Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6E90

Ternary complex of human glycerol 3-phosphate dehydrogenase

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004368	molecular_function	glycerol-3-phosphate dehydrogenase (quinone) activity
A	0005515	molecular_function	protein binding
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0005975	biological_process	carbohydrate metabolic process
A	0006072	biological_process	glycerol-3-phosphate metabolic process
A	0006094	biological_process	gluconeogenesis
A	0006116	biological_process	NADH oxidation
A	0006127	biological_process	glycerophosphate shuttle
A	0006734	biological_process	NADH metabolic process
A	0016491	molecular_function	oxidoreductase activity
A	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
A	0042803	molecular_function	protein homodimerization activity
A	0045821	biological_process	positive regulation of glycolytic process
A	0046168	biological_process	glycerol-3-phosphate catabolic process
A	0046486	biological_process	glycerolipid metabolic process
A	0047952	molecular_function	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
A	0051287	molecular_function	NAD binding
A	0070062	cellular_component	extracellular exosome
A	0071320	biological_process	cellular response to cAMP
A	0071356	biological_process	cellular response to tumor necrosis factor
A	0141152	molecular_function	glycerol-3-phosphate dehydrogenase (NAD+) activity
B	0004368	molecular_function	glycerol-3-phosphate dehydrogenase (quinone) activity
B	0005515	molecular_function	protein binding
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0005975	biological_process	carbohydrate metabolic process
B	0006072	biological_process	glycerol-3-phosphate metabolic process
B	0006094	biological_process	gluconeogenesis
B	0006116	biological_process	NADH oxidation
B	0006127	biological_process	glycerophosphate shuttle
B	0006734	biological_process	NADH metabolic process
B	0016491	molecular_function	oxidoreductase activity
B	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
B	0042803	molecular_function	protein homodimerization activity
B	0045821	biological_process	positive regulation of glycolytic process
B	0046168	biological_process	glycerol-3-phosphate catabolic process
B	0046486	biological_process	glycerolipid metabolic process
B	0047952	molecular_function	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
B	0051287	molecular_function	NAD binding
B	0070062	cellular_component	extracellular exosome
B	0071320	biological_process	cellular response to cAMP
B	0071356	biological_process	cellular response to tumor necrosis factor
B	0141152	molecular_function	glycerol-3-phosphate dehydrogenase (NAD+) activity
C	0004368	molecular_function	glycerol-3-phosphate dehydrogenase (quinone) activity
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0005975	biological_process	carbohydrate metabolic process
C	0006072	biological_process	glycerol-3-phosphate metabolic process
C	0006094	biological_process	gluconeogenesis
C	0006116	biological_process	NADH oxidation
C	0006127	biological_process	glycerophosphate shuttle
C	0006734	biological_process	NADH metabolic process
C	0016491	molecular_function	oxidoreductase activity
C	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
C	0042803	molecular_function	protein homodimerization activity
C	0045821	biological_process	positive regulation of glycolytic process
C	0046168	biological_process	glycerol-3-phosphate catabolic process
C	0046486	biological_process	glycerolipid metabolic process
C	0047952	molecular_function	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
C	0051287	molecular_function	NAD binding
C	0070062	cellular_component	extracellular exosome
C	0071320	biological_process	cellular response to cAMP
C	0071356	biological_process	cellular response to tumor necrosis factor
C	0141152	molecular_function	glycerol-3-phosphate dehydrogenase (NAD+) activity
D	0004368	molecular_function	glycerol-3-phosphate dehydrogenase (quinone) activity
D	0005515	molecular_function	protein binding
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0005975	biological_process	carbohydrate metabolic process
D	0006072	biological_process	glycerol-3-phosphate metabolic process
D	0006094	biological_process	gluconeogenesis
D	0006116	biological_process	NADH oxidation
D	0006127	biological_process	glycerophosphate shuttle
D	0006734	biological_process	NADH metabolic process
D	0016491	molecular_function	oxidoreductase activity
D	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
D	0042803	molecular_function	protein homodimerization activity
D	0045821	biological_process	positive regulation of glycolytic process
D	0046168	biological_process	glycerol-3-phosphate catabolic process
D	0046486	biological_process	glycerolipid metabolic process
D	0047952	molecular_function	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
D	0051287	molecular_function	NAD binding
D	0070062	cellular_component	extracellular exosome
D	0071320	biological_process	cellular response to cAMP
D	0071356	biological_process	cellular response to tumor necrosis factor
D	0141152	molecular_function	glycerol-3-phosphate dehydrogenase (NAD+) activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	24
Details	binding site for residue NAD A 401

Chain	Residue
A	SER11
A	PHE97
A	ILE119
A	LYS120
A	ASN151
A	ALA153
A	ARG269
A	GLN295
A	LYS296
A	GLN298
A	13P402
A	GLY12
A	HOH505
A	HOH519
A	HOH547
A	HOH556
A	HOH603
A	ASN13
A	TRP14
A	GLY15
A	PHE41
A	TYR63
A	VAL93
A	PRO94

site_id	AC2
Number of Residues	15
Details	binding site for residue 13P A 402

Chain	Residue
A	LYS120
A	GLY149
A	ASN151
A	ILE152
A	LYS204
A	ASN205
A	ASP260
A	THR264
A	GLY268
A	ARG269
A	ASN270
A	NAD401
A	HOH530
A	HOH556
A	HOH577

site_id	AC3
Number of Residues	5
Details	binding site for residue CA A 403

Chain	Residue
A	VAL122
A	ASP123
A	GLU305
A	HOH543
A	HOH550

site_id	AC4
Number of Residues	6
Details	binding site for residue MPD A 404

Chain	Residue
A	GLU163
A	ARG187
A	ILE188
A	THR189
C	HIS345
C	PRO346

site_id	AC5
Number of Residues	27
Details	binding site for residue NAD B 401

Chain	Residue
B	SER11
B	GLY12
B	ASN13
B	TRP14
B	GLY15
B	PHE41
B	TYR63
B	VAL93
B	PRO94
B	PHE97
B	ILE119
B	LYS120
B	ASN151
B	ALA153
B	ARG269
B	GLY294
B	GLN295
B	LYS296
B	GLN298
B	13P402
B	HOH506
B	HOH527
B	HOH532
B	HOH539
B	HOH548
B	HOH581
B	HOH586

site_id	AC6
Number of Residues	13
Details	binding site for residue 13P B 402

Chain	Residue
B	LYS120
B	GLY149
B	ASN151
B	LYS204
B	ASN205
B	ASP260
B	THR264
B	GLY268
B	ARG269
B	ASN270
B	NAD401
B	HOH544
B	HOH548

site_id	AC7
Number of Residues	5
Details	binding site for residue CA B 403

Chain	Residue
B	VAL122
B	ASP123
B	GLU305
B	HOH568
B	HOH657

site_id	AC8
Number of Residues	15
Details	binding site for residue NAD C 401

Chain	Residue
C	TRP39
C	PHE41
C	PHE97
C	LEU118
C	ILE119
C	LYS120
C	ASN151
C	ALA153
C	HOH505
C	HOH605
C	HOH626
C	SER11
C	GLY12
C	ASN13
C	TRP14

site_id	AC9
Number of Residues	4
Details	binding site for residue PO4 C 402

Chain	Residue
C	GLU134
C	ASP195
C	PHE242
C	SER244

site_id	AD1
Number of Residues	5
Details	binding site for residue PO4 D 401

Chain	Residue
D	GLU134
D	ASP195
D	PHE242
D	CYS243
D	SER244

site_id	AD2
Number of Residues	5
Details	binding site for residue MPD D 402

Chain	Residue
D	MET233
D	GLU234
D	LYS318
D	HIS345
D	GLU347

Functional Information from PROSITE/UniProt

site_id	PS00957
Number of Residues	22
Details	NAD_G3PDH NAD-dependent glycerol-3-phosphate dehydrogenase signature. GALKNVVAvGaGFcdGLgFGdN

Chain	Residue	Details
A	GLY201-ASN222

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	ACT_SITE: Proton acceptor => ECO:0000305

Chain	Residue	Details
A	LYS204
B	LYS204
C	LYS204
D	LYS204

site_id	SWS_FT_FI2
Number of Residues	28
Details	BINDING: BINDING => ECO:0000269\|PubMed:16460752

Chain	Residue	Details
A	ARG269
A	LYS296
A	GLN298
B	GLY10
B	PHE41
B	PHE97
B	ALA153
B	ARG269
B	LYS296
B	GLN298
C	GLY10
C	PHE41
C	PHE97
C	ALA153
C	ARG269
C	LYS296
C	GLN298
D	GLY10
D	PHE41
D	PHE97
D	ALA153
D	ARG269
D	LYS296
D	GLN298
A	GLY10
A	PHE41
A	PHE97
A	ALA153

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING:

Chain	Residue	Details
A	LYS120
B	LYS120
C	LYS120
D	LYS120

site_id	SWS_FT_FI4
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:24275569

Chain	Residue	Details
A	SER154
B	SER154
C	SER154
D	SER154

site_id	SWS_FT_FI5
Number of Residues	4
Details	MOD_RES: N6-succinyllysine => ECO:0000250\|UniProtKB:P13707

Chain	Residue	Details
A	LYS289
B	LYS289
C	LYS289
D	LYS289

site_id	SWS_FT_FI6
Number of Residues	4
Details	MOD_RES: Phosphotyrosine => ECO:0000250\|UniProtKB:O35077

Chain	Residue	Details
A	TYR326
B	TYR326
C	TYR326
D	TYR326

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)