3TOZ
2.2 Angstrom Crystal Structure of Shikimate 5-dehydrogenase from Listeria monocytogenes in Complex with NAD.
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
A | 0005829 | cellular_component | cytosol |
A | 0008652 | biological_process | amino acid biosynthetic process |
A | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
A | 0009423 | biological_process | chorismate biosynthetic process |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0019632 | biological_process | shikimate metabolic process |
A | 0050661 | molecular_function | NADP binding |
B | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
B | 0005829 | cellular_component | cytosol |
B | 0008652 | biological_process | amino acid biosynthetic process |
B | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
B | 0009423 | biological_process | chorismate biosynthetic process |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0019632 | biological_process | shikimate metabolic process |
B | 0050661 | molecular_function | NADP binding |
C | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
C | 0005829 | cellular_component | cytosol |
C | 0008652 | biological_process | amino acid biosynthetic process |
C | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
C | 0009423 | biological_process | chorismate biosynthetic process |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0019632 | biological_process | shikimate metabolic process |
C | 0050661 | molecular_function | NADP binding |
D | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
D | 0005829 | cellular_component | cytosol |
D | 0008652 | biological_process | amino acid biosynthetic process |
D | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
D | 0009423 | biological_process | chorismate biosynthetic process |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0019632 | biological_process | shikimate metabolic process |
D | 0050661 | molecular_function | NADP binding |
E | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
E | 0005829 | cellular_component | cytosol |
E | 0008652 | biological_process | amino acid biosynthetic process |
E | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
E | 0009423 | biological_process | chorismate biosynthetic process |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0019632 | biological_process | shikimate metabolic process |
E | 0050661 | molecular_function | NADP binding |
F | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
F | 0005829 | cellular_component | cytosol |
F | 0008652 | biological_process | amino acid biosynthetic process |
F | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
F | 0009423 | biological_process | chorismate biosynthetic process |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0019632 | biological_process | shikimate metabolic process |
F | 0050661 | molecular_function | NADP binding |
G | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
G | 0005829 | cellular_component | cytosol |
G | 0008652 | biological_process | amino acid biosynthetic process |
G | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
G | 0009423 | biological_process | chorismate biosynthetic process |
G | 0016491 | molecular_function | oxidoreductase activity |
G | 0019632 | biological_process | shikimate metabolic process |
G | 0050661 | molecular_function | NADP binding |
H | 0004764 | molecular_function | shikimate 3-dehydrogenase (NADP+) activity |
H | 0005829 | cellular_component | cytosol |
H | 0008652 | biological_process | amino acid biosynthetic process |
H | 0009073 | biological_process | aromatic amino acid family biosynthetic process |
H | 0009423 | biological_process | chorismate biosynthetic process |
H | 0016491 | molecular_function | oxidoreductase activity |
H | 0019632 | biological_process | shikimate metabolic process |
H | 0050661 | molecular_function | NADP binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 25 |
Details | BINDING SITE FOR RESIDUE NAD A 292 |
Chain | Residue |
A | GLY137 |
A | THR210 |
A | GLY211 |
A | VAL212 |
A | MET214 |
A | PHE217 |
A | LEU222 |
A | VAL238 |
A | TYR240 |
A | GLY261 |
A | MET264 |
A | ALA138 |
A | MET265 |
A | GLN268 |
A | HOH296 |
A | HOH603 |
A | HOH705 |
A | HOH953 |
A | GLY139 |
A | GLY140 |
A | ALA141 |
A | ASN161 |
A | ARG162 |
A | ASP164 |
A | PHE166 |
site_id | AC2 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE SO4 A 293 |
Chain | Residue |
A | MET74 |
A | PRO75 |
A | ASN76 |
A | LYS77 |
A | THR78 |
site_id | AC3 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE SO4 A 294 |
Chain | Residue |
A | SER73 |
A | MET74 |
A | LYS77 |
A | ASN98 |
A | GLN268 |
site_id | AC4 |
Number of Residues | 21 |
Details | BINDING SITE FOR RESIDUE NAD B 292 |
Chain | Residue |
B | GLY137 |
B | ALA138 |
B | GLY139 |
B | GLY140 |
B | ALA141 |
B | ASN161 |
B | ARG162 |
B | ASP164 |
B | PHE166 |
B | THR210 |
B | GLY211 |
B | VAL212 |
B | MET214 |
B | PHE217 |
B | VAL238 |
B | TYR240 |
B | GLY261 |
B | MET264 |
B | MET265 |
B | HOH304 |
B | HOH329 |
site_id | AC5 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE SO4 B 293 |
Chain | Residue |
B | SER73 |
B | MET74 |
B | LYS77 |
B | ASN98 |
B | GLN268 |
site_id | AC6 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE SO4 B 294 |
Chain | Residue |
B | MET74 |
B | PRO75 |
B | ASN76 |
B | LYS77 |
B | THR78 |
site_id | AC7 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE SO4 B 295 |
Chain | Residue |
B | PRO242 |
B | THR243 |
site_id | AC8 |
Number of Residues | 29 |
Details | BINDING SITE FOR RESIDUE NAD C 292 |
Chain | Residue |
C | ASP113 |
C | GLY137 |
C | ALA138 |
C | GLY139 |
C | GLY140 |
C | ALA141 |
C | ASN161 |
C | ARG162 |
C | ASP164 |
C | PHE166 |
C | THR210 |
C | GLY211 |
C | VAL212 |
C | MET214 |
C | PHE217 |
C | LEU222 |
C | VAL238 |
C | TYR240 |
C | GLY261 |
C | MET264 |
C | MET265 |
C | GLN268 |
C | HOH303 |
C | HOH305 |
C | HOH323 |
C | HOH811 |
C | HOH812 |
C | HOH965 |
C | HOH1009 |
site_id | AC9 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE CL C 293 |
Chain | Residue |
C | HOH1019 |
site_id | BC1 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL C 294 |
Chain | Residue |
C | LYS77 |
C | MET74 |
site_id | BC2 |
Number of Residues | 22 |
Details | BINDING SITE FOR RESIDUE NAD D 292 |
Chain | Residue |
D | GLY137 |
D | ALA138 |
D | GLY139 |
D | GLY140 |
D | ALA141 |
D | ASN161 |
D | ARG162 |
D | ASP164 |
D | PHE166 |
D | THR210 |
D | GLY211 |
D | MET214 |
D | PHE217 |
D | VAL238 |
D | GLY261 |
D | MET264 |
D | MET265 |
D | GLN268 |
D | HOH493 |
D | HOH676 |
D | HOH819 |
D | HOH820 |
site_id | BC3 |
Number of Residues | 26 |
Details | BINDING SITE FOR RESIDUE NAD E 292 |
Chain | Residue |
E | GLY137 |
E | ALA138 |
E | GLY139 |
E | GLY140 |
E | ALA141 |
E | ASN161 |
E | ARG162 |
E | ASP164 |
E | PHE166 |
E | THR210 |
E | GLY211 |
E | VAL212 |
E | MET214 |
E | PHE217 |
E | LEU222 |
E | VAL238 |
E | TYR240 |
E | GLY261 |
E | MET264 |
E | MET265 |
E | HOH294 |
E | HOH393 |
E | HOH555 |
E | HOH837 |
E | HOH842 |
E | HOH1010 |
site_id | BC4 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE CL E 293 |
Chain | Residue |
E | PRO231 |
E | GLU232 |
site_id | BC5 |
Number of Residues | 25 |
Details | BINDING SITE FOR RESIDUE NAD F 292 |
Chain | Residue |
F | GLY137 |
F | ALA138 |
F | GLY139 |
F | GLY140 |
F | ALA141 |
F | ASN161 |
F | ARG162 |
F | ASP164 |
F | PHE166 |
F | THR210 |
F | GLY211 |
F | VAL212 |
F | MET214 |
F | PHE217 |
F | VAL238 |
F | TYR240 |
F | GLY261 |
F | MET264 |
F | MET265 |
F | GLN268 |
F | HOH306 |
F | HOH615 |
F | HOH657 |
F | HOH673 |
F | HOH858 |
site_id | BC6 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE SO4 F 293 |
Chain | Residue |
F | MET74 |
F | PRO75 |
F | ASN76 |
F | LYS77 |
F | THR78 |
F | HOH859 |
site_id | BC7 |
Number of Residues | 23 |
Details | BINDING SITE FOR RESIDUE NAD G 292 |
Chain | Residue |
G | GLY137 |
G | ALA138 |
G | GLY139 |
G | GLY140 |
G | ALA141 |
G | ASN161 |
G | ARG162 |
G | ASP164 |
G | THR210 |
G | GLY211 |
G | VAL212 |
G | MET214 |
G | PHE217 |
G | LEU222 |
G | VAL238 |
G | TYR240 |
G | GLY261 |
G | MET264 |
G | MET265 |
G | GLN268 |
G | HOH312 |
G | HOH423 |
G | HOH887 |
site_id | BC8 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE SO4 G 293 |
Chain | Residue |
G | MET74 |
G | PRO75 |
G | ASN76 |
G | LYS77 |
G | THR78 |
site_id | BC9 |
Number of Residues | 22 |
Details | BINDING SITE FOR RESIDUE NAD H 292 |
Chain | Residue |
H | GLY137 |
H | ALA138 |
H | GLY139 |
H | GLY140 |
H | ALA141 |
H | ASN161 |
H | ARG162 |
H | ASP164 |
H | PHE166 |
H | THR210 |
H | GLY211 |
H | VAL212 |
H | MET214 |
H | PHE217 |
H | VAL238 |
H | VAL239 |
H | GLY261 |
H | MET264 |
H | MET265 |
H | HOH311 |
H | HOH342 |
H | HOH905 |
site_id | CC1 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE CL H 293 |
Chain | Residue |
H | LYS131 |
H | LYS132 |
H | HOH1015 |
site_id | CC2 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE SO4 H 294 |
Chain | Residue |
H | PRO242 |
H | THR243 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 8 |
Details | ACT_SITE: Proton acceptor => ECO:0000255|HAMAP-Rule:MF_00222, ECO:0000305|Ref.2 |
Chain | Residue | Details |
A | LYS77 | |
B | LYS77 | |
C | LYS77 | |
D | LYS77 | |
E | LYS77 | |
F | LYS77 | |
G | LYS77 | |
H | LYS77 |
site_id | SWS_FT_FI2 |
Number of Residues | 8 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00222, ECO:0000269|Ref.2 |
Chain | Residue | Details |
A | SER26 | |
B | SER26 | |
C | SER26 | |
D | SER26 | |
E | SER26 | |
F | SER26 | |
G | SER26 | |
H | SER26 |
site_id | SWS_FT_FI3 |
Number of Residues | 48 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00222, ECO:0000305|Ref.2 |
Chain | Residue | Details |
A | SER73 | |
B | GLY137 | |
B | VAL238 | |
B | GLY261 | |
C | SER73 | |
C | ASN98 | |
C | ASP113 | |
C | GLY137 | |
C | VAL238 | |
C | GLY261 | |
D | SER73 | |
A | ASN98 | |
D | ASN98 | |
D | ASP113 | |
D | GLY137 | |
D | VAL238 | |
D | GLY261 | |
E | SER73 | |
E | ASN98 | |
E | ASP113 | |
E | GLY137 | |
E | VAL238 | |
A | ASP113 | |
E | GLY261 | |
F | SER73 | |
F | ASN98 | |
F | ASP113 | |
F | GLY137 | |
F | VAL238 | |
F | GLY261 | |
G | SER73 | |
G | ASN98 | |
G | ASP113 | |
A | GLY137 | |
G | GLY137 | |
G | VAL238 | |
G | GLY261 | |
H | SER73 | |
H | ASN98 | |
H | ASP113 | |
H | GLY137 | |
H | VAL238 | |
H | GLY261 | |
A | VAL238 | |
A | GLY261 | |
B | SER73 | |
B | ASN98 | |
B | ASP113 |
site_id | SWS_FT_FI4 |
Number of Residues | 16 |
Details | BINDING: BINDING => ECO:0000269|Ref.2 |
Chain | Residue | Details |
A | ASN161 | |
E | MET214 | |
F | ASN161 | |
F | MET214 | |
G | ASN161 | |
G | MET214 | |
H | ASN161 | |
H | MET214 | |
A | MET214 | |
B | ASN161 | |
B | MET214 | |
C | ASN161 | |
C | MET214 | |
D | ASN161 | |
D | MET214 | |
E | ASN161 |
site_id | SWS_FT_FI5 |
Number of Residues | 8 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00222 |
Chain | Residue | Details |
A | TYR240 | |
B | TYR240 | |
C | TYR240 | |
D | TYR240 | |
E | TYR240 | |
F | TYR240 | |
G | TYR240 | |
H | TYR240 |