Table 4 Comparison of functional predictions in eNet and AraNet for 10 of the protein families.

YgfZ

Folate-dependent protein for Fe/S cluster synthesis/repair in oxidative stress

Annotation based on[94]: Predicted folate-dependent regulatory protein. Prediction: Energy production and conversion, ion transport

For At4g12130: NAD biosynthesis (2.96), electron transport, cellular respiration, N-terminal protein amino acid modification, miRNA-mediated gene silencing, production of miRNAs, methylglyoxal catabolic process to D-lactate, embryonic development, etc

none

Alternative to 5-FCL (EC 6.3.3.2) as a way to metabolize 5-formyltetrahydrofolate

n/a

Response to wounding (1.86), defense response, response to oxidative stress, phenylpropanoid biosynthesis, response to other organism, boron transport, glucosinolate biosynthesis (0.89)

none

Pterin-4-alpha-carbinolamine dehydratase (EC 4.2.1.96) with a role in Moco metabolism

n/a

For At1g29810: electron transport (3.13); carotenoid biosynthesis (2.29); brassinosteroid biosynthesis (2.16); fatty acid metabolic process (2.06); photosynthesis, light reaction (1.99); sulfate assimilation (1.98); lignin biosynthesis (1.87)

YafV

Omega amidase in methionine salvage pathway

Predicted C-N hydrolase family amidase, NAD(P)-binding

indoleacetic acid biosynthesis (4.27), cellular response to sulfate starvation, cyanide metabolic process, glucosinolate catabolic process, detoxification of nitrogen compound, methylglyoxal catabolic process to D-lactate (1.59)

YrdC

Required for threonylcarbamoyladenosine (t(6)A) formation in tRNA

Annotation based on[57]: Predicted ribosome maturation factor. NO prediction

rRNA processing (3.88), dATP biosynthesis from ADP, histidine biosynthesis, mitochondrial ATP synthesis coupled proton transport, cellular respiration, ATP synthesis coupled proton transport, regulation of transcription (2.07)

YgjD

Required for threonylcarbamoyladenosine (t(6)A) formation in tRNA

Prediction: Predicted peptidase (Amino acid transport and metabolism)

For At2g45270: transcription initiation (6.19), positive regulation of transcription, chlorophyll biosynthesis, porphyrin biosynthesis, phospholipid biosynthesis, electron transport, ATP-dependent proteolysis, N-terminal protein amino acid modification (1.81)

YjiA YeiR

Metal chaperone-Zinc homeostasis

Prediction for b4352: Inorganic ion transport and metabolism, response to stress; Prediction for b2173: Lipid transport and metabolism, RNA related, Regulation of transcription DNA dependent

For At1g15730: nitrogen compound metabolic process (4.04); positive regulation of metalloenzyme activity (4.04)

none

Not a 5-FCL enzyme; involved in thiamine salvage

n/a

Tetrahydrofolate metabolic process (4.56), negative regulation of transcription, response to abscisic acid stimulus (0.89)

none

D-2-hydroxyglutarate dehydrogenase

n/a

Cytoskeleton organization and biogenesis (2.39), actin cytoskeleton organization and biogenesis, ubiquitin-dependent protein catabolic process, response to light stimulus, response to wounding, seed germination (1.24)

yraL

Tetrapyrrole family methyltransferase involved in a process common to eubacteria, chloroplasts, and possibly mitochondria

Prediction: Replication, recombination and repair; RNA related, Translation

Toxin catabolic process (5.49), response to oxidative stress, cellular response to water deprivation, response to jasmonic acid stimulus, response to ozone, isoprenoid biosynthesis, electron transport (1.45)