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Connectivity map

Each node is a pathway. An edge means a molecule produced by one is consumed by the other. Common carriers are excluded, otherwise everything joins to everything.

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Network

13 pathways · 26 edges
Oxidative Deamination → Transamination: Alpha-ketoglutarate, Aspartate Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Other Neurotransmitter Synthesis: Acetyl-CoA, Glutamate One-Carbon Metabolism (Folate Cycle) → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): 5-Methyl-THF, Methionine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → One-Carbon Metabolism (Folate Cycle): Homocysteine, Tetrahydrofolate (THF) Transamination → Oxidative Deamination: Glutamate Transamination → Glutathione Metabolism (gamma-Glutamyl Cycle): Glutamate Transamination → Other Neurotransmitter Synthesis: Glutamate Oxidative Deamination → Urea Cycle: Aspartate Oxidative Deamination → Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples): Alpha-ketoglutarate Oxidative Deamination → Glutathione Metabolism (gamma-Glutamyl Cycle): Glutamate Oxidative Deamination → Other Neurotransmitter Synthesis: Glutamate Urea Cycle → Other Neurotransmitter Synthesis: Arginine Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Transamination: Alpha-ketoglutarate Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Oxidative Deamination: Glutamate Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Heme Biosynthesis (Porphyrin Pathway): Succinyl-CoA Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Glutathione Metabolism (gamma-Glutamyl Cycle): Glutamate Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Catecholamine Synthesis: Tyrosine Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Serotonin & Melatonin Synthesis: Acetyl-CoA One-Carbon Metabolism (Folate Cycle) → Heme Biosynthesis (Porphyrin Pathway): Glycine One-Carbon Metabolism (Folate Cycle) → Glutathione Metabolism (gamma-Glutamyl Cycle): Glycine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Glutathione Metabolism (gamma-Glutamyl Cycle): Cysteine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Catecholamine Synthesis: S-adenosylmethionine (SAM) Catecholamine Synthesis → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): S-adenosylhomocysteine Serotonin & Melatonin Synthesis → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): S-adenosylmethionine (SAM) Serotonin & Melatonin Synthesis → Catecholamine Synthesis: S-adenosylmethionine (SAM) Propionyl-CoA to Succinyl-CoA (anaplerosis) → Heme Biosynthesis (Porphyrin Pathway): Succinyl-CoA Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) Amino Acid & Nitrogen Metabolism 8 connections · Hub Amino Acid Catabolism Overvie… Catecholamine Synthesis Amino Acid & Nitrogen Metabolism 4 connections · Connector Catecholamine Synthesis Glutathione Metabolism (gamma-Glutamyl Cycle) Amino Acid & Nitrogen Metabolism 5 connections · Connector Glutathione Metabolism (gamma… Heme Biosynthesis (Porphyrin Pathway) Amino Acid & Nitrogen Metabolism 3 connections · Connector Heme Biosynthesis (Porphyrin … Heme Degradation (Bilirubin Pathway) Amino Acid & Nitrogen Metabolism 0 connections · Terminal Heme Degradation (Bilirubin P… Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) Amino Acid & Nitrogen Metabolism 6 connections · Hub Methionine Cycle / Transmethy… One-Carbon Metabolism (Folate Cycle) Amino Acid & Nitrogen Metabolism 4 connections · Connector One-Carbon Metabolism (Folate… Other Neurotransmitter Synthesis Amino Acid & Nitrogen Metabolism 4 connections · Connector Other Neurotransmitter Synthe… Oxidative Deamination Amino Acid & Nitrogen Metabolism 7 connections · Hub Oxidative Deamination Propionyl-CoA to Succinyl-CoA (anaplerosis) Amino Acid & Nitrogen Metabolism 1 connection · Peripheral Propionyl-CoA to Succinyl-CoA… Serotonin & Melatonin Synthesis Amino Acid & Nitrogen Metabolism 3 connections · Connector Serotonin & Melatonin Synthes… Transamination Amino Acid & Nitrogen Metabolism 5 connections · Connector Transamination Urea Cycle Amino Acid & Nitrogen Metabolism 2 connections · Peripheral Urea Cycle

Circles — how connected a pathway is

  • Hub Connects to a large share of the map. Disturb one of these and the effect travels widely.
  • Connector Several links in and out. Typical of a pathway that both consumes and supplies intermediates.
  • Peripheral A handful of links, usually to close relatives within the same category.
  • Terminal One or two links. Either a short pathway or one the source documents describe in isolation.

Lines — what the connections mean

  • Violet joins two different categories — for example carbohydrate metabolism feeding lipid metabolism. These are the interesting ones.
  • Grey joins two pathways inside the same category.
  • Thickness is the number of different molecules shared. A thick line means the two pathways trade several intermediates, not just one.
› How to read this map

Think of each circle as a factory and each line as a delivery route. A line is drawn from one pathway to another when the first one makes a molecule that the second one uses. So the map is not about which pathways look similar; it is about which ones hand material to each other.

Big violet circles are the busy junctions. They sit in the middle of many deliveries, which is usually why a defect in one of them shows up in several organ systems at once. Small grey circles at the edge either are short pathways or are described on their own in the source documents, so they have few recorded hand-offs.

Common carriers such as ATP, NAD+ and water are deliberately left out. They take part in almost every reaction, so including them would connect everything to everything and the picture would say nothing. What remains are the specific intermediates.

Two cautions. A line means a connection exists somewhere in this dataset, not that material actually flows that way in a given tissue at a given moment — check the compartment and tissue on each pathway page. And a missing line may only mean the source documents did not record that step, not that biology lacks it.

Hover any circle for its name and connection count, hover any line for the molecules it carries, and click either to open the pathway behind it.

Filter by category

Carbohydrate Metabolism Lipid Metabolism Amino Acid & Nitrogen Metabolism Nucleotide Metabolism Energy Metabolism & Cellular Respiration Cofactor & Vitamin Metabolism Xenobiotic & Drug Metabolism

Junction detail

Directed: produced in the first pathway, consumed in the second

26 links