Integration of data on diseases and drugs associated with PTM substrate sites


In recent years, an increasing evidence for crosstalk between PTMs has been reported. Although mass spectrometry (MS)-based proteomics has substantially improved our knowledge about substrate site specificity of single PTM, this neglects the fact that the crosstalk of combinatorial PTMs may act in concert in the regulation of protein function. Due to the relatively limited information about the frequency and functional relevance of PTM crosstalk, in this update, the PTM sites neighbouring with other PTM sites in a specified window length were subjected to motif discovery and functional enrichment analysis. This update confronts the current state of PTM crosstalk research and breaks the bottleneck of how proteomics may contribute to understanding PTM codes, revealing the next level of data complexity and proteomic limitation in prospective PTM research.

Investigation of crosstalk between O-glycosylation and phosphorylation sites.

PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Amidation6---------------
C-linked Glycosylation0---------------------
Carbamidation2-------------------
Carboxylation1--------------------
Citrullination33--
Crotonylation58
Formylation79
GPI-anchor0---------------------
Gamma-carboxyglutamic acid0---------------------
Glutarylation200
Glutathionylation760
Hydroxylation25
Lipoylation1--------------------
Myristate7---------------
Nitration11--------
O-linked Glycosylation132
Oxidation39--
Palmitoylation15------
Pyrrolidone carboxylic acid2-------------------
S-diacylglycerol0---------------------
S-nitrosylation823
Sulfation2-----------------
Sumoylation789
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Acetylation1410
Amidation1--------------------
C-linked Glycosylation0---------------------
Carbamidation1--------------------
Carboxylation0---------------------
Citrullination16-------
Crotonylation26-
Formylation3-----------------
GPI-anchor0---------------------
Gamma-carboxyglutamic acid0---------------------
Glutarylation5----------------
Glutathionylation128
Hydroxylation18
Lipoylation0---------------------
Malonylation300
Myristate1--------------------
N-linked Glycosylation6----------------
Nitration0---------------------
O-linked Glycosylation57-
Oxidation5----------------
Palmitoylation52--------------
Phosphorylation2632
Pyrrolidone carboxylic acid17------------------
S-diacylglycerol0---------------------
S-nitrosylation85
Succinylation215
Sulfation0---------------------
Sumoylation209----------
Ubiquitination927
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Amidation1--------------------
C-linked Glycosylation0---------------------
Carbamidation0---------------------
Carboxylation0---------------------
Citrullination0---------------------
Crotonylation0---------------------
Formylation0---------------------
GPI-anchor2------------------
Gamma-carboxyglutamic acid0---------------------
Glutarylation0---------------------
Glutathionylation3------------------
Hydroxylation1--------------------
Lipoylation0---------------------
Malonylation1--------------------
Myristate0---------------------
N-linked Glycosylation0---------------------
Nitration0---------------------
O-linked Glycosylation30----
Oxidation0---------------------
Palmitoylation0---------------------
Pyrrolidone carboxylic acid3------------------
S-diacylglycerol0---------------------
S-nitrosylation4------------------
Succinylation4-----------------
Sulfation2----------------
Sumoylation0---------------------
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Amidation4--------------
C-linked Glycosylation4-------------------
Carbamidation0---------------------
Carboxylation0---------------------
Citrullination0---------------------
Crosslink69
Crotonylation0---------------------
Formylation0---------------------
GPI-anchor2-----------------
Gamma-carboxyglutamic acid0---------------------
Glutarylation2------------------
Glutathionylation7------------
Hydroxylation21
Malonylation11-------------
Methylation39--
Myristate0---------------------
N-linked Glycosylation30----
Nitration0---------------------
Oxidation1--------------------
Palmitoylation0---------------------
Pyrrolidone carboxylic acid5----------------
S-diacylglycerol0---------------------
S-nitrosylation12---------
Succinylation13-----------
Sulfation3--------------
Sumoylation0---------------------
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Methylation2632
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Amidation0---------------------
Carbamidation0---------------------
Carboxylation0---------------------
Citrullination0---------------------
Crotonylation0---------------------
Formylation1--------------------
GPI-anchor0---------------------
Gamma-carboxyglutamic acid0---------------------
Glutarylation39--
Glutathionylation636
Hydroxylation1--------------------
Lipoylation0---------------------
Malonylation302-
Methylation85
Myristate1--------------------
Nitration2------------------
Oxidation2-------------------
Palmitoylation10----------------
Pyrrolidone carboxylic acid1--------------------
S-diacylglycerol0---------------------
Succinylation209-
Sulfation2-------------------
Sumoylation0---------------------
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Acetylation3928
Amidation0---------------------
C-linked Glycosylation0---------------------
Carbamidation0---------------------
Carboxylation0---------------------
Citrullination20--------------
Crotonylation15----------
Formylation79
GPI-anchor0---------------------
Gamma-carboxyglutamic acid0---------------------
Glutarylation173
Glutathionylation143-
Hydroxylation9------
Lipoylation0---------------------
Malonylation740
Methylation215
Myristate0---------------------
N-linked Glycosylation4-----------------
Nitration3------------------
O-linked Glycosylation14-----------
Oxidation6---------------
Palmitoylation2-------------------
Pyrrolidone carboxylic acid0---------------------
S-diacylglycerol0---------------------
S-nitrosylation209-
Sulfation2------------------
Sumoylation65-
Ubiquitination637
PTM TypeNumber of protein-10-9-8-7-6-5-4-3-2-1012345678910
Malonylation1157
Methylation927
Succinylation637

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