependent methyltransfer reactions. Crystal structures of, GNMT complexed with SAM and acetate (a potent competitive inhibitor of, Gly) and the R175K mutated enzyme complexed with SAM were determined at, 2.8 and 3.0 A resolutions, respectively. With these crystal structures and, the previously determined structures of substrate-free enzyme, a catalytic, mechanism has been proposed. Structural changes occur in the transitions, from the substrate-free to the binary complex and from the binary to the, ternary complex. In the ternary complex stage, an alpha-helix in the, N-terminus undergoes a major conformational change. As a result, the bound, SAM is firmly connected to protein and a "Gly pocket" is created near the, bound SAM. The second substrate Gly binds to Arg175 and is brought into, the Gly pocket. Five hydrogen bonds connect the Gly in the proximity of, the bound SAM and orient the lone pair orbital on the amino nitrogen (N), of Gly toward the donor methyl group (C(E)) of SAM. Thermal motion of the, enzyme leads to a collision of the N and C(E) so that a S(N)2, methyltransfer reaction occurs. The proposed mechanism is supported by, mutagenesis studies.

Methyltransfer reactions are some of the most important reactions in biological systems. Glycine N-methyltransferase (GNMT) catalyzes the S-adenosyl-l-methionine- (SAM-) dependent methylation of glycine to form sarcosine. Unlike most SAM-dependent methyltransferases, GNMT has a relatively high value and is weakly inhibited by the product S-adenosyl-l-homocysteine (SAH). The major role of GNMT is believed to be the regulation of the cellular SAM/SAH ratio, which is thought to play a key role in SAM-dependent methyltransfer reactions. Crystal structures of GNMT complexed with SAM and acetate (a potent competitive inhibitor of Gly) and the R175K mutated enzyme complexed with SAM were determined at 2.8 and 3.0 A resolutions, respectively. With these crystal structures and the previously determined structures of substrate-free enzyme, a catalytic mechanism has been proposed. Structural changes occur in the transitions from the substrate-free to the binary complex and from the binary to the ternary complex. In the ternary complex stage, an alpha-helix in the N-terminus undergoes a major conformational change. As a result, the bound SAM is firmly connected to protein and a "Gly pocket" is created near the bound SAM. The second substrate Gly binds to Arg175 and is brought into the Gly pocket. Five hydrogen bonds connect the Gly in the proximity of the bound SAM and orient the lone pair orbital on the amino nitrogen (N) of Gly toward the donor methyl group (C(E)) of SAM. Thermal motion of the enzyme leads to a collision of the N and C(E) so that a S(N)2 methyltransfer reaction occurs. The proposed mechanism is supported by mutagenesis studies.

==About this Structure==

1NBI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus] with SAM as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Glycine_N-methyltransferase Glycine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.20 2.1.1.20] Full crystallographic information is available from [http://~~ispc~~.weizmann.ac.il/oca-bin/ocashort?id=1NBI OCA].

1NBI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus] with <scene name='pdbligand=SAM:'>SAM</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Glycine_N-methyltransferase Glycine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.20 2.1.1.20] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NBI OCA].

==Reference==

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[[Category: methyltransferase]]

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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:04:17 2008''

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@@ Line 1: / Line 1: @@
-[[Image:1nbi.jpg|left|200px]]<br /><applet load="1nbi" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1nbi.jpg|left|200px]]<br /><applet load="1nbi" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1nbi, resolution 3.0&Aring;" />
 '''Structure of R175K mutated glycine N-methyltransferase complexed with S-adenosylmethionine, R175K:SAM.'''<br />
 ==Overview==
-Methyltransfer reactions are some of the most important reactions in, biological systems. Glycine N-methyltransferase (GNMT) catalyzes the, S-adenosyl-l-methionine- (SAM-) dependent methylation of glycine to form, sarcosine. Unlike most SAM-dependent methyltransferases, GNMT has a, relatively high value and is weakly inhibited by the product, S-adenosyl-l-homocysteine (SAH). The major role of GNMT is believed to be, the regulation of the cellular SAM/SAH ratio, which is thought to play a, key role in SAM-dependent methyltransfer reactions. Crystal structures of, GNMT complexed with SAM and acetate (a potent competitive inhibitor of, Gly) and the R175K mutated enzyme complexed with SAM were determined at, 2.8 and 3.0 A resolutions, respectively. With these crystal structures and, the previously determined structures of substrate-free enzyme, a catalytic, mechanism has been proposed. Structural changes occur in the transitions, from the substrate-free to the binary complex and from the binary to the, ternary complex. In the ternary complex stage, an alpha-helix in the, N-terminus undergoes a major conformational change. As a result, the bound, SAM is firmly connected to protein and a "Gly pocket" is created near the, bound SAM. The second substrate Gly binds to Arg175 and is brought into, the Gly pocket. Five hydrogen bonds connect the Gly in the proximity of, the bound SAM and orient the lone pair orbital on the amino nitrogen (N), of Gly toward the donor methyl group (C(E)) of SAM. Thermal motion of the, enzyme leads to a collision of the N and C(E) so that a S(N)2, methyltransfer reaction occurs. The proposed mechanism is supported by, mutagenesis studies.
+Methyltransfer reactions are some of the most important reactions in biological systems. Glycine N-methyltransferase (GNMT) catalyzes the S-adenosyl-l-methionine- (SAM-) dependent methylation of glycine to form sarcosine. Unlike most SAM-dependent methyltransferases, GNMT has a relatively high value and is weakly inhibited by the product S-adenosyl-l-homocysteine (SAH). The major role of GNMT is believed to be the regulation of the cellular SAM/SAH ratio, which is thought to play a key role in SAM-dependent methyltransfer reactions. Crystal structures of GNMT complexed with SAM and acetate (a potent competitive inhibitor of Gly) and the R175K mutated enzyme complexed with SAM were determined at 2.8 and 3.0 A resolutions, respectively. With these crystal structures and the previously determined structures of substrate-free enzyme, a catalytic mechanism has been proposed. Structural changes occur in the transitions from the substrate-free to the binary complex and from the binary to the ternary complex. In the ternary complex stage, an alpha-helix in the N-terminus undergoes a major conformational change. As a result, the bound SAM is firmly connected to protein and a "Gly pocket" is created near the bound SAM. The second substrate Gly binds to Arg175 and is brought into the Gly pocket. Five hydrogen bonds connect the Gly in the proximity of the bound SAM and orient the lone pair orbital on the amino nitrogen (N) of Gly toward the donor methyl group (C(E)) of SAM. Thermal motion of the enzyme leads to a collision of the N and C(E) so that a S(N)2 methyltransfer reaction occurs. The proposed mechanism is supported by mutagenesis studies.
 ==About this Structure==
-NBI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus] with SAM as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Glycine_N-methyltransferase Glycine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.20 2.1.1.20] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NBI OCA].
+NBI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus] with <scene name='pdbligand=SAM:'>SAM</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Glycine_N-methyltransferase Glycine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.20 2.1.1.20] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NBI OCA].
 ==Reference==
@@ Line 22: / Line 22: @@
 [[Category: methyltransferase]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:07:08 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:04:17 2008''