3UFX | pdb_00003ufx

Thermus aquaticus succinyl-CoA synthetase in complex with GDP-Mn2+

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3ufxa1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
A	d3ufxa2	Alpha and beta proteins (a/b)	Flavodoxin-like	Succinyl-CoA synthetase domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
C [auth D]	d3ufxd1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
C [auth D]	d3ufxd2	Alpha and beta proteins (a/b)	Flavodoxin-like	Succinyl-CoA synthetase domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
G [auth H]	d3ufxh1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
G [auth H]	d3ufxh2	Alpha and beta proteins (a/b)	Flavodoxin-like	Succinyl-CoA synthetase domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
E [auth F]	d3ufxf1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
E [auth F]	d3ufxf2	Alpha and beta proteins (a/b)	Flavodoxin-like	Succinyl-CoA synthetase domains	automated matches	automated matches	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8057673	3000003	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8057671	3000049	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8057673	3000003	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8057671	3000049	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8057673	3000003	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8057671	3000049	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8057671	3000049	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8057673	3000003	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H [auth I]	ATP-grasp_2	e3ufxI1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: ATP-grasp	F: ATP-grasp_2	ECOD (1.6)
H [auth I]	Citrate_bind	e3ufxI2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Citrate_bind	ECOD (1.6)
F [auth G]	ATP-grasp_2	e3ufxG1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: ATP-grasp	F: ATP-grasp_2	ECOD (1.6)
F [auth G]	Citrate_bind	e3ufxG2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Citrate_bind	ECOD (1.6)
D [auth E]	ATP-grasp_2	e3ufxE1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: ATP-grasp	F: ATP-grasp_2	ECOD (1.6)
D [auth E]	Citrate_bind	e3ufxE2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Citrate_bind	ECOD (1.6)
B	ATP-grasp_2	e3ufxB1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: ATP-grasp	F: ATP-grasp_2	ECOD (1.6)
B	Citrate_bind	e3ufxB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Citrate_bind	ECOD (1.6)
A	CoA_binding	e3ufxA1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: CoA_binding	ECOD (1.6)
A	Succ_CoA_lig	e3ufxA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Succ_CoA_lig	ECOD (1.6)
C [auth D]	CoA_binding	e3ufxD1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: CoA_binding	ECOD (1.6)
C [auth D]	Succ_CoA_lig	e3ufxD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Succ_CoA_lig	ECOD (1.6)
G [auth H]	CoA_binding	e3ufxH1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: CoA_binding	ECOD (1.6)
G [auth H]	Succ_CoA_lig	e3ufxH2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Succ_CoA_lig	ECOD (1.6)
E [auth F]	CoA_binding	e3ufxF1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: CoA_binding	ECOD (1.6)
E [auth F]	Succ_CoA_lig	e3ufxF2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: Succ_CoA_lig	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth I]	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.2.0)
H [auth I]	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.2.0)
H [auth I]	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
F [auth G]	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.2.0)
F [auth G]	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.2.0)
F [auth G]	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
D [auth E]	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.2.0)
D [auth E]	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.2.0)
D [auth E]	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
B	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.2.0)
B	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.2.0)
B	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.2.0)
A	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
C [auth D]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.2.0)
C [auth D]	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
G [auth H]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.2.0)
G [auth H]	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)
E [auth F]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.2.0)
E [auth F]	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.2.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D [auth E], F [auth G], H [auth I]	Succinyl-CoA synthetase beta subunit	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding succinate-CoA ligase (ADP-forming) activity succinate-CoA ligase activity ligase activity, forming carbon-sulfur bonds catalytic activity acid-thiol ligase activity ligase activity guanyl nucleotide binding GTP binding guanyl ribonucleotide binding succinate-CoA ligase (GDP-forming) activity	aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy nucleoside phosphate metabolic process purine-containing compound metabolic process nucleobase-containing compound metabolic process acyl-CoA metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy nucleoside phosphate metabolic process purine-containing compound metabolic process nucleobase-containing compound metabolic process acyl-CoA metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process sulfur compound metabolic process small molecule metabolic process succinyl-CoA metabolic process amide metabolic process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex tricarboxylic acid cycle heteromeric enzyme complex succinate-CoA ligase complex
A, C [auth D], E [auth F], G [auth H]	succinyl-CoA synthetase alpha subunit	succinate-CoA ligase (ADP-forming) activity succinate-CoA ligase activity ligase activity, forming carbon-sulfur bonds catalytic activity acid-thiol ligase activity ligase activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding succinate-CoA ligase (GDP-forming) activity	aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy	succinate-CoA ligase complex (ADP-forming) protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex tricarboxylic acid cycle heteromeric enzyme complex cytoplasm succinate-CoA ligase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D [auth E], F [auth G], H [auth I]	IPR011761	ATP-grasp fold	Domain
B, D [auth E], F [auth G], H [auth I]	IPR013815	ATP-grasp fold, subdomain 1	Homologous Superfamily
B, D [auth E], F [auth G], H [auth I]	IPR016102	Succinyl-CoA synthetase-like	Homologous Superfamily
B, D [auth E], F [auth G], H [auth I]	IPR013650	ATP-grasp fold, succinyl-CoA synthetase-type	Domain
B, D [auth E], F [auth G], H [auth I]	IPR017866	Succinyl-CoA synthetase, beta subunit, conserved site	Conserved Site
B, D [auth E], F [auth G], H [auth I]	IPR005811	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Domain
B, D [auth E], F [auth G], H [auth I]	IPR005809	Succinate--CoA ligase-like, beta subunit	Family
A, C [auth D], E [auth F], G [auth H]	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, C [auth D], E [auth F], G [auth H]	IPR005810	Succinyl-CoA ligase, alpha subunit	Family
A, C [auth D], E [auth F], G [auth H]	IPR005811	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Domain
A, C [auth D], E [auth F], G [auth H]	IPR016102	Succinyl-CoA synthetase-like	Homologous Superfamily
A, C [auth D], E [auth F], G [auth H]	IPR017440	ATP-citrate lyase/succinyl-CoA ligase, active site	Active Site
A, C [auth D], E [auth F], G [auth H]	IPR033847	ATP-citrate lyase/succinyl-CoA ligase, conserved site	Conserved Site
A, C [auth D], E [auth F], G [auth H]	IPR003781	CoA-binding	Domain