Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3ZE3

Crystal structure of the integral membrane diacylglycerol kinase - delta7

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0016021	cellular_component	integral component of membrane
A	0016020	cellular_component	membrane
A	0005886	cellular_component	plasma membrane
A	0005524	molecular_function	ATP binding
A	0004143	molecular_function	diacylglycerol kinase activity
A	0006654	biological_process	phosphatidic acid biosynthetic process
A	0009411	biological_process	response to UV
B	0016021	cellular_component	integral component of membrane
B	0016020	cellular_component	membrane
B	0005886	cellular_component	plasma membrane
B	0005524	molecular_function	ATP binding
B	0004143	molecular_function	diacylglycerol kinase activity
B	0006654	biological_process	phosphatidic acid biosynthetic process
B	0009411	biological_process	response to UV
C	0016021	cellular_component	integral component of membrane
C	0016020	cellular_component	membrane
C	0005886	cellular_component	plasma membrane
C	0005524	molecular_function	ATP binding
C	0004143	molecular_function	diacylglycerol kinase activity
C	0006654	biological_process	phosphatidic acid biosynthetic process
C	0009411	biological_process	response to UV
D	0016021	cellular_component	integral component of membrane
D	0016020	cellular_component	membrane
D	0005886	cellular_component	plasma membrane
D	0005524	molecular_function	ATP binding
D	0004143	molecular_function	diacylglycerol kinase activity
D	0006654	biological_process	phosphatidic acid biosynthetic process
D	0009411	biological_process	response to UV
E	0016021	cellular_component	integral component of membrane
E	0016020	cellular_component	membrane
E	0005886	cellular_component	plasma membrane
E	0005524	molecular_function	ATP binding
E	0004143	molecular_function	diacylglycerol kinase activity
E	0006654	biological_process	phosphatidic acid biosynthetic process
E	0009411	biological_process	response to UV
F	0016021	cellular_component	integral component of membrane
F	0016020	cellular_component	membrane
F	0005886	cellular_component	plasma membrane
F	0005524	molecular_function	ATP binding
F	0004143	molecular_function	diacylglycerol kinase activity
F	0006654	biological_process	phosphatidic acid biosynthetic process
F	0009411	biological_process	response to UV

Functional Information from PDB Data

site_id

Number of Residues

Details

AC1

BINDING SITE FOR RESIDUE NA F 1122

Chain	Residue
D	LEU64
D	ASP107
D	HOH2044
F	SER60
F	LEU64
F	HOH2024

AC2

BINDING SITE FOR RESIDUE NA E 1122

Chain	Residue
D	SER60
E	SER61
E	THR111
E	HOH2020

AC3

BINDING SITE FOR RESIDUE ZN D 1122

Chain	Residue
D	GLU28
D	GLU76
D	FLC1123
D	ACT1124

AC4

BINDING SITE FOR RESIDUE FLC D 1123

Chain	Residue
D	GLU76
D	ZN1122
D	ACT1124
D	HOH2048

AC5

BINDING SITE FOR RESIDUE ACT D 1124

Chain	Residue
D	GLU28
D	GLU69
D	ASN72
D	SER73
D	GLU76
D	ZN1122
D	FLC1123
D	HOH2047

AC6

BINDING SITE FOR RESIDUE 78N B 1122

Chain	Residue
A	ALA13
A	ALA14
A	SER17
A	78N1123
A	78N1124
B	SER98
B	VAL101
B	LEU102
B	ILE105
B	ILE110
B	78N1123

AC7

BINDING SITE FOR RESIDUE 78N B 1123

Chain	Residue
A	ARG9
A	78N1124
B	GLU34
B	VAL65
B	GLU69
B	ALA108
B	TRP112
B	ALA113
B	78N1122

AC8

BINDING SITE FOR RESIDUE 78M D 1125

Chain	Residue
A	GLN33
A	GLU34
A	78M1126
C	TRP117
C	78N1122
D	TRP25
D	ALA29
D	ARG32
D	GLN33
D	VAL36
D	HOH2017
D	HOH2049

AC9

BINDING SITE FOR RESIDUE 78N C 1122

Chain	Residue
A	78M1126
B	ALA46
B	ARG55
B	HOH2010
C	ILE110
C	ILE114
C	TRP117
C	SER118
D	GLN33
D	78M1125

BC1

BINDING SITE FOR RESIDUE 78N A 1122

Chain	Residue
A	TRP18
A	ARG22
A	TRP25
A	ILE26
A	LEU39
A	MET63
A	MET66

BC2

BINDING SITE FOR RESIDUE 78M D 1126

Chain	Residue
A	ALA30
A	PHE31
A	GLU34
A	GLU69
A	LEU102
A	ILE105
A	HOH2012
D	ARG22
D	TRP25
D	HOH2050

BC3

BINDING SITE FOR RESIDUE 78M D 1127

Chain	Residue
B	TRP47
B	HOH2006
B	HOH2008
D	LEU102
D	VAL109
D	ALA113
D	HOH2018
D	HOH2043

BC4

BINDING SITE FOR RESIDUE 78N C 1123

Chain	Residue
A	LEU40
A	TRP47
A	78M1126
C	GLU34
C	GLU69
C	TRP112

BC5

BINDING SITE FOR RESIDUE 78M D 1128

Chain	Residue
A	TRP117
B	GLY35
B	VAL36
D	TRP47
D	LEU48
D	ASP49
D	PHE120

BC6

BINDING SITE FOR RESIDUE 78N A 1123

Chain	Residue
A	VAL42
A	ALA46
A	ARG55
A	78N1124
A	HOH2016
B	78N1122

BC7

BINDING SITE FOR RESIDUE 78N A 1124

Chain	Residue
A	VAL50
A	ASP51
A	ALA52
A	ARG55
A	78N1123
B	ILE114
B	TRP117
B	78N1122
B	78N1123

BC8

BINDING SITE FOR RESIDUE 78M A 1125

Chain	Residue
A	ILE110
A	TRP117
D	ALA46
D	TRP47
D	ARG55

BC9

BINDING SITE FOR RESIDUE 78M A 1126

Chain	Residue
A	CYS41
A	PHE120
A	HOH2015
C	LEU102
C	ILE105
C	78N1122
C	78N1123
D	LEU39
D	78M1125

Functional Information from PDB atom coordinates for the "HETATM" binding sites

site_id

Number of Residues

Details

78N_3ze3_B_1123

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	ARG9-ILE10	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	GLU34	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ALA37-VAL38	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	CYS41	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL62	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL65	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	GLU69	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL101	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE105	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ALA108-VAL109	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	TRP112-ALA113	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	LEU116	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78N_3ze3_B_1122

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	ILE10	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	ALA13-ALA14	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	SER17	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	GLU69	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ASN72	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	SER98-ALA99	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL101-LEU102	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE105-ILE106	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL109-ILE110	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78N_3ze3_A_1122

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	TRP18	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	LEU21-ARG22	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	TRP25-ILE26	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	PHE31	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	GLY35	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	VAL38-LEU39	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	VAL42	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	MET63	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	MET66	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE103	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE106	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE110	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78M_3ze3_A_1126

(2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	ALA37	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	LEU40-CYS41	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	ILE44	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	LEU48	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	TRP112	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	LEU116	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	PHE120	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78N_3ze3_A_1123

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	LEU39	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	VAL42-VAL43	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	ALA46	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	ARG55	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	ILE59	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE110	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE114	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78N_3ze3_A_1124

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	VAL50-ALA52	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	ARG55	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL109-ILE110	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ALA113-ILE114	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	TRP117	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78M_3ze3_A_1125

(2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
A	ILE110	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
A	TRP117	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78M_3ze3_D_1128

(2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
B	ILE26-ASN27	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ARG32	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	GLY35-VAL36	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL38-LEU39	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL42	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	MET63	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	MET66	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ILE103	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ILE106	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ILE110	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	LEU40	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	TRP47-ASP49	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	PHE120	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78M_3ze3_D_1127

(2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
B	LEU40	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE44	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	TRP47-ASP49	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	HIS119-PHE120	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	GLN33-GLU34	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	SER98	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	VAL101-LEU102	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	ILE105-ILE106	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	VAL109-ILE110	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	ALA113-ILE114	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78N_3ze3_C_1122

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
B	ALA46	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	VAL50	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ALA52	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ARG55	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
B	ILE59	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ILE110	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ALA113-LEU115	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	TRP117-SER118	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	GLN33	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	VAL36-ALA37	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	LEU39-LEU40	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	VAL43	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78N_3ze3_C_1123

(2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
C	GLU34	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ALA37	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	CYS41	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ILE44	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	VAL62	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	VAL65-MET66	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	GLU69	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ILE105	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	ALA108-VAL109	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	TRP112	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
C	LEU116	78N: (2R)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78M_3ze3_D_1125

(2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
C	TRP117	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	TRP25	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	ALA29	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	ARG32-GLN33	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	VAL36	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE

78M_3ze3_D_1126

(2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE binding site

Chain	Residue	ligand
D	LEU21-ARG22	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	TRP25-ILE26	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	PHE31	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	GLY35	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	VAL38-LEU39	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	MET63	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
D	MET66	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE
E	ILE103	78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE