Abstract
The present invention relates to methods for determining the methyltransferase activity of a polypeptide and screening for modulators of methyltransferase activity, more particularly for modulators of the methylation of VEGFR1 by SMYD3. The invention further provides methods and pharmaceutical compositions for treating and preventing colorectal cancer, hepatocellular carcinoma, bladder cancer and/or breast cancer using a modulator so identified.
Claims
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A method for identifying an agent that modulates methylation of VEGFR1 by SMYD3, said method comprising the steps of:
a. contacting an SMYD3 polypeptide having a methyltransferase activity selected from the group consisting of:
i. a polypeptide comprising the amino acid sequence of SEQ ID NO: 2;
ii. a polypeptide that comprises the amino acid sequence of SEQ ID NO: 2 wherein one or more amino acids are substituted, deleted, or inserted, further wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO: 2;
iii. a polypeptide that comprises the amino acid sequence having at least about 80% homology to SEQ ID NO: 2, wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO: 2;
iv. a polypeptide encoded by a polynucleotide that hybridizes under stringent conditions to a polynucleotide consisting of the nucleotide sequence of SEQ ID NO: 1, wherein the polypeptide has methyltransferase activity equivalent to a polypeptide consisting of the amino acid sequence of SEQ ID NO: 2; and
v. a polypeptide that comprises the amino acid sequence of positions 117 to 246 of the amino acid sequence of SEQ ID NO: 2, wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO:2;
with a VEGFR1 peptide to be methylated and a cofactor in the presence of the agent under conditions suitable for methylation of the VEGFR1 peptide;
b. detecting the methylation level of the VEGFR1 peptide; and
c. comparing the methylation level of step (b) with a control level detected in the absence of the agent,
wherein an increase or decrease in the methylation level compared to the control level indicates that the agent modulates the methylation of VEGFR1 by SMYD3.
- The method of claim 1, wherein said cofactor is S-adenosyl homocysteine hydrolase (SAHH).
- The method of claim 1, wherein the polypeptide defined in part (ii) comprises the amino acid sequence of SEQ ID NO: 2 including up to 20 conservative amino acid substitutions.
- The method of claim 1, wherein the polypeptide defined in part (iii) comprises an amino acid sequence having at least about 95% homology to SEQ ID NO: 2.
- The method of claim 1, wherein the polypeptide defined in part (iv) specifically hybridizes under highly stringent conditions to a polynucleotide consisting of the nucleotide sequence of SEQ ID NO: 1.
- The method of claim 1, wherein the polypeptide defined in part (v) comprises of the amino acid sequence of positions 100 to 250 of the amino acid sequence of SEQ ID NO: 2.
- The method of claim 1, wherein the VEGFR1 peptide is a polypeptide comprising the amino acid sequence of SEQ ID NO: 4, or a functional mutant or fragment thereof.
- The method of claim 7, wherein the functional VEGFR1 fragment comprises the amino acid sequence of positions 800-1000 of the amino acid sequence of SEQ ID NO: 4.
- The method of claim 7, wherein the functional VEGFR1 fragment comprises the amino acid sequence of positions 800-841 of the amino acid sequence of SEQ ID NO: 4.
- The method of claim 7, wherein the functional VEGFR1 mutant comprises the amino acid sequence of SEQ ID NO: 4, including one or more of the following mutations: K819A, K819E and K819R.
- The method of claim 1, wherein the methylation level is detected at VEGFR1 lysine 831.
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A method of screening for a compound for treating a cancer which over expresses SMYD3, said method comprising the steps of:
a. contacting a VEGFR1 peptide or fragment comprising SMYD3 binding region thereof and an SMYD3 polypeptide or fragment comprising VEGFR1 binding region thereof under a condition that allows the binding of the VEGFR1 peptide and the SMYD3 polypeptide and in the presence of a test compound; and
b. selecting the test compound that inhibits the binding between the or fragment comprising SMYD3 binding region thereof and an SMYD3 polypeptide or fragment comprising VEGFR1 binding region thereof as a candidate compound for treating cancer.
- The method of claim 12, wherein the fragment comprising SMYD3 binding region of VEGFR1 peptide comprises the amino acid sequence of positions 800-1000 of the amino acid sequence of SEQ ID NO: 4.
- The method of claim 12, wherein the fragment comprising VEGFR1 binding region of SMYD3 peptide comprises the amino acid sequence of positions 100-250 of the amino acid sequence of SEQ ID NO: 2.
- The method of claim 12, wherein the cancer is selected from group consisting of colorectal cancer, hepatocellular carcinoma, bladder cancer and breast cancer.
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A method of screening for a compound for treating a cancer which over expresses SMYD3, said method comprising the steps of:
a. identifying a test compound that modulates methylation using the method of claim 1, and
b. selecting the test compound that decreases the methylation level of a substrate to be methylated as compared to a control methylation level detected in the absence of the test compound.
- The method of claim 16, wherein the cancer is selected from group consisting of colorectal cancer, hepatocellular carcinoma, bladder cancer and breast cancer.
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A kit for detecting for the ability of a test compound to regulate methylation of VEGFR1, said kit comprising the components of:
a. an SMYD3 polypeptide having methyltransferase activity selected from the group consisting of:
i. a polypeptide comprising the amino acid sequence of SEQ ID NO: 2;
ii. a polypeptide comprising the amino acid sequence of SEQ ID NO: 2 wherein one or more amino acids are substituted, deleted, or inserted, further wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO: 2;
iii. a polypeptide that comprises the amino acid sequence having at least about 80% homology to SEQ ID NO: 2, wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO: 2;
iv. a polypeptide encoded by a polynucleotide that hybridizes under stringent conditions to a polynucleotide consisting of the nucleotide sequence of SEQ ID NO: 1, wherein the polypeptide has a methyltransferase activity equivalent to a polypeptide consisting of the amino acid sequence of SEQ ID NO: 2; and
v. a polypeptide that comprises the amino acid sequence of positions 117 to 246 of the amino acid sequence of SEQ ID NO: 2, wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO: 2;
b. a VEGFR1 peptide capable of being methylated by the polypeptide of (a), and
c. a cofactor for the methylation of the VEGFR1 peptide.
- The kit of claim 18, wherein the VEGFR1 peptide is a polypeptide comprising the amino acid sequence of SEQ ID NO: 4, or functional mutant or fragment thereof.
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The kit of claim 18, wherein said kit further comprises the element of:
d. S-adenosyl homocysteine hydrolase (SAHH).
- The kit of claim 18, wherein the polypeptide defined in part (v) comprises of the amino acid sequence of positions 100 to 250 of the amino acid sequence of SEQ ID NO: 2.
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A method of measuring methyltransferase activity of a polypeptide, said method comprising the steps of:
a. contacting a H3K4 methyltransferase with a VEGFR1 peptide to be methylated and a cofactor under the condition capable of methylation of the VEGFR1 peptide;
b. detecting the methylation level of the VEGFR1 peptide; and
c. measuring the methyltransferase activity by correlating the methylation level of step (b) with the methyltransferase activity.
- The method of claim 22, wherein the VEGFR1 peptide is a VEGFR1 fragment comprising at least K831.
- The method of claim 22, wherein the cofactor is an S-adenosyl-L-methionine.
- The method of claim 22, wherein the polypeptide is contacted with the VEGFR1 peptide and cofactor in the presence of an enhancing agent for the methylation.
- The method of claim 25, wherein the enhancing agent for the methylation is S-adenosyl homocysteine hydrolase (SAHH).
- The method of claim 23, wherein K831 is detected with an antibody recognizing methylated lysine 831 of VEGFR1.
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The method of claim 22, wherein the H3K4 methyltransferase is selected from the group consisting of:
i. a polypeptide comprising the amino acid sequence of SEQ ID NO: 2 (SMYD3);
ii. a polypeptide comprising the amino acid sequence of SEQ ID NO: 2 wherein one or more amino acids are substituted, deleted, or inserted, and said polypeptide has a biological activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO: 2;
iii. a polypeptide that comprises the amino acid sequence having at least about 80% homology to SEQ ID NO: 2;
iv. a polypeptide encoded by a polynucleotide that hybridizes under stringent conditions to a polynucleotide consisting of the nucleotide sequence of SEQ ID NO: 1, wherein the polypeptide has a biological activity equivalent to a polypeptide consisting of the amino acid sequence of SEQ ID NO: 2; and
v. a polypeptide that comprises the amino acid sequence of positions 117 to 246 of the amino acid sequence of SEQ ID NO: 2, wherein said polypeptide has a methyltransferase activity equivalent to the polypeptide consisting of the amino acid sequence of SEQ ID NO:2.
- The method of claim 28, wherein the polypeptide defined in part (v) comprises of the amino acid sequence of positions 100 to 250 of the amino acid sequence of SEQ ID NO: 2.
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A kit for measuring methyltransferase activity of SMYD3, said kit comprising the components of:
a. a VEGFR1 peptide capable of being methylated by the SMYD3,
b. a cofactor for the methylation of the VEGFR1 peptide, and
c. a detection regent for detecting methylated of lysine 831.
- The kit of claim 30, wherein the cofactor is an S-adenosyl-L-methionine.
- The kit of claim 30, wherein the detection reagent is an antibody recognizing methylated lysine 831 of VEGFR1.
- The kit of claim 30, wherein the kit further comprises an enhancing agent for the methylation of VEGFR1 by SMYD3
- The kit of claim 33, wherein the enhancing agent for the methylation is S-adenosyl homocysteine hydrolase (SAHH).
- An antibody that recognizes the methylation of VEGFR1.
- The antibody of claim 35, which recognizes the methylation at lysine 831 of VEGFR1.
Owners (US)
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Oncotherapy Science Inc
(Feb 03 2010)
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The University Of Tokyo
(Jan 25 2010)
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Applicants
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Oncotherapy Science Inc
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Inventors
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Nakatsuru Yusuke
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CPC Classifications
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C12Q1/48
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C12N9/1007
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G01N33/57415
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G01N33/57419
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G01N33/57438
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G01N33/57446
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G01N2333/71
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G01N2333/91011
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G01N2500/02
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IPC Classifications
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G01N33/573
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C07K16/40
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C12Q1/48
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Document Preview
- Publication: Jul 22, 2010
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Application:
Jun 13, 2008
US 66437808 A
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Priority:
Jun 13, 2008
US 66437808 A
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Priority:
Jun 13, 2008
JP 2008001516 W
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Priority:
Jun 14, 2007
US 94407107 P