5MX6
Crystal structure of H. pylori purine nucleoside phosphorylase from clinical isolate HpPNP-2
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0003824 | molecular_function | catalytic activity |
A | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
A | 0005829 | cellular_component | cytosol |
A | 0006139 | biological_process | nucleobase-containing compound metabolic process |
A | 0006152 | biological_process | purine nucleoside catabolic process |
A | 0009116 | biological_process | nucleoside metabolic process |
A | 0009164 | biological_process | nucleoside catabolic process |
A | 0016757 | molecular_function | glycosyltransferase activity |
A | 0016763 | molecular_function | pentosyltransferase activity |
B | 0003824 | molecular_function | catalytic activity |
B | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
B | 0005829 | cellular_component | cytosol |
B | 0006139 | biological_process | nucleobase-containing compound metabolic process |
B | 0006152 | biological_process | purine nucleoside catabolic process |
B | 0009116 | biological_process | nucleoside metabolic process |
B | 0009164 | biological_process | nucleoside catabolic process |
B | 0016757 | molecular_function | glycosyltransferase activity |
B | 0016763 | molecular_function | pentosyltransferase activity |
C | 0003824 | molecular_function | catalytic activity |
C | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
C | 0005829 | cellular_component | cytosol |
C | 0006139 | biological_process | nucleobase-containing compound metabolic process |
C | 0006152 | biological_process | purine nucleoside catabolic process |
C | 0009116 | biological_process | nucleoside metabolic process |
C | 0009164 | biological_process | nucleoside catabolic process |
C | 0016757 | molecular_function | glycosyltransferase activity |
C | 0016763 | molecular_function | pentosyltransferase activity |
D | 0003824 | molecular_function | catalytic activity |
D | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
D | 0005829 | cellular_component | cytosol |
D | 0006139 | biological_process | nucleobase-containing compound metabolic process |
D | 0006152 | biological_process | purine nucleoside catabolic process |
D | 0009116 | biological_process | nucleoside metabolic process |
D | 0009164 | biological_process | nucleoside catabolic process |
D | 0016757 | molecular_function | glycosyltransferase activity |
D | 0016763 | molecular_function | pentosyltransferase activity |
E | 0003824 | molecular_function | catalytic activity |
E | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
E | 0005829 | cellular_component | cytosol |
E | 0006139 | biological_process | nucleobase-containing compound metabolic process |
E | 0006152 | biological_process | purine nucleoside catabolic process |
E | 0009116 | biological_process | nucleoside metabolic process |
E | 0009164 | biological_process | nucleoside catabolic process |
E | 0016757 | molecular_function | glycosyltransferase activity |
E | 0016763 | molecular_function | pentosyltransferase activity |
F | 0003824 | molecular_function | catalytic activity |
F | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
F | 0005829 | cellular_component | cytosol |
F | 0006139 | biological_process | nucleobase-containing compound metabolic process |
F | 0006152 | biological_process | purine nucleoside catabolic process |
F | 0009116 | biological_process | nucleoside metabolic process |
F | 0009164 | biological_process | nucleoside catabolic process |
F | 0016757 | molecular_function | glycosyltransferase activity |
F | 0016763 | molecular_function | pentosyltransferase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 6 |
Details | binding site for residue SO4 A 301 |
Chain | Residue |
A | CYS19 |
A | GLY20 |
A | ARG87 |
A | GLY89 |
A | THR90 |
D | ARG43 |
site_id | AC2 |
Number of Residues | 8 |
Details | binding site for residue HPA A 302 |
Chain | Residue |
A | PHE159 |
A | ILE178 |
A | GLU179 |
A | ASP204 |
A | LEU206 |
A | THR90 |
A | CYS91 |
A | GLY92 |
site_id | AC3 |
Number of Residues | 4 |
Details | binding site for residue SO4 A 303 |
Chain | Residue |
A | GLN34 |
A | ASP35 |
A | ALA36 |
A | HOH457 |
site_id | AC4 |
Number of Residues | 3 |
Details | binding site for residue ACT A 304 |
Chain | Residue |
A | LYS78 |
A | GLU191 |
D | PHE162 |
site_id | AC5 |
Number of Residues | 11 |
Details | binding site for residue PEG A 305 |
Chain | Residue |
A | ASN122 |
A | HOH441 |
A | HOH454 |
B | ASN122 |
C | ASN122 |
C | HOH416 |
D | ASN122 |
E | ASN122 |
E | HOH417 |
F | ASN122 |
F | HOH405 |
site_id | AC6 |
Number of Residues | 8 |
Details | binding site for residue SO4 B 301 |
Chain | Residue |
B | CYS19 |
B | GLY20 |
B | ASP21 |
B | ARG87 |
B | GLY89 |
B | THR90 |
B | HOH402 |
E | ARG43 |
site_id | AC7 |
Number of Residues | 4 |
Details | binding site for residue HPA B 302 |
Chain | Residue |
B | THR90 |
B | GLY92 |
B | PHE159 |
B | MET180 |
site_id | AC8 |
Number of Residues | 2 |
Details | binding site for residue PEG B 303 |
Chain | Residue |
B | ASN6 |
B | GLU38 |
site_id | AC9 |
Number of Residues | 7 |
Details | binding site for residue PO4 C 301 |
Chain | Residue |
C | GLY20 |
C | ARG24 |
C | ARG87 |
C | GLY89 |
C | THR90 |
C | HOH417 |
F | ARG43 |
site_id | AD1 |
Number of Residues | 8 |
Details | binding site for residue HPA C 302 |
Chain | Residue |
C | THR90 |
C | CYS91 |
C | GLY92 |
C | PHE159 |
C | ILE178 |
C | GLU179 |
C | ASP204 |
C | LEU206 |
site_id | AD2 |
Number of Residues | 6 |
Details | binding site for residue SO4 C 303 |
Chain | Residue |
A | TYR138 |
A | LYS142 |
C | LEU33 |
C | GLN34 |
C | ASP35 |
C | HOH449 |
site_id | AD3 |
Number of Residues | 3 |
Details | binding site for residue PEG C 304 |
Chain | Residue |
C | ASN6 |
C | GLU38 |
C | ILE39 |
site_id | AD4 |
Number of Residues | 8 |
Details | binding site for residue SO4 D 301 |
Chain | Residue |
A | ARG43 |
D | GLY20 |
D | ASP21 |
D | ARG87 |
D | GLY89 |
D | THR90 |
D | HOH403 |
D | HOH424 |
site_id | AD5 |
Number of Residues | 4 |
Details | binding site for residue HPA D 302 |
Chain | Residue |
D | THR90 |
D | GLY92 |
D | LEU206 |
D | HOH460 |
site_id | AD6 |
Number of Residues | 5 |
Details | binding site for residue SO4 D 303 |
Chain | Residue |
C | LYS97 |
D | LEU33 |
D | GLN34 |
D | ASP35 |
D | HOH402 |
site_id | AD7 |
Number of Residues | 3 |
Details | binding site for residue PEG D 304 |
Chain | Residue |
D | ASN6 |
D | GLU38 |
D | ILE39 |
site_id | AD8 |
Number of Residues | 8 |
Details | binding site for residue SO4 E 301 |
Chain | Residue |
B | ARG43 |
E | CYS19 |
E | GLY20 |
E | ASP21 |
E | ARG24 |
E | ARG87 |
E | GLY89 |
E | THR90 |
site_id | AD9 |
Number of Residues | 5 |
Details | binding site for residue HPA E 302 |
Chain | Residue |
E | GLY92 |
E | PHE159 |
E | ILE178 |
E | LEU206 |
E | THR90 |
site_id | AE1 |
Number of Residues | 3 |
Details | binding site for residue PEG E 303 |
Chain | Residue |
E | ASN6 |
E | GLU38 |
E | ILE39 |
site_id | AE2 |
Number of Residues | 8 |
Details | binding site for residue SO4 F 301 |
Chain | Residue |
C | ARG43 |
F | GLY20 |
F | ASP21 |
F | ARG24 |
F | ARG87 |
F | GLY89 |
F | THR90 |
F | HOH402 |
site_id | AE3 |
Number of Residues | 6 |
Details | binding site for residue HPA F 302 |
Chain | Residue |
F | THR90 |
F | CYS91 |
F | GLY92 |
F | PHE159 |
F | LEU206 |
F | HOH441 |
site_id | AE4 |
Number of Residues | 4 |
Details | binding site for residue SO4 F 303 |
Chain | Residue |
A | LYS209 |
A | HOH413 |
F | GLN34 |
F | ASP35 |
site_id | AE5 |
Number of Residues | 5 |
Details | binding site for residue ACT F 304 |
Chain | Residue |
C | TYR160 |
C | SER161 |
C | PHE162 |
F | LYS78 |
F | GLU191 |
Functional Information from PROSITE/UniProt
site_id | PS01232 |
Number of Residues | 16 |
Details | PNP_UDP_1 Purine and other phosphorylases family 1 signature. GhGMGiAScTIyvtEL |
Chain | Residue | Details |
A | GLY61-LEU76 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 6 |
Details | ACT_SITE: Proton donor => ECO:0000255|HAMAP-Rule:MF_01627 |
Chain | Residue | Details |
A | ASP204 | |
B | ASP204 | |
C | ASP204 | |
D | ASP204 | |
E | ASP204 | |
F | ASP204 |
site_id | SWS_FT_FI2 |
Number of Residues | 12 |
Details | BINDING: BINDING => ECO:0000250|UniProtKB:P50389 |
Chain | Residue | Details |
A | HIS4 | |
E | ARG43 | |
F | HIS4 | |
F | ARG43 | |
A | ARG43 | |
B | HIS4 | |
B | ARG43 | |
C | HIS4 | |
C | ARG43 | |
D | HIS4 | |
D | ARG43 | |
E | HIS4 |
site_id | SWS_FT_FI3 |
Number of Residues | 30 |
Details | BINDING: in other chain => ECO:0000250|UniProtKB:P50389 |
Chain | Residue | Details |
A | GLY20 | |
B | SER203 | |
C | GLY20 | |
C | ARG24 | |
C | ARG87 | |
C | GLU179 | |
C | SER203 | |
D | GLY20 | |
D | ARG24 | |
D | ARG87 | |
D | GLU179 | |
A | ARG24 | |
D | SER203 | |
E | GLY20 | |
E | ARG24 | |
E | ARG87 | |
E | GLU179 | |
E | SER203 | |
F | GLY20 | |
F | ARG24 | |
F | ARG87 | |
F | GLU179 | |
A | ARG87 | |
F | SER203 | |
A | GLU179 | |
A | SER203 | |
B | GLY20 | |
B | ARG24 | |
B | ARG87 | |
B | GLU179 |
site_id | SWS_FT_FI4 |
Number of Residues | 6 |
Details | SITE: Important for catalytic activity => ECO:0000255|HAMAP-Rule:MF_01627 |
Chain | Residue | Details |
A | ARG217 | |
B | ARG217 | |
C | ARG217 | |
D | ARG217 | |
E | ARG217 | |
F | ARG217 |