6HXH

Structure of the human ATP citrate lyase holoenzyme in complex with citrate, coenzyme A and Mg.ADP

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	CoA-binding Rossmann-fold domain	8053670	3000049	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053666	3000003	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Succinyl-CoA synthetase domain-like	8053668	3000003	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8053676	3000094	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)
A	PF00285	e6hxhA4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
A	F_UNCLASSIFIED	e6hxhA1	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: F_UNCLASSIFIED	ECOD (1.6)
A	PF02629	e6hxhA5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
A	PF00549	e6hxhA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
A	PF16114	e6hxhA3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
B	PF00285	e6hxhB4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
B	F_UNCLASSIFIED	e6hxhB1	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: F_UNCLASSIFIED	ECOD (1.6)
B	PF02629	e6hxhB5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
B	PF00549	e6hxhB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
B	PF16114	e6hxhB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
C	PF00285	e6hxhC4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
C	F_UNCLASSIFIED	e6hxhC1	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: F_UNCLASSIFIED	ECOD (1.6)
C	PF02629	e6hxhC5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
C	PF00549	e6hxhC2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
C	PF16114	e6hxhC3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
D	PF00285	e6hxhD4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
D	F_UNCLASSIFIED	e6hxhD1	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: F_UNCLASSIFIED	ECOD (1.6)
D	PF02629	e6hxhD5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
D	PF00549	e6hxhD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
D	PF16114	e6hxhD3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
E	PF00285	e6hxhE4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
E	F_UNCLASSIFIED	e6hxhE1	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: F_UNCLASSIFIED	ECOD (1.6)
E	PF02629	e6hxhE5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
E	PF00549	e6hxhE2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
E	PF16114	e6hxhE3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
F	PF00285	e6hxhF4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
F	F_UNCLASSIFIED	e6hxhF1	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: F_UNCLASSIFIED	ECOD (1.6)
F	PF02629	e6hxhF5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
F	PF00549	e6hxhF2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
F	PF16114	e6hxhF3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
G	PF00285	e6hxhG4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
G	F_UNCLASSIFIED	e6hxhG1	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: F_UNCLASSIFIED	ECOD (1.6)
G	PF02629	e6hxhG5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
G	PF00549	e6hxhG2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
G	PF16114	e6hxhG3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)
H	PF00285	e6hxhH4	A: alpha complex topology	X: Citrate synthase-like	H: Citrate synthase (From Topology)	T: Citrate synthase	F: PF00285	ECOD (1.6)
H	F_UNCLASSIFIED	e6hxhH1	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: F_UNCLASSIFIED	ECOD (1.6)
H	PF02629	e6hxhH5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02629	ECOD (1.6)
H	PF00549	e6hxhH2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF00549	ECOD (1.6)
H	PF16114	e6hxhH3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Succinyl-CoA synthetase domains (From Topology)	T: Succinyl-CoA synthetase domains	F: PF16114	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF02629	CoA binding domain (CoA_binding)	CoA binding domain	This domain has a Rossmann fold and is found in a number of proteins including succinyl CoA synthetases, malate and ATP-citrate ligases.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF00549	CoA-ligase (Ligase_CoA)	CoA-ligase	This family includes the CoA ligases Succinyl-CoA synthetase alpha and beta chains, malate CoA ligase and ATP-citrate lyase. Some members of the family utilise ATP others use GTP.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF16114	ATP citrate lyase citrate-binding (Citrate_bind)	ATP citrate lyase citrate-binding	This is the citrate-binding domain of ATP citrate lyase. This domain has a Rossmann fold [1].	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF00285	Citrate synthase, C-terminal domain (Citrate_synt)	Citrate synthase, C-terminal domain	This is the long, C-terminal part of the enzyme.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	ATP-citrate synthase,Human ATP citrate lyase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ATP citrate synthase activity acyltransferase activity acyltransferase activity, acyl groups converted into alkyl on transfer transferase activity catalytic activity cation binding metal ion binding	organic substance metabolic process biosynthetic process organic substance biosynthetic process lipid biosynthetic process primary metabolic process metabolic process lipid metabolic process tricarboxylic acid metabolic process oxoacid metabolic process cellular metabolic process carboxylic acid metabolic process small molecule metabolic process cellular process organic acid metabolic process organic substance metabolic process biosynthetic process organic substance biosynthetic process lipid biosynthetic process primary metabolic process metabolic process lipid metabolic process tricarboxylic acid metabolic process oxoacid metabolic process cellular metabolic process carboxylic acid metabolic process small molecule metabolic process cellular process organic acid metabolic process citrate metabolic process nucleoside bisphosphate metabolic process ribonucleoside bisphosphate biosynthetic process nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process acetyl-CoA metabolic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process phosphate-containing compound metabolic process sulfur compound metabolic process thioester metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process amide biosynthetic process nucleotide metabolic process organic cyclic compound metabolic process sulfur compound biosynthetic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process ribose phosphate metabolic process purine nucleoside bisphosphate metabolic process ribonucleoside bisphosphate metabolic process thioester biosynthetic process cellular biosynthetic process purine nucleotide metabolic process acyl-CoA metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process acyl-CoA biosynthetic process purine nucleoside bisphosphate biosynthetic process amide metabolic process carbohydrate derivative biosynthetic process organonitrogen compound metabolic process nucleoside bisphosphate biosynthetic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process acetyl-CoA biosynthetic process organophosphate metabolic process organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process steroid biosynthetic process secondary alcohol biosynthetic process small molecule biosynthetic process cholesterol biosynthetic process secondary alcohol metabolic process sterol biosynthetic process organic hydroxy compound biosynthetic process alcohol biosynthetic process aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds generation of precursor metabolites and energy fatty acid metabolic process monocarboxylic acid biosynthetic process organic acid biosynthetic process fatty acid biosynthetic process carboxylic acid biosynthetic process cellular lipid metabolic process monocarboxylic acid metabolic process coenzyme A metabolic process dicarboxylic acid metabolic process oxaloacetate metabolic process	membrane cellular anatomical entity extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol membrane cellular anatomical entity extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol lytic vacuole intracellular vesicle membrane-enclosed lumen cytoplasmic vesicle lumen vacuolar lumen endomembrane system intracellular organelle lumen intracellular organelle cytoplasmic vesicle lysosome vesicle lumen azurophil granule vacuole intracellular membrane-bounded organelle secretory granule lumen azurophil granule lumen organelle lumen secretory granule primary lysosome secretory vesicle ficolin-1-rich granule ficolin-1-rich granule lumen nucleus nucleoplasm nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR032263	ATP-citrate synthase, citrate-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR016102	Succinyl-CoA synthetase-like	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR017440	ATP-citrate lyase/succinyl-CoA ligase, active site	Active Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR016143	Citrate synthase-like, small alpha subdomain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR017866	Succinyl-CoA synthetase, beta subunit, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR003781	CoA-binding	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036969	Citrate synthase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR005811	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR014608	ATP-citrate synthase	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR033847	ATP-citrate lyase/succinyl-CoA ligase, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR002020	Citrate synthase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H	Pharos: P53396	obesity disorder congestive heart failure pilocytic astrocytoma Sjogren syndrome astrocytic tumor Heart Decompensation hepatocellular carcinoma lymphoplasmacytic lymphoma osteosarcoma plasma cell myeloma Emery-Dreifuss muscular dystrophy heart failure juvenile dermatomyositis malignant ependymoma myopathy obesity disorder congestive heart failure pilocytic astrocytoma Sjogren syndrome astrocytic tumor Heart Decompensation hepatocellular carcinoma lymphoplasmacytic lymphoma osteosarcoma plasma cell myeloma Emery-Dreifuss muscular dystrophy heart failure juvenile dermatomyositis malignant ependymoma myopathy ovarian cancer psoriasis breast cancer large cell medulloblastoma lung adenocarcinoma medulloblastoma