Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

2XF8

Structure of the D-Erythrose-4-Phosphate Dehydrogenase from E. coli in complex with a NAD cofactor analog (3-Chloroacetyl adenine pyridine dinucleotide) and sulfate anion

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006006	biological_process	glucose metabolic process
A	0008615	biological_process	pyridoxine biosynthetic process
A	0016491	molecular_function	oxidoreductase activity
A	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
A	0042823	biological_process	pyridoxal phosphate biosynthetic process
A	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
A	0051287	molecular_function	NAD binding
B	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0006006	biological_process	glucose metabolic process
B	0008615	biological_process	pyridoxine biosynthetic process
B	0016491	molecular_function	oxidoreductase activity
B	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
B	0042823	biological_process	pyridoxal phosphate biosynthetic process
B	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
B	0051287	molecular_function	NAD binding
C	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006006	biological_process	glucose metabolic process
C	0008615	biological_process	pyridoxine biosynthetic process
C	0016491	molecular_function	oxidoreductase activity
C	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
C	0042823	biological_process	pyridoxal phosphate biosynthetic process
C	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
C	0051287	molecular_function	NAD binding
D	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0006006	biological_process	glucose metabolic process
D	0008615	biological_process	pyridoxine biosynthetic process
D	0016491	molecular_function	oxidoreductase activity
D	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
D	0042823	biological_process	pyridoxal phosphate biosynthetic process
D	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
D	0051287	molecular_function	NAD binding
E	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0006006	biological_process	glucose metabolic process
E	0008615	biological_process	pyridoxine biosynthetic process
E	0016491	molecular_function	oxidoreductase activity
E	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
E	0042823	biological_process	pyridoxal phosphate biosynthetic process
E	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
E	0051287	molecular_function	NAD binding
F	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0006006	biological_process	glucose metabolic process
F	0008615	biological_process	pyridoxine biosynthetic process
F	0016491	molecular_function	oxidoreductase activity
F	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
F	0042823	biological_process	pyridoxal phosphate biosynthetic process
F	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
F	0051287	molecular_function	NAD binding
G	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0006006	biological_process	glucose metabolic process
G	0008615	biological_process	pyridoxine biosynthetic process
G	0016491	molecular_function	oxidoreductase activity
G	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
G	0042823	biological_process	pyridoxal phosphate biosynthetic process
G	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
G	0051287	molecular_function	NAD binding
H	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006006	biological_process	glucose metabolic process
H	0008615	biological_process	pyridoxine biosynthetic process
H	0016491	molecular_function	oxidoreductase activity
H	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
H	0042823	biological_process	pyridoxal phosphate biosynthetic process
H	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
H	0051287	molecular_function	NAD binding
I	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006006	biological_process	glucose metabolic process
I	0008615	biological_process	pyridoxine biosynthetic process
I	0016491	molecular_function	oxidoreductase activity
I	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
I	0042823	biological_process	pyridoxal phosphate biosynthetic process
I	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
I	0051287	molecular_function	NAD binding
J	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006006	biological_process	glucose metabolic process
J	0008615	biological_process	pyridoxine biosynthetic process
J	0016491	molecular_function	oxidoreductase activity
J	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
J	0042823	biological_process	pyridoxal phosphate biosynthetic process
J	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
J	0051287	molecular_function	NAD binding
K	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
K	0005737	cellular_component	cytoplasm
K	0005829	cellular_component	cytosol
K	0006006	biological_process	glucose metabolic process
K	0008615	biological_process	pyridoxine biosynthetic process
K	0016491	molecular_function	oxidoreductase activity
K	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
K	0042823	biological_process	pyridoxal phosphate biosynthetic process
K	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
K	0051287	molecular_function	NAD binding
L	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
L	0006006	biological_process	glucose metabolic process
L	0008615	biological_process	pyridoxine biosynthetic process
L	0016491	molecular_function	oxidoreductase activity
L	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
L	0042823	biological_process	pyridoxal phosphate biosynthetic process
L	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
L	0051287	molecular_function	NAD binding
M	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
M	0005737	cellular_component	cytoplasm
M	0005829	cellular_component	cytosol
M	0006006	biological_process	glucose metabolic process
M	0008615	biological_process	pyridoxine biosynthetic process
M	0016491	molecular_function	oxidoreductase activity
M	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
M	0042823	biological_process	pyridoxal phosphate biosynthetic process
M	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
M	0051287	molecular_function	NAD binding
N	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
N	0005737	cellular_component	cytoplasm
N	0005829	cellular_component	cytosol
N	0006006	biological_process	glucose metabolic process
N	0008615	biological_process	pyridoxine biosynthetic process
N	0016491	molecular_function	oxidoreductase activity
N	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
N	0042823	biological_process	pyridoxal phosphate biosynthetic process
N	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
N	0051287	molecular_function	NAD binding
O	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
O	0005737	cellular_component	cytoplasm
O	0005829	cellular_component	cytosol
O	0006006	biological_process	glucose metabolic process
O	0008615	biological_process	pyridoxine biosynthetic process
O	0016491	molecular_function	oxidoreductase activity
O	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
O	0042823	biological_process	pyridoxal phosphate biosynthetic process
O	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
O	0051287	molecular_function	NAD binding
P	0004365	molecular_function	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
P	0005737	cellular_component	cytoplasm
P	0005829	cellular_component	cytosol
P	0006006	biological_process	glucose metabolic process
P	0008615	biological_process	pyridoxine biosynthetic process
P	0016491	molecular_function	oxidoreductase activity
P	0016620	molecular_function	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
P	0042823	biological_process	pyridoxal phosphate biosynthetic process
P	0048001	molecular_function	erythrose-4-phosphate dehydrogenase activity
P	0051287	molecular_function	NAD binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 A 500

Chain	Residue
A	THR150
A	HIS176
A	THR208
A	LYS209
A	LEU210

site_id	AC2
Number of Residues	21
Details	BINDING SITE FOR RESIDUE 3CD A 600

Chain	Residue
A	ILE11
A	ASN31
A	GLU32
A	LEU33
A	GLU76
A	ARG77
A	GLY97
A	TYR99
A	SER119
A	HIS120
A	CYS149
A	ASN313
A	PHE317
A	HOH2013
A	HOH2014
A	HOH2015
F	ARG61
A	GLY7
A	PHE8
A	GLY9
A	ARG10

site_id	AC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 B 500

Chain	Residue
B	THR150
B	HIS176
B	THR208
B	LYS209

site_id	AC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 C 500

Chain	Residue
C	SER148
C	THR150
C	HIS176
C	THR208
C	LYS209

site_id	AC5
Number of Residues	15
Details	BINDING SITE FOR RESIDUE 3CD C 600

Chain	Residue
C	GLY7
C	GLY9
C	ARG10
C	ILE11
C	ASN31
C	GLU32
C	LEU33
C	CYS95
C	GLY97
C	TYR99
C	SER119
C	HIS120
C	CYS149
C	PHE317
H	GLN63

site_id	AC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 D 500

Chain	Residue
D	THR150
D	HIS176
D	THR208
D	LYS209

site_id	AC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 E 500

Chain	Residue
E	THR150
E	THR208
E	LYS209
E	LEU210

site_id	AC8
Number of Residues	17
Details	BINDING SITE FOR RESIDUE 3CD E 600

Chain	Residue
B	ARG61
E	GLY7
E	GLY9
E	ARG10
E	ILE11
E	ASN31
E	GLU32
E	ARG77
E	CYS95
E	THR96
E	GLY97
E	TYR99
E	SER119
E	HIS120
E	SER148
E	CYS149
E	PHE317

site_id	AC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 F 500

Chain	Residue
F	THR150
F	HIS176
F	THR208
F	LYS209

site_id	BC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 G 500

Chain	Residue
G	THR150
G	HIS176
G	THR208
G	LYS209
G	LEU210

site_id	BC2
Number of Residues	15
Details	BINDING SITE FOR RESIDUE 3CD G 600

Chain	Residue
D	ARG61
G	GLY7
G	GLY9
G	ARG10
G	ILE11
G	ASN31
G	GLU32
G	LEU33
G	CYS95
G	GLY97
G	TYR99
G	SER119
G	HIS120
G	CYS149
G	ASN313

site_id	BC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 H 500

Chain	Residue
H	SER148
H	THR150
H	HIS176
H	THR208
H	LYS209

site_id	BC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 I 500

Chain	Residue
I	THR150
I	HIS176
I	THR208
I	LYS209
I	LEU210

site_id	BC5
Number of Residues	18
Details	BINDING SITE FOR RESIDUE 3CD I 600

Chain	Residue
I	GLY7
I	GLY9
I	ARG10
I	ILE11
I	ASN31
I	GLU32
I	LEU33
I	GLU76
I	ARG77
I	CYS95
I	GLY97
I	TYR99
I	SER119
I	HIS120
I	SER148
I	CYS149
I	ASN313
I	HOH2006

site_id	BC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 J 500

Chain	Residue
J	THR150
J	HIS176
J	THR208
J	LYS209
J	LEU210

site_id	BC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 K 500

Chain	Residue
K	THR150
K	HIS176
K	THR208
K	LYS209

site_id	BC8
Number of Residues	18
Details	BINDING SITE FOR RESIDUE 3CD K 600

Chain	Residue
K	GLY7
K	PHE8
K	GLY9
K	ARG10
K	ILE11
K	ASN31
K	GLU32
K	LEU33
K	CYS95
K	THR96
K	GLY97
K	TYR99
K	SER119
K	SER148
K	CYS149
K	PHE317
P	GLN63
P	ALA70

site_id	BC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 L 500

Chain	Residue
L	THR150
L	HIS176
L	THR208
L	LYS209

site_id	CC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 M 500

Chain	Residue
M	THR150
M	HIS176
M	THR208
M	LYS209
M	LEU210

site_id	CC2
Number of Residues	14
Details	BINDING SITE FOR RESIDUE 3CD M 600

Chain	Residue
M	GLY7
M	GLY9
M	ARG10
M	ILE11
M	ASN31
M	GLU32
M	ARG77
M	GLY97
M	TYR99
M	SER119
M	HIS120
M	CYS149
M	ASN313
M	PHE317

site_id	CC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 N 500

Chain	Residue
N	THR150
N	HIS176
N	THR208
N	LYS209
N	LEU210

site_id	CC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 O 500

Chain	Residue
O	THR150
O	HIS176
O	THR208
O	LYS209
O	LEU210

site_id	CC5
Number of Residues	14
Details	BINDING SITE FOR RESIDUE 3CD O 600

Chain	Residue
O	GLY7
O	GLY9
O	ARG10
O	ILE11
O	ASN31
O	GLU32
O	LEU33
O	CYS95
O	THR96
O	GLY97
O	SER119
O	CYS149
O	ASN313
O	PHE317

site_id	CC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 P 500

Chain	Residue
P	THR150
P	HIS176
P	THR208
P	LYS209
P	LEU210

Functional Information from PROSITE/UniProt

site_id	PS00071
Number of Residues	8
Details	GAPDH Glyceraldehyde 3-phosphate dehydrogenase active site. ASCTTNcI

Chain	Residue	Details
A	ALA147-ILE154

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	16
Details	ACT_SITE: Nucleophile => ECO:0000250

Chain	Residue	Details
A	CYS149
J	CYS149
K	CYS149
L	CYS149
M	CYS149
N	CYS149
O	CYS149
P	CYS149
B	CYS149
C	CYS149
D	CYS149
E	CYS149
F	CYS149
G	CYS149
H	CYS149
I	CYS149

site_id	SWS_FT_FI2
Number of Residues	48
Details	BINDING: BINDING => ECO:0000250

Chain	Residue	Details
A	ARG10
D	ARG10
D	ARG77
D	ASN313
E	ARG10
E	ARG77
E	ASN313
F	ARG10
F	ARG77
F	ASN313
G	ARG10
A	ARG77
G	ARG77
G	ASN313
H	ARG10
H	ARG77
H	ASN313
I	ARG10
I	ARG77
I	ASN313
J	ARG10
J	ARG77
A	ASN313
J	ASN313
K	ARG10
K	ARG77
K	ASN313
L	ARG10
L	ARG77
L	ASN313
M	ARG10
M	ARG77
M	ASN313
B	ARG10
N	ARG10
N	ARG77
N	ASN313
O	ARG10
O	ARG77
O	ASN313
P	ARG10
P	ARG77
P	ASN313
B	ARG77
B	ASN313
C	ARG10
C	ARG77
C	ASN313

site_id	SWS_FT_FI3
Number of Residues	64
Details	BINDING: BINDING => ECO:0000255

Chain	Residue	Details
A	SER148
C	ARG195
C	THR208
C	ARG231
D	SER148
D	ARG195
D	THR208
D	ARG231
E	SER148
E	ARG195
E	THR208
A	ARG195
E	ARG231
F	SER148
F	ARG195
F	THR208
F	ARG231
G	SER148
G	ARG195
G	THR208
G	ARG231
H	SER148
A	THR208
H	ARG195
H	THR208
H	ARG231
I	SER148
I	ARG195
I	THR208
I	ARG231
J	SER148
J	ARG195
J	THR208
A	ARG231
J	ARG231
K	SER148
K	ARG195
K	THR208
K	ARG231
L	SER148
L	ARG195
L	THR208
L	ARG231
M	SER148
B	SER148
M	ARG195
M	THR208
M	ARG231
N	SER148
N	ARG195
N	THR208
N	ARG231
O	SER148
O	ARG195
O	THR208
B	ARG195
O	ARG231
P	SER148
P	ARG195
P	THR208
P	ARG231
B	THR208
B	ARG231
C	SER148

site_id	SWS_FT_FI4
Number of Residues	16
Details	SITE: Activates thiol group during catalysis => ECO:0000250

Chain	Residue	Details
A	HIS176
J	HIS176
K	HIS176
L	HIS176
M	HIS176
N	HIS176
O	HIS176
P	HIS176
B	HIS176
C	HIS176
D	HIS176
E	HIS176
F	HIS176
G	HIS176
H	HIS176
I	HIS176

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