Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4R2W

X-ray structure of uridine phosphorylase from Shewanella oneidensis MR-1 in complex with uridine at 1.6 A resolution

Replaces: 4HER

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003824	molecular_function	catalytic activity
A	0004850	molecular_function	uridine phosphorylase activity
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0009116	biological_process	nucleoside metabolic process
A	0009164	biological_process	nucleoside catabolic process
A	0009166	biological_process	nucleotide catabolic process
A	0016757	molecular_function	glycosyltransferase activity
A	0016763	molecular_function	pentosyltransferase activity
A	0044206	biological_process	UMP salvage
A	0047847	molecular_function	deoxyuridine phosphorylase activity
B	0003824	molecular_function	catalytic activity
B	0004850	molecular_function	uridine phosphorylase activity
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0009116	biological_process	nucleoside metabolic process
B	0009164	biological_process	nucleoside catabolic process
B	0009166	biological_process	nucleotide catabolic process
B	0016757	molecular_function	glycosyltransferase activity
B	0016763	molecular_function	pentosyltransferase activity
B	0044206	biological_process	UMP salvage
B	0047847	molecular_function	deoxyuridine phosphorylase activity
C	0003824	molecular_function	catalytic activity
C	0004850	molecular_function	uridine phosphorylase activity
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0009116	biological_process	nucleoside metabolic process
C	0009164	biological_process	nucleoside catabolic process
C	0009166	biological_process	nucleotide catabolic process
C	0016757	molecular_function	glycosyltransferase activity
C	0016763	molecular_function	pentosyltransferase activity
C	0044206	biological_process	UMP salvage
C	0047847	molecular_function	deoxyuridine phosphorylase activity
D	0003824	molecular_function	catalytic activity
D	0004850	molecular_function	uridine phosphorylase activity
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0009116	biological_process	nucleoside metabolic process
D	0009164	biological_process	nucleoside catabolic process
D	0009166	biological_process	nucleotide catabolic process
D	0016757	molecular_function	glycosyltransferase activity
D	0016763	molecular_function	pentosyltransferase activity
D	0044206	biological_process	UMP salvage
D	0047847	molecular_function	deoxyuridine phosphorylase activity
E	0003824	molecular_function	catalytic activity
E	0004850	molecular_function	uridine phosphorylase activity
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0009116	biological_process	nucleoside metabolic process
E	0009164	biological_process	nucleoside catabolic process
E	0009166	biological_process	nucleotide catabolic process
E	0016757	molecular_function	glycosyltransferase activity
E	0016763	molecular_function	pentosyltransferase activity
E	0044206	biological_process	UMP salvage
E	0047847	molecular_function	deoxyuridine phosphorylase activity
F	0003824	molecular_function	catalytic activity
F	0004850	molecular_function	uridine phosphorylase activity
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0009116	biological_process	nucleoside metabolic process
F	0009164	biological_process	nucleoside catabolic process
F	0009166	biological_process	nucleotide catabolic process
F	0016757	molecular_function	glycosyltransferase activity
F	0016763	molecular_function	pentosyltransferase activity
F	0044206	biological_process	UMP salvage
F	0047847	molecular_function	deoxyuridine phosphorylase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 A 301

Chain	Residue
A	ARG175
C	ARG175
E	ARG175

site_id	AC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 A 302

Chain	Residue
A	GOL303
B	ARG45
A	GLY23
A	ARG27
A	ARG88
A	VAL89
A	GLY90
A	THR91

site_id	AC3
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL A 303

Chain	Residue
A	ARG88
A	THR91
A	GLU193
A	MET194
A	GLU195
A	SO4302
A	HOH423
A	HOH460

site_id	AC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 B 301

Chain	Residue
A	ARG45
B	GLY23
B	ARG27
B	ARG88
B	VAL89
B	GLY90
B	THR91
B	HOH501

site_id	AC5
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL B 302

Chain	Residue
B	ASN130
B	ALA204
B	HOH513
B	HOH555
B	HOH573
B	HOH577
E	HOH435

site_id	AC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 C 301

Chain	Residue
C	GLY23
C	ARG27
C	ARG88
C	VAL89
C	GLY90
C	THR91
C	GOL302
D	ARG45

site_id	AC7
Number of Residues	10
Details	BINDING SITE FOR RESIDUE GOL C 302

Chain	Residue
C	ILE66
C	ARG88
C	THR91
C	GLU193
C	MET194
C	GLU195
C	SO4301
C	HOH459
C	HOH513
C	HOH514

site_id	AC8
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 D 301

Chain	Residue
C	ARG45
D	GLY23
D	ARG27
D	ARG88
D	VAL89
D	GLY90
D	THR91
D	GOL302

site_id	AC9
Number of Residues	11
Details	BINDING SITE FOR RESIDUE GOL D 302

Chain	Residue
C	ARG45
D	ILE66
D	ARG88
D	THR91
D	GLU193
D	MET194
D	GLU195
D	SO4301
D	HOH402
D	HOH494
D	HOH506

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL D 303

Chain	Residue
A	HOH496
D	ASN130
D	ALA204
D	HOH401
D	HOH416
D	HOH430

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 E 301

Chain	Residue
E	GLY23
E	ARG88
E	THR91
E	HOH476
F	ARG45

site_id	BC3
Number of Residues	15
Details	BINDING SITE FOR RESIDUE URI F 301

Chain	Residue
E	HIS5
F	ILE66
F	ARG88
F	THR91
F	THR92
F	GLY93
F	PHE159
F	GLN163
F	ARG165
F	TYR192
F	GLU193
F	MET194
F	GLU195
F	SO4303
F	HOH452

site_id	BC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 F 302

Chain	Residue
F	ARG175
B	ARG175
D	ARG175

site_id	BC5
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 F 303

Chain	Residue
E	ARG45
F	GLY23
F	ARG27
F	ARG88
F	VAL89
F	GLY90
F	THR91
F	URI301

site_id	BC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL F 304

Chain	Residue
C	HOH462
C	HOH516
F	ASN130
F	ALA204
F	HOH420

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
A	SER63-LEU78

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