(48 nodes) Glyoxylate and dicarboxylate metabolism network (Bacillus licheniformis)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

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Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

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experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

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Your Input:
	yogA	Alcohol dehydrogenase YogA. (330 aa)
	yraH	Glyoxalase I. (122 aa)
	mdh	Malate dehydrogenase; Catalyzes the reversible oxidation of malate to oxaloacetate. Belongs to the LDH/MDH superfamily. MDH type 3 family. (312 aa)
	citZ	Citrate synthase II; Belongs to the citrate synthase family. (372 aa)
	acsA	acetyl-CoA synthetase. (572 aa)
	ytcI	AMP-dependent synthetase and ligase YtcI. (529 aa)
	mmgD	Citrate synthase III; Belongs to the citrate synthase family. (371 aa)
	oxdC	Oxalate decarboxylase. (384 aa)
	BL00875	Phage related protein. (193 aa)
	katX	Major catalase in spores; Belongs to the catalase family. (532 aa)
	katA	Vegetative catalase 1; Belongs to the catalase family. (485 aa)
	yqjD	Carboxyl transferase YqjD. (509 aa)
	bfmBC	Branched-chain alpha-keto acid dehydrogenase E3 subunit (dihydrolipoamide dehydrogenase). (473 aa)
	gcvPB	Glycine decarboxylase (subunit 2) (glycine cleavage system protein P); The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO(2) is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein; Belongs to the GcvP family. C-terminal subunit subfamily. (485 aa)
	gcvPA	Glycine decarboxylase (subunit 1) (glycine cleavage system protein P); The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO(2) is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein. (448 aa)
	gcvT	Aminomethyltransferase (glycine cleavage system protein T); The glycine cleavage system catalyzes the degradation of glycine. (364 aa)
	BL01574	Conserved protein YqgZ; Belongs to the ArsC family. (125 aa)
	pdhD	Dihydrolipoamide dehydrogenase E3 subunit of both pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase complexes. (470 aa)
	ysfD	4Fe-4S ferredoxin, iron-sulfur binding domain; glcF in Bacillus thuringiensis. (440 aa)
	ysfC	Glycolate oxidase subunit GlcD. (470 aa)
	yngE	Carboxyl transferase. (509 aa)
	BL01993	acetyl-CoA synthetase. (650 aa)
	BL02015	Hypothetical protein. (260 aa)
	yrhE	Formate dehydrogenase, alpha subunit YrhE. (979 aa)
	BL02138	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain. (320 aa)
	gcvH	Glycine cleavage system protein H; The glycine cleavage system catalyzes the degradation of glycine. The H protein shuttles the methylamine group of glycine from the P protein to the T protein; Belongs to the GcvH family. (127 aa)
	yusI	Conserved hypothetical protein YusI; Belongs to the ArsC family. (118 aa)
	glxK	Glycerate kinase GlxK; Belongs to the glycerate kinase type-1 family. (376 aa)
	kdgA	2-keto-3-deoxygluconate-6-phosphate aldolase. (204 aa)
	BL02644	Malate synthase A; Belongs to the malate synthase family. (529 aa)
	BL02646	Isocitrate lyase. (423 aa)
	endoAI	Transcriptional inhibitor endoAI. (93 aa)
	citA	Citrate synthase I; Belongs to the citrate synthase family. (363 aa)
	citB	Aconitate hydratase (aconitase); Catalyzes the isomerization of citrate to isocitrate via cis- aconitate. (908 aa)
	ylbC	Conserved hypothetical protein YlbC; Cellular Component: extracellular. (347 aa)
	acoL	Acetoin dehydrogenase E3 component (dihydrolipoamide dehydrogenase). (458 aa)
	glnA	Glutamine synthetase. (444 aa)
	spx	Glutaredoxin family protein Spx; Interferes with activator-stimulated transcription by interaction with the RNA polymerase alpha-CTD. May function to globally reduce transcription of genes involved in growth- and development- promoting processes and to increase transcription of genes involved in thiol homeostasis, during periods of extreme stress. Belongs to the ArsC family. Spx subfamily. (131 aa)
	ycsA	Isocitrate/isopropylmalate dehydrogenase. (352 aa)
	BL03510	Putative phagelike major tail protein. (205 aa)
	yvcT	Probable 2-ketogluconate reductase YvcT; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family. (323 aa)
	ykwD	Allergen V5/Tpx-1 related. (240 aa)
	yjgC	Iron-sulfur binding domain containing protein. (985 aa)
	purU	Formyltetrahydrofolate deformylase; Catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to formate and tetrahydrofolate (FH4). (300 aa)
	ykfA	Conserved hypothetical protein. (307 aa)
	BL03850	2-keto-3-deoxygluconate-6-phosphate aldolase. (208 aa)
	mmgA	acetyl-CoA acetyltransferase; Belongs to the thiolase-like superfamily. Thiolase family. (392 aa)
	glyA	Serine hydroxymethyltransferase; Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism. (415 aa)

Your Current Organism:

Bacillus licheniformis

NCBI taxonomy Id: 279010
Other names: B. licheniformis DSM 13 = ATCC 14580, Bacillus licheniformis ATCC 14580, Bacillus licheniformis ATCC 14580 = DSM 13, Bacillus licheniformis DSM 13, Bacillus licheniformis DSM 13 = ATCC 14580

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
BL01993	BL02644	BL01993	BL02644	acetyl-CoA synthetase.	Malate synthase A; Belongs to the malate synthase family.	0.824
BL01993	BL02646	BL01993	BL02646	acetyl-CoA synthetase.	Isocitrate lyase.	0.541
BL01993	acsA	BL01993	BL00440	acetyl-CoA synthetase.	acetyl-CoA synthetase.	0.634
BL01993	citA	BL01993	BL02891	acetyl-CoA synthetase.	Citrate synthase I; Belongs to the citrate synthase family.	0.803
BL01993	citZ	BL01993	BL00399	acetyl-CoA synthetase.	Citrate synthase II; Belongs to the citrate synthase family.	0.816
BL01993	mmgA	BL01993	BL03925	acetyl-CoA synthetase.	acetyl-CoA acetyltransferase; Belongs to the thiolase-like superfamily. Thiolase family.	0.730
BL01993	mmgD	BL01993	BL00561	acetyl-CoA synthetase.	Citrate synthase III; Belongs to the citrate synthase family.	0.816
BL01993	yngE	BL01993	BL01992	acetyl-CoA synthetase.	Carboxyl transferase.	0.858
BL01993	yqjD	BL01993	BL01386	acetyl-CoA synthetase.	Carboxyl transferase YqjD.	0.576
BL01993	ytcI	BL01993	BL00550	acetyl-CoA synthetase.	AMP-dependent synthetase and ligase YtcI.	0.655
BL02015	BL02138	BL02015	BL02138	Hypothetical protein.	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	0.469
BL02015	BL02644	BL02015	BL02644	Hypothetical protein.	Malate synthase A; Belongs to the malate synthase family.	0.548
BL02015	oxdC	BL02015	BL00821	Hypothetical protein.	Oxalate decarboxylase.	0.658
BL02015	yvcT	BL02015	BL03603	Hypothetical protein.	Probable 2-ketogluconate reductase YvcT; Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.469
BL02138	BL02015	BL02138	BL02015	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	Hypothetical protein.	0.469
BL02138	BL02644	BL02138	BL02644	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	Malate synthase A; Belongs to the malate synthase family.	0.560
BL02138	BL02646	BL02138	BL02646	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	Isocitrate lyase.	0.521
BL02138	BL03850	BL02138	BL03850	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	2-keto-3-deoxygluconate-6-phosphate aldolase.	0.481
BL02138	glxK	BL02138	BL02363	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	Glycerate kinase GlxK; Belongs to the glycerate kinase type-1 family.	0.527
BL02138	glyA	BL02138	BL03991	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain,D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.	Serine hydroxymethyltransferase; Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism.	0.506

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