1ZMX

Crystal structure of D. melanogaster deoxyribonucleoside kinase N64D mutant in complex with thymidine

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0004136	molecular_function	deoxyadenosine kinase activity
A	0004137	molecular_function	deoxycytidine kinase activity
A	0004138	molecular_function	deoxyguanosine kinase activity
A	0004797	molecular_function	thymidine kinase activity
A	0004849	molecular_function	uridine kinase activity
A	0005524	molecular_function	ATP binding
A	0005737	cellular_component	cytoplasm
A	0005739	cellular_component	mitochondrion
A	0006139	biological_process	nucleobase-containing compound metabolic process
A	0006170	biological_process	dAMP biosynthetic process
A	0006222	biological_process	UMP biosynthetic process
A	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
A	0009224	biological_process	CMP biosynthetic process
A	0016301	molecular_function	kinase activity
A	0016740	molecular_function	transferase activity
A	0019136	molecular_function	deoxynucleoside kinase activity
A	0043174	biological_process	nucleoside salvage
A	0043771	molecular_function	cytidine kinase activity
A	0071897	biological_process	DNA biosynthetic process
A	1901293	biological_process	nucleoside phosphate biosynthetic process
B	0000166	molecular_function	nucleotide binding
B	0004136	molecular_function	deoxyadenosine kinase activity
B	0004137	molecular_function	deoxycytidine kinase activity
B	0004138	molecular_function	deoxyguanosine kinase activity
B	0004797	molecular_function	thymidine kinase activity
B	0004849	molecular_function	uridine kinase activity
B	0005524	molecular_function	ATP binding
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0006139	biological_process	nucleobase-containing compound metabolic process
B	0006170	biological_process	dAMP biosynthetic process
B	0006222	biological_process	UMP biosynthetic process
B	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
B	0009224	biological_process	CMP biosynthetic process
B	0016301	molecular_function	kinase activity
B	0016740	molecular_function	transferase activity
B	0019136	molecular_function	deoxynucleoside kinase activity
B	0043174	biological_process	nucleoside salvage
B	0043771	molecular_function	cytidine kinase activity
B	0071897	biological_process	DNA biosynthetic process
B	1901293	biological_process	nucleoside phosphate biosynthetic process
C	0000166	molecular_function	nucleotide binding
C	0004136	molecular_function	deoxyadenosine kinase activity
C	0004137	molecular_function	deoxycytidine kinase activity
C	0004138	molecular_function	deoxyguanosine kinase activity
C	0004797	molecular_function	thymidine kinase activity
C	0004849	molecular_function	uridine kinase activity
C	0005524	molecular_function	ATP binding
C	0005737	cellular_component	cytoplasm
C	0005739	cellular_component	mitochondrion
C	0006139	biological_process	nucleobase-containing compound metabolic process
C	0006170	biological_process	dAMP biosynthetic process
C	0006222	biological_process	UMP biosynthetic process
C	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
C	0009224	biological_process	CMP biosynthetic process
C	0016301	molecular_function	kinase activity
C	0016740	molecular_function	transferase activity
C	0019136	molecular_function	deoxynucleoside kinase activity
C	0043174	biological_process	nucleoside salvage
C	0043771	molecular_function	cytidine kinase activity
C	0071897	biological_process	DNA biosynthetic process
C	1901293	biological_process	nucleoside phosphate biosynthetic process
D	0000166	molecular_function	nucleotide binding
D	0004136	molecular_function	deoxyadenosine kinase activity
D	0004137	molecular_function	deoxycytidine kinase activity
D	0004138	molecular_function	deoxyguanosine kinase activity
D	0004797	molecular_function	thymidine kinase activity
D	0004849	molecular_function	uridine kinase activity
D	0005524	molecular_function	ATP binding
D	0005737	cellular_component	cytoplasm
D	0005739	cellular_component	mitochondrion
D	0006139	biological_process	nucleobase-containing compound metabolic process
D	0006170	biological_process	dAMP biosynthetic process
D	0006222	biological_process	UMP biosynthetic process
D	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
D	0009224	biological_process	CMP biosynthetic process
D	0016301	molecular_function	kinase activity
D	0016740	molecular_function	transferase activity
D	0019136	molecular_function	deoxynucleoside kinase activity
D	0043174	biological_process	nucleoside salvage
D	0043771	molecular_function	cytidine kinase activity
D	0071897	biological_process	DNA biosynthetic process
D	1901293	biological_process	nucleoside phosphate biosynthetic process
E	0000166	molecular_function	nucleotide binding
E	0004136	molecular_function	deoxyadenosine kinase activity
E	0004137	molecular_function	deoxycytidine kinase activity
E	0004138	molecular_function	deoxyguanosine kinase activity
E	0004797	molecular_function	thymidine kinase activity
E	0004849	molecular_function	uridine kinase activity
E	0005524	molecular_function	ATP binding
E	0005737	cellular_component	cytoplasm
E	0005739	cellular_component	mitochondrion
E	0006139	biological_process	nucleobase-containing compound metabolic process
E	0006170	biological_process	dAMP biosynthetic process
E	0006222	biological_process	UMP biosynthetic process
E	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
E	0009224	biological_process	CMP biosynthetic process
E	0016301	molecular_function	kinase activity
E	0016740	molecular_function	transferase activity
E	0019136	molecular_function	deoxynucleoside kinase activity
E	0043174	biological_process	nucleoside salvage
E	0043771	molecular_function	cytidine kinase activity
E	0071897	biological_process	DNA biosynthetic process
E	1901293	biological_process	nucleoside phosphate biosynthetic process
F	0000166	molecular_function	nucleotide binding
F	0004136	molecular_function	deoxyadenosine kinase activity
F	0004137	molecular_function	deoxycytidine kinase activity
F	0004138	molecular_function	deoxyguanosine kinase activity
F	0004797	molecular_function	thymidine kinase activity
F	0004849	molecular_function	uridine kinase activity
F	0005524	molecular_function	ATP binding
F	0005737	cellular_component	cytoplasm
F	0005739	cellular_component	mitochondrion
F	0006139	biological_process	nucleobase-containing compound metabolic process
F	0006170	biological_process	dAMP biosynthetic process
F	0006222	biological_process	UMP biosynthetic process
F	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
F	0009224	biological_process	CMP biosynthetic process
F	0016301	molecular_function	kinase activity
F	0016740	molecular_function	transferase activity
F	0019136	molecular_function	deoxynucleoside kinase activity
F	0043174	biological_process	nucleoside salvage
F	0043771	molecular_function	cytidine kinase activity
F	0071897	biological_process	DNA biosynthetic process
F	1901293	biological_process	nucleoside phosphate biosynthetic process
G	0000166	molecular_function	nucleotide binding
G	0004136	molecular_function	deoxyadenosine kinase activity
G	0004137	molecular_function	deoxycytidine kinase activity
G	0004138	molecular_function	deoxyguanosine kinase activity
G	0004797	molecular_function	thymidine kinase activity
G	0004849	molecular_function	uridine kinase activity
G	0005524	molecular_function	ATP binding
G	0005737	cellular_component	cytoplasm
G	0005739	cellular_component	mitochondrion
G	0006139	biological_process	nucleobase-containing compound metabolic process
G	0006170	biological_process	dAMP biosynthetic process
G	0006222	biological_process	UMP biosynthetic process
G	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
G	0009224	biological_process	CMP biosynthetic process
G	0016301	molecular_function	kinase activity
G	0016740	molecular_function	transferase activity
G	0019136	molecular_function	deoxynucleoside kinase activity
G	0043174	biological_process	nucleoside salvage
G	0043771	molecular_function	cytidine kinase activity
G	0071897	biological_process	DNA biosynthetic process
G	1901293	biological_process	nucleoside phosphate biosynthetic process
H	0000166	molecular_function	nucleotide binding
H	0004136	molecular_function	deoxyadenosine kinase activity
H	0004137	molecular_function	deoxycytidine kinase activity
H	0004138	molecular_function	deoxyguanosine kinase activity
H	0004797	molecular_function	thymidine kinase activity
H	0004849	molecular_function	uridine kinase activity
H	0005524	molecular_function	ATP binding
H	0005737	cellular_component	cytoplasm
H	0005739	cellular_component	mitochondrion
H	0006139	biological_process	nucleobase-containing compound metabolic process
H	0006170	biological_process	dAMP biosynthetic process
H	0006222	biological_process	UMP biosynthetic process
H	0009157	biological_process	deoxyribonucleoside monophosphate biosynthetic process
H	0009224	biological_process	CMP biosynthetic process
H	0016301	molecular_function	kinase activity
H	0016740	molecular_function	transferase activity
H	0019136	molecular_function	deoxynucleoside kinase activity
H	0043174	biological_process	nucleoside salvage
H	0043771	molecular_function	cytidine kinase activity
H	0071897	biological_process	DNA biosynthetic process
H	1901293	biological_process	nucleoside phosphate biosynthetic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 A 1300

Chain	Residue
A	ASN28
A	GLY30
A	SER31
A	GLY32
A	LYS33
A	THR34
A	ARG167

---

site_id	AC2
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 B 1301

Chain	Residue
B	SER31
B	GLY32
B	LYS33
B	THR34
B	ARG167
B	ASN28
B	GLY30

---

site_id	AC3
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 G 1302

Chain	Residue
G	ASN28
G	GLY30
G	SER31
G	GLY32
G	LYS33
G	THR34
G	ARG167

---

site_id	AC4
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 H 1303

Chain	Residue
H	ILE29
H	GLY30
H	SER31
H	GLY32
H	LYS33
H	THR34

---

site_id	AC5
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 E 1304

Chain	Residue
E	ASN28
E	GLY30
E	SER31
E	GLY32
E	LYS33
E	THR34
E	ARG167

---

site_id	AC6
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 F 1305

Chain	Residue
F	ASN28
F	GLY30
F	SER31
F	GLY32
F	LYS33
F	THR34
F	ARG167

---

site_id	AC7
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 C 1306

Chain	Residue
C	ASN28
C	GLY30
C	SER31
C	GLY32
C	LYS33
C	THR34
C	ARG167

---

site_id	AC8
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 D 1307

Chain	Residue
D	ASN28
D	GLY30
D	SER31
D	GLY32
D	LYS33
D	THR34
D	ARG167

---

site_id	AC9
Number of Residues	11
Details	BINDING SITE FOR RESIDUE THM A 1400

Chain	Residue
A	ILE29
A	GLU52
A	TRP57
A	TYR70
A	PHE80
A	GLN81
A	VAL84
A	MET88
A	ARG105
A	ALA110
A	PHE114

---

site_id	BC1
Number of Residues	9
Details	BINDING SITE FOR RESIDUE THM B 1401

Chain	Residue
B	ILE29
B	GLU52
B	TRP57
B	TYR70
B	PHE80
B	GLN81
B	ARG105
B	ALA110
B	PHE114

---

site_id	BC2
Number of Residues	9
Details	BINDING SITE FOR RESIDUE THM G 1402

Chain	Residue
G	ILE29
G	GLU52
G	TRP57
G	TYR70
G	PHE80
G	GLN81
G	ARG105
G	ALA110
G	PHE114

---

site_id	BC3
Number of Residues	8
Details	BINDING SITE FOR RESIDUE THM H 1403

Chain	Residue
H	GLU52
H	TRP57
H	TYR70
H	PHE80
H	GLN81
H	ARG105
H	ALA110
H	PHE114

---

site_id	BC4
Number of Residues	10
Details	BINDING SITE FOR RESIDUE THM E 1404

Chain	Residue
E	ARG105
E	ALA110
E	PHE114
E	ILE29
E	GLU52
E	TRP57
E	TYR70
E	PHE80
E	GLN81
E	VAL84

---

site_id	BC5
Number of Residues	10
Details	BINDING SITE FOR RESIDUE THM F 1405

Chain	Residue
F	ILE29
F	GLU52
F	TRP57
F	TYR70
F	PHE80
F	GLN81
F	VAL84
F	ARG105
F	ALA110
F	PHE114

---

site_id	BC6
Number of Residues	11
Details	BINDING SITE FOR RESIDUE THM C 1406

Chain	Residue
C	ILE29
C	GLU52
C	TRP57
C	LEU66
C	TYR70
C	PHE80
C	GLN81
C	VAL84
C	ARG105
C	ALA110
C	PHE114

---

site_id	BC7
Number of Residues	11
Details	BINDING SITE FOR RESIDUE THM D 1407

Chain	Residue
D	ILE29
D	GLU52
D	TRP57
D	TYR70
D	PHE80
D	GLN81
D	VAL84
D	ARG105
D	ALA110
D	PHE114
D	MET118

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	Active site: {"description":"Proton acceptor","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	64
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	32
Details	Binding site: {}

Chain

Residue

Details

---

Catalytic Information from CSA

site_id	CSA1
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
A	GLY30
A	GLU52
A	ARG105

---

site_id	CSA10
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
B	GLU52
B	ARG105

---

site_id	CSA11
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
C	GLU52
C	ARG105

---

site_id	CSA12
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
D	GLU52
D	ARG105

---

site_id	CSA13
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
E	GLU52
E	ARG105

---

site_id	CSA14
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
F	GLU52
F	ARG105

---

site_id	CSA15
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
G	GLU52
G	ARG105

---

site_id	CSA16
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
H	GLU52
H	ARG105

---

site_id	CSA2
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
B	GLY30
B	GLU52
B	ARG105

---

site_id	CSA3
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
C	GLY30
C	GLU52
C	ARG105

---

site_id	CSA4
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
D	GLY30
D	GLU52
D	ARG105

---

site_id	CSA5
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
E	GLY30
E	GLU52
E	ARG105

---

site_id	CSA6
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
F	GLY30
F	GLU52
F	ARG105

---

site_id	CSA7
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
G	GLY30
G	GLU52
G	ARG105

---

site_id	CSA8
Number of Residues	3
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
H	GLY30
H	GLU52
H	ARG105

---

site_id	CSA9
Number of Residues	2
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
A	GLU52
A	ARG105

---