3ZE3 | pdb_00003ze3

Crystal structure of the integral membrane diacylglycerol kinase - delta7

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d3ze3f_	Membrane and cell surface proteins and peptides	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
E	d3ze3e_	Membrane and cell surface proteins and peptides	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d3ze3d_	Membrane and cell surface proteins and peptides	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d3ze3c_	Membrane and cell surface proteins and peptides	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d3ze3b_	Membrane and cell surface proteins and peptides	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d3ze3a_	Membrane and cell surface proteins and peptides	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)-like	Diacylglycerol kinase (DgkA)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Pyr_redox_dim	e3ze3F2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
E	Pyr_redox_dim	e3ze3E2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
D	HSP20	e3ze3D2	A: a/b three-layered sandwiches	X: POZ domain	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: HSP20	ECOD (v294.1)
C	Pyr_redox_dim	e3ze3C2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
B	Pyr_redox_dim	e3ze3B2	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
A	Pkinase	e3ze3A1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: Pkinase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	1.10.287.3610	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (4.3.0)
E	1.10.287.3610	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (4.3.0)
D	1.10.287.3610	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (4.3.0)
C	1.10.287.3610	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (4.3.0)
B	1.10.287.3610	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (4.3.0)
A	1.10.287.3610	Mainly Alpha	Orthogonal Bundle	Helix Hairpins		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01219	Prokaryotic diacylglycerol kinase (DAGK_prokar)	Prokaryotic diacylglycerol kinase	-	Family

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	DIACYLGLYCEROL KINASE	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding kinase activity lipid kinase activity transferase activity ATP-dependent diacylglycerol kinase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding metal ion binding identical protein binding protein binding	phosphatidic acid biosynthetic process glycerophospholipid biosynthetic process phosphatidic acid metabolic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phospholipid biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process glycerolipid metabolic process phosphatidic acid biosynthetic process glycerophospholipid biosynthetic process phosphatidic acid metabolic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phospholipid biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process glycerolipid metabolic process metabolic process cellular process phosphorus metabolic process lipid metabolic process response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR000829	DAGK family	Family
A, B, C, D, E A, B, C, D, E, F	IPR033718	Diacylglycerol kinase, prokaryotic	Family
A, B, C, D, E A, B, C, D, E, F	IPR036945	Diacylglycerol kinase (DAGK) superfamily	Homologous Superfamily

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Phosphotransferases	DgkA diacylglycerol kinase (DAGK) with bound monoacylglycerol (7.8 MAG)

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.