Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5UQ9

Crystal structure of 6-phosphogluconate dehydrogenase with ((4R,5R)-5-(hydroxycarbamoyl)-2,2-dimethyl-1,3-dioxolan-4-yl)methyl dihydrogen phosphate

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006098	biological_process	pentose-phosphate shunt
A	0009051	biological_process	pentose-phosphate shunt, oxidative branch
A	0016491	molecular_function	oxidoreductase activity
A	0019322	biological_process	pentose biosynthetic process
A	0019521	biological_process	D-gluconate metabolic process
A	0046177	biological_process	D-gluconate catabolic process
A	0050661	molecular_function	NADP binding
A	0070062	cellular_component	extracellular exosome
B	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0006098	biological_process	pentose-phosphate shunt
B	0009051	biological_process	pentose-phosphate shunt, oxidative branch
B	0016491	molecular_function	oxidoreductase activity
B	0019322	biological_process	pentose biosynthetic process
B	0019521	biological_process	D-gluconate metabolic process
B	0046177	biological_process	D-gluconate catabolic process
B	0050661	molecular_function	NADP binding
B	0070062	cellular_component	extracellular exosome
C	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
C	0005634	cellular_component	nucleus
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006098	biological_process	pentose-phosphate shunt
C	0009051	biological_process	pentose-phosphate shunt, oxidative branch
C	0016491	molecular_function	oxidoreductase activity
C	0019322	biological_process	pentose biosynthetic process
C	0019521	biological_process	D-gluconate metabolic process
C	0046177	biological_process	D-gluconate catabolic process
C	0050661	molecular_function	NADP binding
C	0070062	cellular_component	extracellular exosome
D	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
D	0005634	cellular_component	nucleus
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0006098	biological_process	pentose-phosphate shunt
D	0009051	biological_process	pentose-phosphate shunt, oxidative branch
D	0016491	molecular_function	oxidoreductase activity
D	0019322	biological_process	pentose biosynthetic process
D	0019521	biological_process	D-gluconate metabolic process
D	0046177	biological_process	D-gluconate catabolic process
D	0050661	molecular_function	NADP binding
D	0070062	cellular_component	extracellular exosome
E	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
E	0005634	cellular_component	nucleus
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0006098	biological_process	pentose-phosphate shunt
E	0009051	biological_process	pentose-phosphate shunt, oxidative branch
E	0016491	molecular_function	oxidoreductase activity
E	0019322	biological_process	pentose biosynthetic process
E	0019521	biological_process	D-gluconate metabolic process
E	0046177	biological_process	D-gluconate catabolic process
E	0050661	molecular_function	NADP binding
E	0070062	cellular_component	extracellular exosome
F	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
F	0005634	cellular_component	nucleus
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0006098	biological_process	pentose-phosphate shunt
F	0009051	biological_process	pentose-phosphate shunt, oxidative branch
F	0016491	molecular_function	oxidoreductase activity
F	0019322	biological_process	pentose biosynthetic process
F	0019521	biological_process	D-gluconate metabolic process
F	0046177	biological_process	D-gluconate catabolic process
F	0050661	molecular_function	NADP binding
F	0070062	cellular_component	extracellular exosome
G	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
G	0005634	cellular_component	nucleus
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0006098	biological_process	pentose-phosphate shunt
G	0009051	biological_process	pentose-phosphate shunt, oxidative branch
G	0016491	molecular_function	oxidoreductase activity
G	0019322	biological_process	pentose biosynthetic process
G	0019521	biological_process	D-gluconate metabolic process
G	0046177	biological_process	D-gluconate catabolic process
G	0050661	molecular_function	NADP binding
G	0070062	cellular_component	extracellular exosome
H	0004616	molecular_function	phosphogluconate dehydrogenase (decarboxylating) activity
H	0005634	cellular_component	nucleus
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006098	biological_process	pentose-phosphate shunt
H	0009051	biological_process	pentose-phosphate shunt, oxidative branch
H	0016491	molecular_function	oxidoreductase activity
H	0019322	biological_process	pentose biosynthetic process
H	0019521	biological_process	D-gluconate metabolic process
H	0046177	biological_process	D-gluconate catabolic process
H	0050661	molecular_function	NADP binding
H	0070062	cellular_component	extracellular exosome

Functional Information from PDB Data

site_id	AC1
Number of Residues	8
Details	binding site for residue 8HS F 501

Chain	Residue
E	ASN103
E	TYR192
E	LYS261
E	ARG288
F	ARG447
F	PHE450
F	GLY451
F	HIS453

Functional Information from PROSITE/UniProt

site_id	PS00461
Number of Residues	13
Details	6PGD 6-phosphogluconate dehydrogenase signature. IrDsaGQKGTGkW

Chain	Residue	Details
A	ILE254-TRP266

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	ACT_SITE: Proton acceptor => ECO:0000250

Chain	Residue	Details
A	LYS184
B	LYS184
C	LYS184
D	LYS184
E	LYS184
F	LYS184
G	LYS184
H	LYS184

site_id	SWS_FT_FI2
Number of Residues	8
Details	ACT_SITE: Proton donor => ECO:0000250

Chain	Residue	Details
A	GLU191
B	GLU191
C	GLU191
D	GLU191
E	GLU191
F	GLU191
G	GLU191
H	GLU191

site_id	SWS_FT_FI3
Number of Residues	24
Details	BINDING: in other chain => ECO:0000269\|Ref.9

Chain	Residue	Details
A	GLY10
D	GLY10
D	ASN33
D	VAL75
E	GLY10
E	ASN33
E	VAL75
F	GLY10
F	ASN33
F	VAL75
G	GLY10
A	ASN33
G	ASN33
G	VAL75
H	GLY10
H	ASN33
H	VAL75
A	VAL75
B	GLY10
B	ASN33
B	VAL75
C	GLY10
C	ASN33
C	VAL75

site_id	SWS_FT_FI4
Number of Residues	48
Details	BINDING: in other chain => ECO:0000250

Chain	Residue	Details
A	ASN103
B	TYR192
B	LYS261
B	ARG288
C	ASN103
C	SER129
C	HIS187
C	TYR192
C	LYS261
C	ARG288
D	ASN103
A	SER129
D	SER129
D	HIS187
D	TYR192
D	LYS261
D	ARG288
E	ASN103
E	SER129
E	HIS187
E	TYR192
E	LYS261
A	HIS187
E	ARG288
F	ASN103
F	SER129
F	HIS187
F	TYR192
F	LYS261
F	ARG288
G	ASN103
G	SER129
G	HIS187
A	TYR192
G	TYR192
G	LYS261
G	ARG288
H	ASN103
H	SER129
H	HIS187
H	TYR192
H	LYS261
H	ARG288
A	LYS261
A	ARG288
B	ASN103
B	SER129
B	HIS187

site_id	SWS_FT_FI5
Number of Residues	16
Details	BINDING: BINDING => ECO:0000250

Chain	Residue	Details
A	ARG447
E	HIS453
F	ARG447
F	HIS453
G	ARG447
G	HIS453
H	ARG447
H	HIS453
A	HIS453
B	ARG447
B	HIS453
C	ARG447
C	HIS453
D	ARG447
D	HIS453
E	ARG447

site_id	SWS_FT_FI6
Number of Residues	8
Details	BINDING: BINDING => ECO:0000269\|Ref.9

Chain	Residue	Details
A	SER478
B	SER478
C	SER478
D	SER478
E	SER478
F	SER478
G	SER478
H	SER478

site_id	SWS_FT_FI7
Number of Residues	8
Details	MOD_RES: N6-acetyllysine => ECO:0000250\|UniProtKB:Q9DCD0

Chain	Residue	Details
A	LYS38
B	LYS38
C	LYS38
D	LYS38
E	LYS38
F	LYS38
G	LYS38
H	LYS38

site_id	SWS_FT_FI8
Number of Residues	16
Details	MOD_RES: Phosphoserine => ECO:0000250\|UniProtKB:Q9DCD0

Chain	Residue	Details
A	SER57
E	SER129
F	SER57
F	SER129
G	SER57
G	SER129
H	SER57
H	SER129
A	SER129
B	SER57
B	SER129
C	SER57
C	SER129
D	SER57
D	SER129
E	SER57

site_id	SWS_FT_FI9
Number of Residues	16
Details	MOD_RES: N6-acetyllysine => ECO:0007744\|PubMed:19608861

Chain	Residue	Details
A	LYS59
E	LYS309
F	LYS59
F	LYS309
G	LYS59
G	LYS309
H	LYS59
H	LYS309
A	LYS309
B	LYS59
B	LYS309
C	LYS59
C	LYS309
D	LYS59
D	LYS309
E	LYS59

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