The interaction section - Explore protein and metabolic interaction networks

The Interaction section presents data on interaction networks based on protein-protein interactions from the IntAct database and metabolic pathways from the Metabolic Atlas. More information about the specific content and the generation of the data in this section can be found in the Methods summary.

Learn about:

the interactions of a protein with other proteins
features of the protein-protein interaction networks
what pathways/subsystems a metabolic gene is part of
which genes are nearby in the metabolic network
how the expression of the genes in a pathway/subsystem varies across different tissues

PROTEIN-PROTEIN INTERACTIONS

The protein-protein interaction network for each gene is based on data from the IntAct database and enables exploration of the interaction partners and their features including predicted and experimental subcellular location and tissue specificity. Interaction data is available for 11351 genes and below is an example network of the gene A1CF with the nodes coloured according to subcellular location. More information about the genes in the network is displayed by mouse-over and the network can be extended by clicking on a gene of interest.

More information about the protein interaction network, including how it was generated and what information it provides, can be found in the Methods summary.

METABOLIC MAPS - Explore the enzymes involved in human metabolism
The Metabolic maps enables exploration of protein function and tissue-specific gene expression in the context of the most curated human metabolic network. For proteins involved in metabolism, a metabolic summary is provided that describes the metabolic subsystems/pathways, cellular compartments, and number of reactions associated with the protein. Over 120 manually curated metabolic pathway maps facilitate the visualization of each protein's participation in different metabolic processes. Each pathway map is accompanied by a heatmap detailing the mRNA levels across 256 different tissue types for all proteins involved in the metabolic pathway. More information about the human metabolic network, including how it was generated and what information it provides, can be found in the Methods summary. Maps are organized by individual pathways to facilitate visualization of metabolic areas of interest. Further details and full cellular compartment maps are available at metabolicatlas.org.
Metabolic subsystem
Histidine metabolism HAL	Pentose phosphate pathway RBKS
Cellular compartment

Table 1. A complete list of the pathways details in the Metabolic Atlas and number of enzymes involved in each pathway.

Pathway	# genes
Acyl-CoA hydrolysis	8
Acylglycerides metabolism	38
Alanine; aspartate and glutamate metabolism	37
Amino sugar and nucleotide sugar metabolism	32
Aminoacyl-tRNA biosynthesis	21
Androgen metabolism	23
Arachidonic acid metabolism	108
Arginine and proline metabolism	59
Ascorbate and aldarate metabolism	10
Beta oxidation of branched-chain fatty acids (mitochondrial)	10
Beta oxidation of di-unsaturated fatty acids (n-6) (mitochondrial)	16
Beta oxidation of di-unsaturated fatty acids (n-6) (peroxisomal)	11
Beta oxidation of even-chain fatty acids (mitochondrial)	13
Beta oxidation of even-chain fatty acids (peroxisomal)	9
Beta oxidation of odd-chain fatty acids (mitochondrial)	12
Beta oxidation of phytanic acid (peroxisomal)	23
Beta oxidation of poly-unsaturated fatty acids (mitochondrial)	11
Beta oxidation of unsaturated fatty acids (n-7) (mitochondrial)	14
Beta oxidation of unsaturated fatty acids (n-7) (peroxisomal)	9
Beta oxidation of unsaturated fatty acids (n-9) (mitochondrial)	14
Beta oxidation of unsaturated fatty acids (n-9) (peroxisomal)	9
Beta-alanine metabolism	21
Bile acid biosynthesis	93
Bile acid recycling	16
Biopterin metabolism	12
Biotin metabolism	4
Blood group biosynthesis	16
Butanoate metabolism	19
C5-branched dibasic acid metabolism	4
Carnitine shuttle (cytosolic)	3
Carnitine shuttle (endoplasmic reticular)	7
Carnitine shuttle (mitochondrial)	8
Carnitine shuttle (peroxisomal)	7
Cholesterol biosynthesis 1 (Bloch pathway)	19
Cholesterol biosynthesis 2	3
Cholesterol biosynthesis 3 (Kandustch-Russell pathway)	9
Cholesterol metabolism	31
Chondroitin / heparan sulfate biosynthesis	43
Chondroitin sulfate degradation	17
CoA synthesis	2
Cysteine and methionine metabolism	52
Drug metabolism	55
Eicosanoid metabolism	42
Estrogen metabolism	71
Ether lipid metabolism	44
Fatty acid activation (cytosolic)	16
Fatty acid activation (endoplasmic reticular)	10
Fatty acid biosynthesis	26
Fatty acid biosynthesis (even-chain)	6
Fatty acid biosynthesis (odd-chain)	1
Fatty acid biosynthesis (unsaturated)	15
Fatty acid desaturation (even-chain)	6
Fatty acid desaturation (odd-chain)	2
Fatty acid elongation (even-chain)	15
Fatty acid elongation (odd-chain)	15
Fatty acid oxidation	69
Folate metabolism	21
Formation and hydrolysis of cholesterol esters	4
Fructose and mannose metabolism	34
Galactose metabolism	29
Glucocorticoid biosynthesis	8
Glutathione metabolism	32
Glycerolipid metabolism	66
Glycerophospholipid metabolism	108
Glycine; serine and threonine metabolism	58
Glycolysis / Gluconeogenesis	76
Glycosphingolipid biosynthesis-ganglio series	25
Glycosphingolipid biosynthesis-globo series	15
Glycosphingolipid biosynthesis-lacto and neolacto series	27
Glycosphingolipid metabolism	75
Glycosylphosphatidylinositol (GPI)-anchor biosynthesis	28
Heme degradation	3
Heme synthesis	2
Heparan sulfate degradation	13
Histidine metabolism	56
Inositol phosphate metabolism	101
Isolated	532
Keratan sulfate biosynthesis	22
Keratan sulfate degradation	13
Leukotriene metabolism	204
Linoleate metabolism	63
Lipoic acid metabolism	4
Lysine metabolism	50
Metabolism of other amino acids	29
Miscellaneous	92
N-glycan metabolism	69
Nicotinate and nicotinamide metabolism	48
Nucleotide metabolism	155
O-glycan metabolism	32
Omega-3 fatty acid metabolism	52
Omega-6 fatty acid metabolism	39
Oxidative phosphorylation	101
Pantothenate and CoA biosynthesis	15
Pentose and glucuronate interconversions	14
Pentose phosphate pathway	30
Phenylalanine metabolism	3
Phenylalanine; tyrosine and tryptophan biosynthesis	135
Phosphatidylinositol phosphate metabolism	22
Pool reactions	18
Porphyrin metabolism	21
Propanoate metabolism	45
Prostaglandin biosynthesis	50
Protein assembly	13
Protein degradation	20
Protein modification	8
Purine metabolism	139
Pyrimidine metabolism	74
Pyruvate metabolism	50
Retinol metabolism	128
Riboflavin metabolism	12
ROS detoxification	3
Serotonin and melatonin biosynthesis	55
Sphingolipid metabolism	130
Starch and sucrose metabolism	31
Steroid metabolism	95
Sulfur metabolism	10
Terpenoid backbone biosynthesis	15
Thiamine metabolism	6
Transport reactions	586
Tricarboxylic acid cycle and glyoxylate/dicarboxylate metabolism	52
Tryptophan metabolism	24
Tyrosine metabolism	60
Ubiquinone synthesis	3
Urea cycle	1
Valine; leucine; and isoleucine metabolism	73
Vitamin A metabolism	8
Vitamin B12 metabolism	2
Vitamin B2 metabolism	2
Vitamin B6 metabolism	7
Vitamin C metabolism	3
Vitamin D metabolism	10
Vitamin E metabolism	55
Xenobiotics metabolism	112
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METABOLICATLAS.ORG

The metabolic features of the Metabolic Section are provided by metabolicatlas.org, which offers further detailed biochemical information on over 13,000 reactions, 8,000 metabolites, and 3,000 enzymes involved in human metabolism. Interactive 2D and 3D maps of the metabolic network are provided, and are organized by cellular compartment or metabolic subsystem to facilitate visualization of metabolic areas of interest. A global search functionality enables advanced filtering, and the same data is available through the API.

The interaction section - Explore protein and metabolic interaction networks

Metabolic subsystem

Cellular compartment