(12 nodes) ATP-grasp fold, subdomain 1 network (Paracoccus denitrificans)

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	Pden_0323	PFAM: biotin/lipoyl attachment domain-containing protein; phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain domain protein; biotin carboxylase domain protein; KEGG: atc:AGR_L_1864 biotin carboxylase protein A2. (588 aa)
	Pden_0541	Pyruvate phosphate dikinase; PFAM: PEP-utilizing enzyme; PEP-utilising enzyme, mobile region; KEGG: rsp:RSP_1859 pyruvate phosphate dikinase. (853 aa)
	sucC	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit. (397 aa)
	ddl	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family. (301 aa)
	Pden_1271	acetyl-CoA carboxylase carboxyltransferase subunit alpha; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA. (450 aa)
	carB	TIGRFAM: carbamoyl-phosphate synthase, large subunit; PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain, oligomerisation; Carbamoyl-phosphate synthetase large chain domain protein; MGS domain protein; KEGG: rsp:RSP_0818 carbamoyl-phosphate synthase large subunit; Belongs to the CarB family. (1110 aa)
	purK	5-(carboxyamino)imidazole ribonucleotide synthase; Catalyzes the ATP-dependent conversion of 5-aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5-carboxyaminoimidazole ribonucleotide (N5-CAIR). (347 aa)
	ddl-2	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family. (301 aa)
	Pden_3552	PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; KEGG: bce:BC5272 carbamoyl-phosphate synthase small chain. (373 aa)
	gshB	KEGG: rsp:RSP_1815 glutathione synthetase; TIGRFAM: glutathione synthetase; PFAM: glutathione synthetase domain protein; glutathione synthetase, ATP-binding; RimK domain protein ATP-grasp; Belongs to the prokaryotic GSH synthase family. (316 aa)
	purD	KEGG: rsp:RSP_1847 phosphoribosylamine--glycine ligase; TIGRFAM: phosphoribosylamine--glycine ligase; PFAM: phosphoribosylglycinamide synthetase; Belongs to the GARS family. (420 aa)
	ddl-3	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family. (311 aa)

Your Current Organism:

Paracoccus denitrificans

NCBI taxonomy Id: 318586
Other names: P. denitrificans PD1222, Paracoccus denitrificans PD1222

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
Pden_0323	Pden_1271	Pden_0323	Pden_1271	PFAM: biotin/lipoyl attachment domain-containing protein; phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain domain protein; biotin carboxylase domain protein; KEGG: atc:AGR_L_1864 biotin carboxylase protein A2.	acetyl-CoA carboxylase carboxyltransferase subunit alpha; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	0.925
Pden_0323	sucC	Pden_0323	Pden_0559	PFAM: biotin/lipoyl attachment domain-containing protein; phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain domain protein; biotin carboxylase domain protein; KEGG: atc:AGR_L_1864 biotin carboxylase protein A2.	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	0.840
Pden_0541	sucC	Pden_0541	Pden_0559	Pyruvate phosphate dikinase; PFAM: PEP-utilizing enzyme; PEP-utilising enzyme, mobile region; KEGG: rsp:RSP_1859 pyruvate phosphate dikinase.	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	0.494
Pden_1271	Pden_0323	Pden_1271	Pden_0323	acetyl-CoA carboxylase carboxyltransferase subunit alpha; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	PFAM: biotin/lipoyl attachment domain-containing protein; phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain domain protein; biotin carboxylase domain protein; KEGG: atc:AGR_L_1864 biotin carboxylase protein A2.	0.925
Pden_1271	sucC	Pden_1271	Pden_0559	acetyl-CoA carboxylase carboxyltransferase subunit alpha; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	0.852
Pden_3552	purK	Pden_3552	Pden_2201	PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; KEGG: bce:BC5272 carbamoyl-phosphate synthase small chain.	5-(carboxyamino)imidazole ribonucleotide synthase; Catalyzes the ATP-dependent conversion of 5-aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5-carboxyaminoimidazole ribonucleotide (N5-CAIR).	0.827
carB	purD	Pden_1879	Pden_4029	TIGRFAM: carbamoyl-phosphate synthase, large subunit; PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain, oligomerisation; Carbamoyl-phosphate synthetase large chain domain protein; MGS domain protein; KEGG: rsp:RSP_0818 carbamoyl-phosphate synthase large subunit; Belongs to the CarB family.	KEGG: rsp:RSP_1847 phosphoribosylamine--glycine ligase; TIGRFAM: phosphoribosylamine--glycine ligase; PFAM: phosphoribosylglycinamide synthetase; Belongs to the GARS family.	0.621
carB	sucC	Pden_1879	Pden_0559	TIGRFAM: carbamoyl-phosphate synthase, large subunit; PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain, oligomerisation; Carbamoyl-phosphate synthetase large chain domain protein; MGS domain protein; KEGG: rsp:RSP_0818 carbamoyl-phosphate synthase large subunit; Belongs to the CarB family.	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	0.448
ddl	ddl-2	Pden_1204	Pden_2406	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	0.900
ddl	ddl-3	Pden_1204	Pden_4490	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	0.904
ddl-2	ddl	Pden_2406	Pden_1204	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	0.900
ddl-2	ddl-3	Pden_2406	Pden_4490	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	0.904
ddl-3	ddl	Pden_4490	Pden_1204	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	0.904
ddl-3	ddl-2	Pden_4490	Pden_2406	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	D-alanine--D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family.	0.904
purD	carB	Pden_4029	Pden_1879	KEGG: rsp:RSP_1847 phosphoribosylamine--glycine ligase; TIGRFAM: phosphoribosylamine--glycine ligase; PFAM: phosphoribosylglycinamide synthetase; Belongs to the GARS family.	TIGRFAM: carbamoyl-phosphate synthase, large subunit; PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain, oligomerisation; Carbamoyl-phosphate synthetase large chain domain protein; MGS domain protein; KEGG: rsp:RSP_0818 carbamoyl-phosphate synthase large subunit; Belongs to the CarB family.	0.621
purD	purK	Pden_4029	Pden_2201	KEGG: rsp:RSP_1847 phosphoribosylamine--glycine ligase; TIGRFAM: phosphoribosylamine--glycine ligase; PFAM: phosphoribosylglycinamide synthetase; Belongs to the GARS family.	5-(carboxyamino)imidazole ribonucleotide synthase; Catalyzes the ATP-dependent conversion of 5-aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5-carboxyaminoimidazole ribonucleotide (N5-CAIR).	0.950
purK	Pden_3552	Pden_2201	Pden_3552	5-(carboxyamino)imidazole ribonucleotide synthase; Catalyzes the ATP-dependent conversion of 5-aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5-carboxyaminoimidazole ribonucleotide (N5-CAIR).	PFAM: phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; protein of unknown function DUF201; KEGG: bce:BC5272 carbamoyl-phosphate synthase small chain.	0.827
purK	purD	Pden_2201	Pden_4029	5-(carboxyamino)imidazole ribonucleotide synthase; Catalyzes the ATP-dependent conversion of 5-aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5-carboxyaminoimidazole ribonucleotide (N5-CAIR).	KEGG: rsp:RSP_1847 phosphoribosylamine--glycine ligase; TIGRFAM: phosphoribosylamine--glycine ligase; PFAM: phosphoribosylglycinamide synthetase; Belongs to the GARS family.	0.950
sucC	Pden_0323	Pden_0559	Pden_0323	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	PFAM: biotin/lipoyl attachment domain-containing protein; phosphoribosylglycinamide synthetase; ATP-dependent carboxylate-amine ligase domain protein, ATP-grasp; Carbamoyl-phosphate synthase L chain, ATP-binding; Carbamoyl-phosphate synthetase large chain domain protein; biotin carboxylase domain protein; KEGG: atc:AGR_L_1864 biotin carboxylase protein A2.	0.840
sucC	Pden_0541	Pden_0559	Pden_0541	succinyl-CoA synthetase (ADP-forming) beta subunit; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	Pyruvate phosphate dikinase; PFAM: PEP-utilizing enzyme; PEP-utilising enzyme, mobile region; KEGG: rsp:RSP_1859 pyruvate phosphate dikinase.	0.494