Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3OPV

Crystal structure of E. Coli purine nucleoside phosphorylase Arg24Ala mutant

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003824	molecular_function	catalytic activity
A	0004731	molecular_function	purine-nucleoside phosphorylase activity
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006139	biological_process	nucleobase-containing compound metabolic process
A	0006152	biological_process	purine nucleoside catabolic process
A	0006974	biological_process	DNA damage response
A	0009116	biological_process	nucleoside metabolic process
A	0009164	biological_process	nucleoside catabolic process
A	0016020	cellular_component	membrane
A	0016763	molecular_function	pentosyltransferase activity
A	0019686	biological_process	purine nucleoside interconversion
A	0042278	biological_process	purine nucleoside metabolic process
A	0042802	molecular_function	identical protein binding
A	0047975	molecular_function	guanosine phosphorylase activity
B	0003824	molecular_function	catalytic activity
B	0004731	molecular_function	purine-nucleoside phosphorylase activity
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0006139	biological_process	nucleobase-containing compound metabolic process
B	0006152	biological_process	purine nucleoside catabolic process
B	0006974	biological_process	DNA damage response
B	0009116	biological_process	nucleoside metabolic process
B	0009164	biological_process	nucleoside catabolic process
B	0016020	cellular_component	membrane
B	0016763	molecular_function	pentosyltransferase activity
B	0019686	biological_process	purine nucleoside interconversion
B	0042278	biological_process	purine nucleoside metabolic process
B	0042802	molecular_function	identical protein binding
B	0047975	molecular_function	guanosine phosphorylase activity
C	0003824	molecular_function	catalytic activity
C	0004731	molecular_function	purine-nucleoside phosphorylase activity
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006139	biological_process	nucleobase-containing compound metabolic process
C	0006152	biological_process	purine nucleoside catabolic process
C	0006974	biological_process	DNA damage response
C	0009116	biological_process	nucleoside metabolic process
C	0009164	biological_process	nucleoside catabolic process
C	0016020	cellular_component	membrane
C	0016763	molecular_function	pentosyltransferase activity
C	0019686	biological_process	purine nucleoside interconversion
C	0042278	biological_process	purine nucleoside metabolic process
C	0042802	molecular_function	identical protein binding
C	0047975	molecular_function	guanosine phosphorylase activity
D	0003824	molecular_function	catalytic activity
D	0004731	molecular_function	purine-nucleoside phosphorylase activity
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0006139	biological_process	nucleobase-containing compound metabolic process
D	0006152	biological_process	purine nucleoside catabolic process
D	0006974	biological_process	DNA damage response
D	0009116	biological_process	nucleoside metabolic process
D	0009164	biological_process	nucleoside catabolic process
D	0016020	cellular_component	membrane
D	0016763	molecular_function	pentosyltransferase activity
D	0019686	biological_process	purine nucleoside interconversion
D	0042278	biological_process	purine nucleoside metabolic process
D	0042802	molecular_function	identical protein binding
D	0047975	molecular_function	guanosine phosphorylase activity
E	0003824	molecular_function	catalytic activity
E	0004731	molecular_function	purine-nucleoside phosphorylase activity
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0006139	biological_process	nucleobase-containing compound metabolic process
E	0006152	biological_process	purine nucleoside catabolic process
E	0006974	biological_process	DNA damage response
E	0009116	biological_process	nucleoside metabolic process
E	0009164	biological_process	nucleoside catabolic process
E	0016020	cellular_component	membrane
E	0016763	molecular_function	pentosyltransferase activity
E	0019686	biological_process	purine nucleoside interconversion
E	0042278	biological_process	purine nucleoside metabolic process
E	0042802	molecular_function	identical protein binding
E	0047975	molecular_function	guanosine phosphorylase activity
F	0003824	molecular_function	catalytic activity
F	0004731	molecular_function	purine-nucleoside phosphorylase activity
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0006139	biological_process	nucleobase-containing compound metabolic process
F	0006152	biological_process	purine nucleoside catabolic process
F	0006974	biological_process	DNA damage response
F	0009116	biological_process	nucleoside metabolic process
F	0009164	biological_process	nucleoside catabolic process
F	0016020	cellular_component	membrane
F	0016763	molecular_function	pentosyltransferase activity
F	0019686	biological_process	purine nucleoside interconversion
F	0042278	biological_process	purine nucleoside metabolic process
F	0042802	molecular_function	identical protein binding
F	0047975	molecular_function	guanosine phosphorylase activity
G	0003824	molecular_function	catalytic activity
G	0004731	molecular_function	purine-nucleoside phosphorylase activity
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0006139	biological_process	nucleobase-containing compound metabolic process
G	0006152	biological_process	purine nucleoside catabolic process
G	0006974	biological_process	DNA damage response
G	0009116	biological_process	nucleoside metabolic process
G	0009164	biological_process	nucleoside catabolic process
G	0016020	cellular_component	membrane
G	0016763	molecular_function	pentosyltransferase activity
G	0019686	biological_process	purine nucleoside interconversion
G	0042278	biological_process	purine nucleoside metabolic process
G	0042802	molecular_function	identical protein binding
G	0047975	molecular_function	guanosine phosphorylase activity
H	0003824	molecular_function	catalytic activity
H	0004731	molecular_function	purine-nucleoside phosphorylase activity
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006139	biological_process	nucleobase-containing compound metabolic process
H	0006152	biological_process	purine nucleoside catabolic process
H	0006974	biological_process	DNA damage response
H	0009116	biological_process	nucleoside metabolic process
H	0009164	biological_process	nucleoside catabolic process
H	0016020	cellular_component	membrane
H	0016763	molecular_function	pentosyltransferase activity
H	0019686	biological_process	purine nucleoside interconversion
H	0042278	biological_process	purine nucleoside metabolic process
H	0042802	molecular_function	identical protein binding
H	0047975	molecular_function	guanosine phosphorylase activity
I	0003824	molecular_function	catalytic activity
I	0004731	molecular_function	purine-nucleoside phosphorylase activity
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006139	biological_process	nucleobase-containing compound metabolic process
I	0006152	biological_process	purine nucleoside catabolic process
I	0006974	biological_process	DNA damage response
I	0009116	biological_process	nucleoside metabolic process
I	0009164	biological_process	nucleoside catabolic process
I	0016020	cellular_component	membrane
I	0016763	molecular_function	pentosyltransferase activity
I	0019686	biological_process	purine nucleoside interconversion
I	0042278	biological_process	purine nucleoside metabolic process
I	0042802	molecular_function	identical protein binding
I	0047975	molecular_function	guanosine phosphorylase activity
J	0003824	molecular_function	catalytic activity
J	0004731	molecular_function	purine-nucleoside phosphorylase activity
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006139	biological_process	nucleobase-containing compound metabolic process
J	0006152	biological_process	purine nucleoside catabolic process
J	0006974	biological_process	DNA damage response
J	0009116	biological_process	nucleoside metabolic process
J	0009164	biological_process	nucleoside catabolic process
J	0016020	cellular_component	membrane
J	0016763	molecular_function	pentosyltransferase activity
J	0019686	biological_process	purine nucleoside interconversion
J	0042278	biological_process	purine nucleoside metabolic process
J	0042802	molecular_function	identical protein binding
J	0047975	molecular_function	guanosine phosphorylase activity
K	0003824	molecular_function	catalytic activity
K	0004731	molecular_function	purine-nucleoside phosphorylase activity
K	0005737	cellular_component	cytoplasm
K	0005829	cellular_component	cytosol
K	0006139	biological_process	nucleobase-containing compound metabolic process
K	0006152	biological_process	purine nucleoside catabolic process
K	0006974	biological_process	DNA damage response
K	0009116	biological_process	nucleoside metabolic process
K	0009164	biological_process	nucleoside catabolic process
K	0016020	cellular_component	membrane
K	0016763	molecular_function	pentosyltransferase activity
K	0019686	biological_process	purine nucleoside interconversion
K	0042278	biological_process	purine nucleoside metabolic process
K	0042802	molecular_function	identical protein binding
K	0047975	molecular_function	guanosine phosphorylase activity
L	0003824	molecular_function	catalytic activity
L	0004731	molecular_function	purine-nucleoside phosphorylase activity
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
L	0006139	biological_process	nucleobase-containing compound metabolic process
L	0006152	biological_process	purine nucleoside catabolic process
L	0006974	biological_process	DNA damage response
L	0009116	biological_process	nucleoside metabolic process
L	0009164	biological_process	nucleoside catabolic process
L	0016020	cellular_component	membrane
L	0016763	molecular_function	pentosyltransferase activity
L	0019686	biological_process	purine nucleoside interconversion
L	0042278	biological_process	purine nucleoside metabolic process
L	0042802	molecular_function	identical protein binding
L	0047975	molecular_function	guanosine phosphorylase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PO4 A 238

Chain	Residue
A	GLY20
A	ARG87
A	GLY89
A	SER90
A	HOH1369
D	ARG43

site_id	AC2
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PO4 B 238

Chain	Residue
B	SER90
B	HOH249
B	HOH293
E	ARG43
B	GLY20
B	ARG87
B	GLY89

site_id	AC3
Number of Residues	8
Details	BINDING SITE FOR RESIDUE PO4 C 238

Chain	Residue
C	GLY20
C	ARG87
C	VAL88
C	GLY89
C	SER90
C	HOH266
C	HOH1305
F	ARG43

site_id	AC4
Number of Residues	9
Details	BINDING SITE FOR RESIDUE PO4 D 238

Chain	Residue
A	ARG43
D	GLY20
D	ARG87
D	VAL88
D	GLY89
D	SER90
D	HOH268
D	HOH302
D	HOH1117

site_id	AC5
Number of Residues	8
Details	BINDING SITE FOR RESIDUE PO4 E 238

Chain	Residue
B	ARG43
E	GLY20
E	ARG87
E	GLY89
E	SER90
E	HOH277
E	HOH766
E	HOH809

site_id	AC6
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PO4 F 238

Chain	Residue
C	ARG43
F	GLY20
F	ARG87
F	GLY89
F	SER90
F	HOH304
F	HOH963

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PO4 G 238

Chain	Residue
G	GLY20
G	ARG87
G	GLY89
G	SER90
G	HOH317
J	ARG43

site_id	AC8
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PO4 H 238

Chain	Residue
H	GLY20
H	ARG87
H	GLY89
H	SER90
H	HOH350
H	HOH771
K	ARG43

site_id	AC9
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PO4 I 238

Chain	Residue
I	GLY20
I	ARG87
I	GLY89
I	SER90
I	HOH484
I	HOH1071
L	ARG43

site_id	BC1
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PO4 J 238

Chain	Residue
G	ARG43
J	GLY20
J	ARG87
J	GLY89
J	SER90
J	HOH503
J	HOH965

site_id	BC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE PO4 K 238

Chain	Residue
H	ARG43
K	GLY20
K	ARG87
K	GLY89
K	SER90
K	HOH561
K	HOH564
K	HOH575

site_id	BC3
Number of Residues	8
Details	BINDING SITE FOR RESIDUE PO4 L 238

Chain	Residue
I	ARG43
L	GLY20
L	ARG87
L	GLY89
L	SER90
L	HOH639
L	HOH904
L	HOH905

site_id	BC4
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PO4 L 239

Chain	Residue
K	PRO96
K	GLU171
K	ARG207
L	GLY164
L	GLU165
L	HOH1217

site_id	BC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PO4 L 240

Chain	Residue
D	LYS53
D	LYS226
L	ARG101
L	HOH656

Functional Information from PROSITE/UniProt

site_id	PS01232
Number of Residues	16
Details	PNP_UDP_1 Purine and other phosphorylases family 1 signature. GhGMGiPScSIytkEL

Chain	Residue	Details
A	GLY61-LEU76

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	12
Details	Active site: {"description":"Proton donor","evidences":[{"source":"HAMAP-Rule","id":"MF_01627","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"30337572","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"PubMed","id":"30337572","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"4TS3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TS9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTA","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTJ","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	60
Details	Binding site: {"description":"in other chain","evidences":[{"source":"PubMed","id":"11786017","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21672603","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30337572","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1K9S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3ONV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3OOE","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3OOH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3OPV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TS3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TS9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTA","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTJ","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"PubMed","id":"11786017","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21672603","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30337572","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1K9S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3ONV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3OOE","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3OOH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3OPV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TS3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TS9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTA","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTJ","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	36
Details	Binding site: {"description":"in other chain","evidences":[{"source":"PubMed","id":"30337572","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"4TS3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TS9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTA","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4TTJ","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	12
Details	Site: {"description":"Important for catalytic activity","evidences":[{"source":"HAMAP-Rule","id":"MF_01627","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"21672603","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30337572","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	12
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
A	GLY20	electrostatic stabiliser
A	ALA24	electrostatic stabiliser
A	ARG43	electrostatic stabiliser
A	ARG87	electrostatic stabiliser
A	SER90	electrostatic stabiliser
A	ASP204	proton shuttle (general acid/base)
A	ARG217	enhance reactivity

site_id	MCSA10
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
J	GLY20	electrostatic stabiliser
J	ALA24	electrostatic stabiliser
J	ARG43	electrostatic stabiliser
J	ARG87	electrostatic stabiliser
J	SER90	electrostatic stabiliser
J	ASP204	proton shuttle (general acid/base)
J	ARG217	enhance reactivity

site_id	MCSA11
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
K	GLY20	electrostatic stabiliser
K	ALA24	electrostatic stabiliser
K	ARG43	electrostatic stabiliser
K	ARG87	electrostatic stabiliser
K	SER90	electrostatic stabiliser
K	ASP204	proton shuttle (general acid/base)
K	ARG217	enhance reactivity

site_id	MCSA12
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
L	GLY20	electrostatic stabiliser
L	ALA24	electrostatic stabiliser
L	ARG43	electrostatic stabiliser
L	ARG87	electrostatic stabiliser
L	SER90	electrostatic stabiliser
L	ASP204	proton shuttle (general acid/base)
L	ARG217	enhance reactivity

site_id	MCSA2
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
B	GLY20	electrostatic stabiliser
B	ALA24	electrostatic stabiliser
B	ARG43	electrostatic stabiliser
B	ARG87	electrostatic stabiliser
B	SER90	electrostatic stabiliser
B	ASP204	proton shuttle (general acid/base)
B	ARG217	enhance reactivity

site_id	MCSA3
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
C	GLY20	electrostatic stabiliser
C	ALA24	electrostatic stabiliser
C	ARG43	electrostatic stabiliser
C	ARG87	electrostatic stabiliser
C	SER90	electrostatic stabiliser
C	ASP204	proton shuttle (general acid/base)
C	ARG217	enhance reactivity

site_id	MCSA4
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
D	GLY20	electrostatic stabiliser
D	ALA24	electrostatic stabiliser
D	ARG43	electrostatic stabiliser
D	ARG87	electrostatic stabiliser
D	SER90	electrostatic stabiliser
D	ASP204	proton shuttle (general acid/base)
D	ARG217	enhance reactivity

site_id	MCSA5
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
E	GLY20	electrostatic stabiliser
E	ALA24	electrostatic stabiliser
E	ARG43	electrostatic stabiliser
E	ARG87	electrostatic stabiliser
E	SER90	electrostatic stabiliser
E	ASP204	proton shuttle (general acid/base)
E	ARG217	enhance reactivity

site_id	MCSA6
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
F	GLY20	electrostatic stabiliser
F	ALA24	electrostatic stabiliser
F	ARG43	electrostatic stabiliser
F	ARG87	electrostatic stabiliser
F	SER90	electrostatic stabiliser
F	ASP204	proton shuttle (general acid/base)
F	ARG217	enhance reactivity

site_id	MCSA7
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
G	GLY20	electrostatic stabiliser
G	ALA24	electrostatic stabiliser
G	ARG43	electrostatic stabiliser
G	ARG87	electrostatic stabiliser
G	SER90	electrostatic stabiliser
G	ASP204	proton shuttle (general acid/base)
G	ARG217	enhance reactivity

site_id	MCSA8
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
H	GLY20	electrostatic stabiliser
H	ALA24	electrostatic stabiliser
H	ARG43	electrostatic stabiliser
H	ARG87	electrostatic stabiliser
H	SER90	electrostatic stabiliser
H	ASP204	proton shuttle (general acid/base)
H	ARG217	enhance reactivity

site_id	MCSA9
Number of Residues	7
Details	M-CSA 375

Chain	Residue	Details
I	GLY20	electrostatic stabiliser
I	ALA24	electrostatic stabiliser
I	ARG43	electrostatic stabiliser
I	ARG87	electrostatic stabiliser
I	SER90	electrostatic stabiliser
I	ASP204	proton shuttle (general acid/base)
I	ARG217	enhance reactivity

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