Biological process to genes

Query process ID GO:0015995
Process name The chemical reactions and pathways resulting in the formation of chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment, from less complex precursors.
Organism Arabidopsis thaliana

Click Gene ID to show a list of co-expressed genes.

ECC Gene ID Repr. ID Gene name Functional description O.I. H.G. Other DB
XAt1g10670837610ACLA-1One of the three genes encoding subunit A of the trimeric protein ATP Citrate Lyase. Antisense ACLA-1 plants cause a reduction in cytosolic acetyl-CoA metabolism and have upregulation of stress-related genes and down-regulation of primary metabolism and growth genes, suggesting the mutation restricts normal growth and developmental processes and puts the plant into a state of stress.O.I.H.G.
XAt1g44446841029CH1 (CHLORINA 1)Encodes chlorophyllide a oxygenase which converts chlorophyllide a to chlorophyllide b by catalyzing two successive hydroxylations at the 7-methyl group of chlorophyllide a . Mutants are deficient in pigments that associate with thylakoid membrane proteins, lacking chlorophyll b and light-harvesting proteins of photosystem II. The protein was shown through cross-linking experiments to interact with Toc75, Toc34, Tic40, Tic20 and Tic22.O.I.H.G.
XAt1g58290842198HEMA1Encodes a protein with glutamyl-tRNA reductase (GluTR) activity, catalyzing the NADPH-dependent reduction of Glu-tRNA(Glu) to glutamate 1-semialdehyde (GSA) with the release of free tRNA(Glu). It is involved in the early steps of chlorophyll biosynthesis.O.I.H.G.
XAt1g63970842700ISPFEncodes a protein with 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity. The protein's activity was confirmed by heterologous expression of phenotypic complementation of the E. coli ispF mutant. Plants defective in this gene display an albino lethal phenotype.Homolog of E. coli IspFO.I.H.G.
XAt1g74470843788geranylgeranyl reductaseEncodes for a multifunctional protein with geranylgeranyl reductase activity shown to catalyze the reduction of prenylated geranylgeranyl-chlorophyll a to phytyl-chlorophyll a (chlorophyll a) and free geranylgeranyl pyrophosphate to phytyl pyrophosphate.O.I.H.G.
XAt1g78600844196LZF1 (LIGHT-REGULATED ZINC FINGER PROTEIN 1)F:transcription factor activity, zinc ion binding;P:chlorophyll biosynthetic process, chloroplast organization, anthocyanin biosynthetic process, regulation of photomorphogenesis, regulation of transcription;C:nuclear speck;POMO.I.H.G.
XAt2g20180816538PIL5 (PHYTOCHROME INTERACTING FACTOR 3-LIKE 5)Encodes a novel Myc-related bHLH transcription factor that has transcriptional activation activity in the dark. It is a key negative regulator of phytochrome-mediated seed germination and acts by inhibiting chlorophyll biosynthesis, light-mediated suppression of hypocotyl elongation and far-red light-mediated suppression of seed germination, and promoting negative gravitropism in hypocotyls. Light reduces this activity in a phy-dependent manner. The protein preferentially interacts with the Pfr forms of Phytochrome A (PhyA) and Phytochrome B (PhyB), is physically associated with APRR1/TOC1 and is degraded in red (R) and far-red (FR) light through the ubiquitin (ub)-26S proteasome pathway to optimize photomorphogenic development in Arabidopsis. It also negatively regulates GA3 oxidase expression.O.I.H.G.
XAt3g03710821181RIF10 (resistant to inhibition with FSM 10)Mutants impaired in the expression of this gene have been selected through their resistance to fosmidomycin, a strong inhibitor of DXR, an enzyme of the methylerythritol-dependent IPP biosynthesis pathway. The pathway enzymes were upregulated in the mutant seedlings.O.I.H.G.
XAt3g14110820628FLU (FLUORESCENT IN BLUE LIGHT)Encodes a novel coiled-coil, TPR domain containing protein that is localized to the chloroplast membrane and is involved in chlorophyll biosynthesis. Mutants accumulate protochlorophyllide, an intermediate in the chlorophyll biosynthesis pathway, in dark and release singlet oxygen in plastids in a controlled and non-invasive manner upon a dark/light shift.O.I.H.G.
XAt4g15560827230CLA1 (CLOROPLASTOS ALTERADOS 1)Encodes a protein with 1-deoxyxylulose 5-phosphate synthase activity involved in the MEP pathway. It is essential for chloroplast development in ArabidopsisO.I.H.G.
XAt4g25080828611CHLM (magnesium-protoporphyrin IX methyltransferase)Encodes a protein with methyltransferase activity responsible for the methylation of magnesium protoporphyrin IX. Mutants defective in this gene are affected in chlorophyll biosynthesis and show a reduction in the accumulation of a number of major thylakoid-associated proteins including components of PSI (LHCI), PSII (LHCII, D1, CP43) and the cytochrome b6f complex (Cytf). By contrast, no significant changes were detected for the proteins of the stroma and the chloroplast envelope.O.I.H.G.
XAt4g27430828851CIP7 (COP1-INTERACTING PROTEIN 7)Positive regulator of light-regulated genes. Novel nuclear protein which requires light for its high level expression.O.I.H.G.
XAt5g18660831984PCB2 (PALE-GREEN AND CHLOROPHYLL B REDUCED 2)Encodes a protein with 3,8-divinyl protochlorophyllide a 8-vinyl reductase activity. Mutants accumulate divinyl chlorophyll rather than monovinyl chlorophyll.O.I.H.G.
XAt5g45930834633CHLI2 (MAGNESIUM CHELATASE I2)encodes a second Chl I gene (CHLI2), a subunit of magnesium chelatase which is required for chlorophyll biosynthesis. Has ATPase activity, regulated by TRX-f. Involved in the assembly of the Mg chelatase complex.O.I.H.G.
SAt1g03630839009POR C (PROTOCHLOROPHYLLIDE OXIDOREDUCTASE)Encodes for a protein with protochlorophyllide oxidoreductase activity. The enzyme is NADPH- and light-dependent.O.I.H.G.
SAt1g08520837374CHLDF:magnesium chelatase activity, nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:chlorophyll biosynthetic process;C:magnesium chelatase complex, chloroplast;MOBFPVAO.I.H.G.
SAt3g02780820960IPP2 (ISOPENTENYL PYROPHOSPHATE:DIMETHYLALLYL PYROPHOSPHATE ISOMERASE 2)Encodes a protein with isopentenyl diphosphate:dimethylallyl diphosphate isomerase activity. There is genetic evidence that it functions in the mevalonate, but not the MEP biosynthetic pathway.O.I.H.G.
SAt3g51820824345G4Encodes a protein with chlorophyll synthase activity. This enzyme has been shown to perform the esterification of chlorophyllide (a and b), the last step of chlorophyll biosynthesis. Although it can use either geranylgeranyl pyrophosphate (GGPP) or phytyl pyrophosphate (PhyPP) as substrates, the esterification reaction was faster with GGPP than with PhyPP.O.I.H.G.
SAt3g59400825109GUN4GUN, genomes uncoupled, is necessary for coupling the expression of some nuclear genes to the functional state of the chloroplast. Binds to the magnesium chelatase complex and promotes formation of the substrate,a tetrapyrrole signaling molecule. Porphyrin-binding protein that enhances the activity of Mg-chelatase. Although required for chlorophyll accumulation under normal growth conditions, GUN4 is not essential for chlorophyll synthesis.O.I.H.G.
SAt4g18480827580CHLI1Encodes the CHLI subunit of magnesium chelatase which is required for chlorophyll biosynthesis. All four cysteine residues of the protein form two disulfide bonds (Cys102-Cys193 and Cys354-Cys396) under oxidized conditions but are fully reduced by reduction. It was suggested that the redox state of CHLI is regulated in vivo by the change of the redox environment in the chloroplasts probably via the Trx system.O.I.H.G.
SAt4g27440828853PORB (PROTOCHLOROPHYLLIDE OXIDOREDUCTASE B)light-dependent NADPH:protochlorophyllide oxidoreductase BO.I.H.G.
SAt5g08280830724HEMC (HYDROXYMETHYLBILANE SYNTHASE)Encodes a protein with porphobilinogen deaminase activity. This protein is targeted to the chloroplast.O.I.H.G.
SAt5g16440831505IPP1 (ISOPENTENYL DIPHOSPHATE ISOMERASE 1)Encodes a protein with isopentenyl diphosphate:dimethylallyl diphosphate isomerase activity. There is genetic evidence that it functions in the mevalonate, but not the MEP biosynthetic pathway.O.I.H.G.
SAt5g54190835507PORAlight-dependent NADPH:protochlorophyllide oxidoreductase AO.I.H.G.
LAt3g56940824861CRD1 (COPPER RESPONSE DEFECT 1)Encodes a putative ZIP protein with varying mRNA accumulation in leaves, stems and roots. Has a consensus carboxylate-bridged di-iron binding site.O.I.H.G.
LAt5g13630831207GUN5 (GENOMES UNCOUPLED 5)Encodes magnesium chelatase involved in plastid-to-nucleus signal transduction.O.I.H.G.



The upper GO terms

Process ID Gene number Process name
GO:000677916The chemical reactions and pathways resulting in the formation of any member of a large group of derivatives or analogs of porphyrin. Porphyrin consists of a ring of four pyrrole nuclei linked each to the next at their alpha positions through a methine group.
GO:00159944The chemical reactions and pathways involving chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment.
GO:00461480The chemical reactions and pathways resulting in the formation of a pigment, any general or particular coloring matter in living organisms, e.g. melanin.



The lower GO terms

Process ID Gene number Process name
GO:00304940The chemical reactions and pathways resulting in the formation of a bacteriochlorophyll, any of the chlorophylls of photosynthetic bacteria. They differ structurally from the chlorophylls of higher plants.
GO:00333050The chemical reactions and pathways leading to the formation of chlorophyll a.





Comparison with co-expressed genes



Back to the CoP portal site

Back to the KAGIANA project homepage