Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4XYJ

Crystal structure of human phosphofructokinase-1 in complex with ATP and Mg, Northeast Structural Genomics Consortium Target HR9275

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0003824	molecular_function	catalytic activity
A	0003872	molecular_function	6-phosphofructokinase activity
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0005945	cellular_component	6-phosphofructokinase complex
A	0006002	biological_process	fructose 6-phosphate metabolic process
A	0006096	biological_process	glycolytic process
A	0016020	cellular_component	membrane
A	0016301	molecular_function	kinase activity
A	0016740	molecular_function	transferase activity
A	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
A	0044877	molecular_function	protein-containing complex binding
A	0045296	molecular_function	cadherin binding
A	0046872	molecular_function	metal ion binding
A	0061621	biological_process	canonical glycolysis
A	0070062	cellular_component	extracellular exosome
A	0070095	molecular_function	fructose-6-phosphate binding
A	1990830	biological_process	cellular response to leukemia inhibitory factor
B	0000166	molecular_function	nucleotide binding
B	0003824	molecular_function	catalytic activity
B	0003872	molecular_function	6-phosphofructokinase activity
B	0005515	molecular_function	protein binding
B	0005524	molecular_function	ATP binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0005945	cellular_component	6-phosphofructokinase complex
B	0006002	biological_process	fructose 6-phosphate metabolic process
B	0006096	biological_process	glycolytic process
B	0016020	cellular_component	membrane
B	0016301	molecular_function	kinase activity
B	0016740	molecular_function	transferase activity
B	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
B	0044877	molecular_function	protein-containing complex binding
B	0045296	molecular_function	cadherin binding
B	0046872	molecular_function	metal ion binding
B	0061621	biological_process	canonical glycolysis
B	0070062	cellular_component	extracellular exosome
B	0070095	molecular_function	fructose-6-phosphate binding
B	1990830	biological_process	cellular response to leukemia inhibitory factor
C	0000166	molecular_function	nucleotide binding
C	0003824	molecular_function	catalytic activity
C	0003872	molecular_function	6-phosphofructokinase activity
C	0005515	molecular_function	protein binding
C	0005524	molecular_function	ATP binding
C	0005634	cellular_component	nucleus
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0005945	cellular_component	6-phosphofructokinase complex
C	0006002	biological_process	fructose 6-phosphate metabolic process
C	0006096	biological_process	glycolytic process
C	0016020	cellular_component	membrane
C	0016301	molecular_function	kinase activity
C	0016740	molecular_function	transferase activity
C	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
C	0044877	molecular_function	protein-containing complex binding
C	0045296	molecular_function	cadherin binding
C	0046872	molecular_function	metal ion binding
C	0061621	biological_process	canonical glycolysis
C	0070062	cellular_component	extracellular exosome
C	0070095	molecular_function	fructose-6-phosphate binding
C	1990830	biological_process	cellular response to leukemia inhibitory factor
D	0000166	molecular_function	nucleotide binding
D	0003824	molecular_function	catalytic activity
D	0003872	molecular_function	6-phosphofructokinase activity
D	0005515	molecular_function	protein binding
D	0005524	molecular_function	ATP binding
D	0005634	cellular_component	nucleus
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0005945	cellular_component	6-phosphofructokinase complex
D	0006002	biological_process	fructose 6-phosphate metabolic process
D	0006096	biological_process	glycolytic process
D	0016020	cellular_component	membrane
D	0016301	molecular_function	kinase activity
D	0016740	molecular_function	transferase activity
D	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
D	0044877	molecular_function	protein-containing complex binding
D	0045296	molecular_function	cadherin binding
D	0046872	molecular_function	metal ion binding
D	0061621	biological_process	canonical glycolysis
D	0070062	cellular_component	extracellular exosome
D	0070095	molecular_function	fructose-6-phosphate binding
D	1990830	biological_process	cellular response to leukemia inhibitory factor
E	0000166	molecular_function	nucleotide binding
E	0003824	molecular_function	catalytic activity
E	0003872	molecular_function	6-phosphofructokinase activity
E	0005515	molecular_function	protein binding
E	0005524	molecular_function	ATP binding
E	0005634	cellular_component	nucleus
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0005945	cellular_component	6-phosphofructokinase complex
E	0006002	biological_process	fructose 6-phosphate metabolic process
E	0006096	biological_process	glycolytic process
E	0016020	cellular_component	membrane
E	0016301	molecular_function	kinase activity
E	0016740	molecular_function	transferase activity
E	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
E	0044877	molecular_function	protein-containing complex binding
E	0045296	molecular_function	cadherin binding
E	0046872	molecular_function	metal ion binding
E	0061621	biological_process	canonical glycolysis
E	0070062	cellular_component	extracellular exosome
E	0070095	molecular_function	fructose-6-phosphate binding
E	1990830	biological_process	cellular response to leukemia inhibitory factor
F	0000166	molecular_function	nucleotide binding
F	0003824	molecular_function	catalytic activity
F	0003872	molecular_function	6-phosphofructokinase activity
F	0005515	molecular_function	protein binding
F	0005524	molecular_function	ATP binding
F	0005634	cellular_component	nucleus
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0005945	cellular_component	6-phosphofructokinase complex
F	0006002	biological_process	fructose 6-phosphate metabolic process
F	0006096	biological_process	glycolytic process
F	0016020	cellular_component	membrane
F	0016301	molecular_function	kinase activity
F	0016740	molecular_function	transferase activity
F	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
F	0044877	molecular_function	protein-containing complex binding
F	0045296	molecular_function	cadherin binding
F	0046872	molecular_function	metal ion binding
F	0061621	biological_process	canonical glycolysis
F	0070062	cellular_component	extracellular exosome
F	0070095	molecular_function	fructose-6-phosphate binding
F	1990830	biological_process	cellular response to leukemia inhibitory factor
G	0000166	molecular_function	nucleotide binding
G	0003824	molecular_function	catalytic activity
G	0003872	molecular_function	6-phosphofructokinase activity
G	0005515	molecular_function	protein binding
G	0005524	molecular_function	ATP binding
G	0005634	cellular_component	nucleus
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0005945	cellular_component	6-phosphofructokinase complex
G	0006002	biological_process	fructose 6-phosphate metabolic process
G	0006096	biological_process	glycolytic process
G	0016020	cellular_component	membrane
G	0016301	molecular_function	kinase activity
G	0016740	molecular_function	transferase activity
G	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
G	0044877	molecular_function	protein-containing complex binding
G	0045296	molecular_function	cadherin binding
G	0046872	molecular_function	metal ion binding
G	0061621	biological_process	canonical glycolysis
G	0070062	cellular_component	extracellular exosome
G	0070095	molecular_function	fructose-6-phosphate binding
G	1990830	biological_process	cellular response to leukemia inhibitory factor
H	0000166	molecular_function	nucleotide binding
H	0003824	molecular_function	catalytic activity
H	0003872	molecular_function	6-phosphofructokinase activity
H	0005515	molecular_function	protein binding
H	0005524	molecular_function	ATP binding
H	0005634	cellular_component	nucleus
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0005945	cellular_component	6-phosphofructokinase complex
H	0006002	biological_process	fructose 6-phosphate metabolic process
H	0006096	biological_process	glycolytic process
H	0016020	cellular_component	membrane
H	0016301	molecular_function	kinase activity
H	0016740	molecular_function	transferase activity
H	0030388	biological_process	fructose 1,6-bisphosphate metabolic process
H	0044877	molecular_function	protein-containing complex binding
H	0045296	molecular_function	cadherin binding
H	0046872	molecular_function	metal ion binding
H	0061621	biological_process	canonical glycolysis
H	0070062	cellular_component	extracellular exosome
H	0070095	molecular_function	fructose-6-phosphate binding
H	1990830	biological_process	cellular response to leukemia inhibitory factor

Functional Information from PDB Data

site_id	AC1
Number of Residues	16
Details	binding site for residue ATP A 801

Chain	Residue
A	GLY33
A	SER130
A	THR132
A	GLY133
A	SER173
A	ARG219
A	MG802
A	MG803
A	GLY34
A	TYR64
A	CYS98
A	PHE101
A	ARG102
A	GLY127
A	ASP128
A	GLY129

site_id	AC2
Number of Residues	4
Details	binding site for residue MG A 802

Chain	Residue
A	ASP128
A	ASP177
A	ARG219
A	ATP801

site_id	AC3
Number of Residues	5
Details	binding site for residue MG A 803

Chain	Residue
A	SER32
A	GLY33
A	GLY34
A	GLY172
A	ATP801

site_id	AC4
Number of Residues	5
Details	binding site for residue PO4 A 804

Chain	Residue
A	GLY233
A	LYS264
A	ARG430
A	ARG434
A	GLY468

site_id	AC5
Number of Residues	4
Details	binding site for residue PO4 A 805

Chain	Residue
A	ARG44
A	ARG48
A	SER83
A	SER84

site_id	AC6
Number of Residues	17
Details	binding site for residue ATP B 801

Chain	Residue
B	GLY33
B	GLY34
B	TYR64
B	ARG97
B	CYS98
B	PHE101
B	ARG102
B	GLY127
B	ASP128
B	GLY129
B	SER130
B	GLY133
B	SER173
B	ASP175
B	ARG219
B	MG802
B	MG803

site_id	AC7
Number of Residues	4
Details	binding site for residue MG B 802

Chain	Residue
B	ASP128
B	ASP177
B	ARG219
B	ATP801

site_id	AC8
Number of Residues	6
Details	binding site for residue MG B 803

Chain	Residue
B	SER32
B	GLY34
B	GLY126
B	GLY127
B	GLY172
B	ATP801

site_id	AC9
Number of Residues	6
Details	binding site for residue PO4 B 804

Chain	Residue
B	GLY233
B	LYS264
B	ARG430
B	ARG434
B	GLY468
B	HOH902

site_id	AD1
Number of Residues	4
Details	binding site for residue PO4 B 805

Chain	Residue
B	ARG44
B	ARG48
B	SER83
B	SER84

site_id	AD2
Number of Residues	2
Details	binding site for residue CO B 806

Chain	Residue
B	ASP378
B	HOH907

site_id	AD3
Number of Residues	20
Details	binding site for residue ATP C 801

Chain	Residue
C	SER32
C	GLY33
C	GLY34
C	TYR64
C	ARG97
C	CYS98
C	PHE101
C	ARG102
C	GLY127
C	ASP128
C	GLY129
C	SER130
C	THR132
C	GLY133
C	SER173
C	ASP175
C	ASP177
C	ARG219
C	MG802
C	MG803

site_id	AD4
Number of Residues	4
Details	binding site for residue MG C 802

Chain	Residue
C	ASP128
C	ASP177
C	ARG219
C	ATP801

site_id	AD5
Number of Residues	7
Details	binding site for residue MG C 803

Chain	Residue
C	MET39
C	GLY126
C	GLY127
C	GLY172
C	ATP801
C	SER32
C	GLY34

site_id	AD6
Number of Residues	7
Details	binding site for residue PO4 C 804

Chain	Residue
C	GLY233
C	LYS264
C	ARG430
C	ARG434
C	GLY467
C	GLY468
C	THR470

site_id	AD7
Number of Residues	14
Details	binding site for residue ATP D 801

Chain	Residue
D	GLY34
D	TYR64
D	ARG97
D	CYS98
D	PHE101
D	GLY127
D	ASP128
D	GLY129
D	SER130
D	GLY133
D	SER173
D	ASP175
D	ARG219
D	MG802

site_id	AD8
Number of Residues	4
Details	binding site for residue MG D 802

Chain	Residue
D	ASP128
D	ASP177
D	ARG219
D	ATP801

site_id	AD9
Number of Residues	6
Details	binding site for residue PO4 D 803

Chain	Residue
D	GLY233
D	LYS264
D	ARG430
D	ARG434
D	GLY467
D	GLY468

site_id	AE1
Number of Residues	19
Details	binding site for residue ATP E 801

Chain	Residue
E	SER32
E	GLY33
E	GLY34
E	TYR64
E	ARG97
E	CYS98
E	PHE101
E	ARG102
E	GLY127
E	ASP128
E	GLY129
E	SER130
E	THR132
E	GLY133
E	SER173
E	ASP175
E	ARG219
E	MG802
E	MG803

site_id	AE2
Number of Residues	3
Details	binding site for residue MG E 802

Chain	Residue
E	ASP128
E	ASP177
E	ATP801

site_id	AE3
Number of Residues	6
Details	binding site for residue MG E 803

Chain	Residue
E	SER32
E	GLY34
E	GLY127
E	GLY172
E	SER173
E	ATP801

site_id	AE4
Number of Residues	6
Details	binding site for residue PO4 E 804

Chain	Residue
E	GLY233
E	LYS264
E	ARG430
E	ARG434
E	GLY467
E	GLY468

site_id	AE5
Number of Residues	19
Details	binding site for residue ATP F 801

Chain	Residue
F	GLY33
F	GLY34
F	TYR64
F	ARG97
F	CYS98
F	PHE101
F	ARG102
F	GLY127
F	ASP128
F	GLY129
F	SER130
F	THR132
F	GLY133
F	SER173
F	ASP175
F	ASP177
F	ARG219
F	MG802
F	MG803

site_id	AE6
Number of Residues	4
Details	binding site for residue MG F 802

Chain	Residue
F	ASP128
F	ASP177
F	ARG219
F	ATP801

site_id	AE7
Number of Residues	5
Details	binding site for residue MG F 803

Chain	Residue
F	SER32
F	GLY34
F	GLY127
F	GLY172
F	ATP801

site_id	AE8
Number of Residues	4
Details	binding site for residue PO4 F 804

Chain	Residue
F	ARG44
F	ARG48
F	SER83
F	SER84

site_id	AE9
Number of Residues	6
Details	binding site for residue PO4 F 805

Chain	Residue
F	GLY233
F	LYS264
F	ARG430
F	ARG434
F	GLY467
F	GLY468

site_id	AF1
Number of Residues	4
Details	binding site for residue CO F 806

Chain	Residue
B	HIS19
F	GLU489
F	LYS524
F	HIS525

site_id	AF2
Number of Residues	19
Details	binding site for residue ATP G 801

Chain	Residue
G	SER32
G	GLY33
G	GLY34
G	TYR64
G	ARG97
G	CYS98
G	PHE101
G	ARG102
G	GLY127
G	ASP128
G	GLY129
G	SER130
G	THR132
G	GLY133
G	SER173
G	ASP175
G	ARG219
G	MG802
G	MG803

site_id	AF3
Number of Residues	4
Details	binding site for residue MG G 802

Chain	Residue
G	ASP128
G	ASP177
G	ARG219
G	ATP801

site_id	AF4
Number of Residues	5
Details	binding site for residue MG G 803

Chain	Residue
G	SER32
G	GLY34
G	GLY127
G	GLY172
G	ATP801

site_id	AF5
Number of Residues	6
Details	binding site for residue PO4 G 804

Chain	Residue
G	GLY233
G	LYS264
G	ARG430
G	ARG434
G	GLY467
G	GLY468

site_id	AF6
Number of Residues	4
Details	binding site for residue PO4 G 805

Chain	Residue
G	ARG44
G	ARG48
G	SER83
G	SER84

site_id	AF7
Number of Residues	17
Details	binding site for residue ATP H 801

Chain	Residue
H	GLY33
H	GLY34
H	TYR64
H	ARG97
H	CYS98
H	PHE101
H	ARG102
H	GLY126
H	GLY127
H	ASP128
H	GLY129
H	SER130
H	SER173
H	ASP175
H	ARG219
H	MG802
H	MG803

site_id	AF8
Number of Residues	3
Details	binding site for residue MG H 802

Chain	Residue
H	ASP128
H	ARG219
H	ATP801

site_id	AF9
Number of Residues	7
Details	binding site for residue MG H 803

Chain	Residue
H	SER32
H	GLY34
H	GLY126
H	GLY127
H	GLY172
H	SER173
H	ATP801

site_id	AG1
Number of Residues	5
Details	binding site for residue PO4 H 804

Chain	Residue
H	GLY233
H	ARG430
H	ARG434
H	GLY467
H	GLY468

Functional Information from PROSITE/UniProt

site_id	PS00433
Number of Residues	19
Details	PHOSPHOFRUCTOKINASE Phosphofructokinase signature. RvtilGHvQRGGtpsafDR

Chain	Residue	Details
A	ARG301-ARG319
A	ARG665-ARG683

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	88
Details	Region: {"description":"Interdomain linker"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	8
Details	Active site: {"description":"Proton acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_03184","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	80
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_03184","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	160
Details	Binding site: {"description":"in other chain","evidences":[{"source":"HAMAP-Rule","id":"MF_03184","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	8
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	8
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P47860","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	8
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"33607258","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16964243","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"18691976","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	24
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	8
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"15592455","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	8
Details	Glycosylation: {"description":"O-linked (GlcNAc) serine","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

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