Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

2VP9

Structural Studies of Nucleoside Analog and Feedback Inhibitor Binding to Drosophila Melanogaster Multisubstrate Deoxyribonucleoside Kinase

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 A1209

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 B1209

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 D1209

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

site_id	AC4
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 F1209

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

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 C1209

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

site_id	AC6
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 H1209

Chain	Residue
H	GLY30
H	SER31
H	GLY32
H	LYS33
H	THR34
H	ARG167

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 E1209

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

site_id	AC8
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 G1209

Chain	Residue
G	ASN28
G	ILE29
G	GLY30
G	SER31
G	GLY32
G	LYS33
G	THR34
G	ARG167

site_id	AC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE SO4 A1210

Chain	Residue
A	ARG169
H	ARG169

site_id	BC1
Number of Residues	11
Details	BINDING SITE FOR RESIDUE DOC A1211

Chain	Residue
A	ILE29
A	GLU52
A	TRP57
A	MET69
A	TYR70
A	PHE80
A	GLN81
A	VAL84
A	ARG105
A	ALA110
A	PHE114

site_id	BC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE DOC B1210

Chain	Residue
B	GLU52
B	TRP57
B	MET69
B	TYR70
B	GLN81
B	ARG105
B	PHE114
B	GLU172

site_id	BC3
Number of Residues	10
Details	BINDING SITE FOR RESIDUE DOC D1210

Chain	Residue
D	GLU52
D	TRP57
D	LEU66
D	MET69
D	TYR70
D	PHE80
D	GLN81
D	ARG105
D	PHE114
D	GLU172

site_id	BC4
Number of Residues	10
Details	BINDING SITE FOR RESIDUE DOC C1210

Chain	Residue
C	ILE29
C	GLU52
C	MET69
C	PHE80
C	GLN81
C	VAL84
C	ARG105
C	ALA110
C	PHE114
C	HOH2004

site_id	BC5
Number of Residues	9
Details	BINDING SITE FOR RESIDUE DOC F1210

Chain	Residue
F	GLN81
F	ARG105
F	ALA110
F	PHE114
F	GLU172
F	GLU52
F	MET69
F	TYR70
F	PHE80

site_id	BC6
Number of Residues	10
Details	BINDING SITE FOR RESIDUE DOC G1210

Chain	Residue
G	GLU52
G	TRP57
G	MET69
G	TYR70
G	PHE80
G	GLN81
G	VAL84
G	ARG105
G	ALA110
G	PHE114

site_id	BC7
Number of Residues	9
Details	BINDING SITE FOR RESIDUE DOC H1210

Chain	Residue
H	ILE29
H	GLU52
H	MET69
H	PHE80
H	GLN81
H	VAL84
H	ARG105
H	ALA110
H	PHE114

site_id	BC8
Number of Residues	10
Details	BINDING SITE FOR RESIDUE DOC E1210

Chain	Residue
E	ILE29
E	GLU52
E	MET69
E	PHE80
E	GLN81
E	VAL84
E	ARG105
E	PHE114
E	GLU172
E	HOH2016

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	40
Details	Binding site: {}

Chain

Residue

Details

Catalytic Information from CSA

site_id	CSA1
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
A	GLY30
A	ARG169
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	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
B	GLY30
B	ARG169
B	GLU52
B	ARG105

site_id	CSA3
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
C	GLY30
C	ARG169
C	GLU52
C	ARG105

site_id	CSA4
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
D	GLY30
D	ARG169
D	GLU52
D	ARG105

site_id	CSA5
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
E	GLY30
E	ARG169
E	GLU52
E	ARG105

site_id	CSA6
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
F	GLY30
F	ARG169
F	GLU52
F	ARG105

site_id	CSA7
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
G	GLY30
G	ARG169
G	GLU52
G	ARG105

site_id	CSA8
Number of Residues	4
Details	Annotated By Reference To The Literature 1kim

Chain	Residue	Details
H	GLY30
H	ARG169
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

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