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  • ? : A single character. E.g., trehalose?phosphatase covers both trehalose phosphatase and trehalose-phosphatase, of which, only the latter fits the nomenclature used in this database.
  • * : Any number of characters. E.g.,tre-* brings all genes from trehalase family; coenzyme*A covers coenzyme A, coenzyme-A, and coenzymeA.
Network Biomass WormPaths
PEAPathway Enrichment Analysis
WormClustClustering- and enrichment-based association of genes with the metabolic network WPSWorm Perturb-Seq portal
Metabolite Overview
Abbreviation ..................................................... : pheme
Name ..................................................... : Protoheme, etc.Heme, Haem, Heme B, Protoheme IX
Model ID ..................................................... : C00032
KEGG ID (?) Compounds in KEGG database that match this compound. ..................................................... : C00032
Formula ..................................................... : C34H30FeN4O4
Charge ..................................................... : 0
Localization ..................................................... : Mitochondria, Cytosol, Extracellular
BiGG matches (?) Compounds in BiGG database that match this compound. ..................................................... : pheme
Other associations ..................................................... : See reaction table below (8 reactions in total)

In WormPaths (?) Pathway maps where this metabolite is represented are listed here.

Letters after map name indicate the compartments the metabolite is placed in the map:

(c) Cytosol
(m) Mitochondria
(e) Extracellular space ..................................................... 		: Iron metabolism (c,e,m)
Comments
  • Charge changed from -2 to 0. BIGG charging convention seems to not take into account the carboxyl groups of porphyrin structure. However, these have to be taken into account during cytochrome synthesis. The adjusted charge convention is consistent with mass balance.

    • Reactions
    ID Enzyme Reactants Products Genes (?) Multiple genes are separated by OR (I) or AND (&).

    I indicates that genes are redundant within the group (e.g. paralogs encoding the same enzyme).
    & indicates that genes are non-redundant within the group (e.g. genes encoding different subunits of the same enzyme).

    If there are multiple groups of genes, as in an enzyme complex with some enzymes associated with multiple genes, or in a case where the same enzyme is associated with different orthology groups with paralogs, each group with multiple genes is shown in parentheses.     		Pathway
    RM02480Name: Cytochrome c apocytochrome-c-lyase
    Type: Regular
    Location: Mitochondria
    KEGG ID: R02480

    click to see details on this item
    4.4.1.17Name: holocytochrome-c synthase
    Other names: cytochrome c heme-lyase, holocytochrome c synthetase, holocytochrome-c apocytochrome-c-lyase

    click to see details on this item
    [m] : apocytcName: Apo cytochrome C
    Formula: C8H12N4O4S2R4
    Charge: 0




    click to see details on this item     + phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item
    focytCName: Ferrocytochrome C
    Formula: C42H42FeN8O8S2R4
    Charge: 0




    click to see details on this item
    cchl-1 & (cyc-2.1 | cyc-2.2)
    Iron metabolism
    RCC0076Name: heme protein synthesis
    Type: Regular
    Location: Cytosol
    KEGG ID: NA

    click to see details on this item
    Not applicable
    [c] : apohemeproteinName: Apohemeprotein
    Formula: X
    Charge: 0




    click to see details on this item     + phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item
    hemeproteinName: Hemeprotein
    Formula: C34H30FeN4O4X
    Charge: 0




    click to see details on this item
    Not applicable
    Iron metabolism
    RM07411Name: protoheme farnesyltransferase
    Type: Regular
    Location: Mitochondria, Cytosol
    KEGG ID: R07411

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    2.5.1.-Name: protoheme farnesyltransferase

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    phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [m] + h2oName: H2O
    Formula: H2O
    Charge: 0




    click to see details on this item    [m] + frdpName: Farnesyl diphosphate
    Formula: C15H25O7P2
    Charge: -3




    click to see details on this item    [c]
    hemeoName: heme O
    Formula: C49H56FeN4O5
    Charge: 0




    click to see details on this item    [m] + ppiName: Diphosphate
    Formula: HO7P2
    Charge: -3




    click to see details on this item    [m]
    cox-10
    Iron metabolism
    DGR0006Name: Bacterial soluble pool composition
    Type: Degradation
    Location: Extracellular
    KEGG ID: NA

    click to see details on this item
    Not applicable
    [e] : soluble_BACName: Soluble pool in bacterial diet
    Formula: X
    Charge: 0




    click to see details on this item
    (0.00625) mobdName: Molybdate
    Formula: MoO4
    Charge: -2




    click to see details on this item     + (0.0002) q8Name: Ubiquinone-8
    Formula: C49H74O4
    Charge: 0




    click to see details on this item     + (0.0002) thmName: Thiamin
    Formula: C12H17N4OS
    Charge: 1




    click to see details on this item     + (0.000903) thmppName: Thiamine diphosphate
    Formula: C12H16N4O7P2S
    Charge: -2




    click to see details on this item     + (0.0002) adocblName: Adenosylcobalamin
    Formula: C72H100CoN18O17P
    Charge: 0




    click to see details on this item     + (0.0002) selcysName: Selenocysteine
    Formula: C3H7NO2Se
    Charge: 0




    click to see details on this item     + (0.0002) cbl1Name: Cob(I)alamin
    Formula: C62H88CoN13O14P
    Charge: -1




    click to see details on this item     + (0.000443) ribflvName: Riboflavin
    Formula: C17H20N4O6
    Charge: 0




    click to see details on this item     + (0.0002) phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item     + (0.0002) pydxnName: Pyridoxine
    Formula: C8H11NO3
    Charge: 0




    click to see details on this item     + (0.000893) fe2Name: Fe2+
    Formula: Fe
    Charge: 2




    click to see details on this item     + (0.0002) pydamName: Pyridoxamine
    Formula: C8H13N2O2
    Charge: 1




    click to see details on this item     + (0.001172) fmnName: FMN
    Formula: C17H19N4O9P
    Charge: -2




    click to see details on this item     + (0.0002) folName: Folate
    Formula: C19H18N7O6
    Charge: -1




    click to see details on this item     + (0.004018) acornName: N2-Acetyl-L-ornithine
    Formula: C7H14N2O3
    Charge: 0




    click to see details on this item     + (0.0002) pnto-RName: (R)-Pantothenate
    Formula: C9H16NO5
    Charge: -1




    click to see details on this item     + (0.002774) fadName: Flavin adenine dinucleotide oxidized
    Formula: C27H31N9O15P2
    Charge: -2




    click to see details on this item     + (0.0002) pydxName: Pyridoxal
    Formula: C8H9NO3
    Charge: 0




    click to see details on this item     + (0.0002) tmaName: trimethylamine
    Formula: C3H10N
    Charge: 1




    click to see details on this item     + (0.0002) acserName: O-Acetyl-L-serine
    Formula: C5H9NO4
    Charge: 0




    click to see details on this item
    Not applicable
    Bacterial digestion
    TCE5006Name: heme transport into intestine
    Type: Transport
    Location: Cytosol, Extracellular
    KEGG ID: NA

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    Not applicable
    phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [e]
    phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [c]
    hrg-1 | hrg-4
    Transport
    TCE5403Name: Protoheme active transport
    Type: Transport
    Location: Extracellular, Cytosol
    KEGG ID: NA

    click to see details on this item
    Not applicable
    atpName: ATP
    Formula: C10H12N5O13P3
    Charge: -4




    click to see details on this item    [c] + h2oName: H2O
    Formula: H2O
    Charge: 0




    click to see details on this item    [c] + phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [c]
    adpName: ADP
    Formula: C10H12N5O10P2
    Charge: -3




    click to see details on this item    [c] + hName: H+
    Formula: H
    Charge: 1




    click to see details on this item    [c] + phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [e] + piName: Phosphate
    Formula: HO4P
    Charge: -2




    click to see details on this item    [c]
    Not determined
    Transport
    TCM0176Name: Protoheme transport
    Type: Transport
    Location: Mitochondria, Cytosol
    KEGG ID: NA

    click to see details on this item
    Not applicable
    phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [m]
    phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [c]
    Not determined
    Transport
    EX00032Name: Protoheme exchange
    Type: Exchange
    Location: Extracellular
    KEGG ID: NA

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    Not applicable
    phemeName: Protoheme
    Formula: C34H30FeN4O4
    Charge: 0




    click to see details on this item    [e]
    Not applicable
    Exchange with the environment
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