2V3W
Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0000287 | molecular_function | magnesium ion binding |
A | 0003824 | molecular_function | catalytic activity |
A | 0003984 | molecular_function | acetolactate synthase activity |
A | 0009056 | biological_process | catabolic process |
A | 0016831 | molecular_function | carboxy-lyase activity |
A | 0018924 | biological_process | mandelate metabolic process |
A | 0019596 | biological_process | mandelate catabolic process |
A | 0019752 | biological_process | carboxylic acid metabolic process |
A | 0030976 | molecular_function | thiamine pyrophosphate binding |
A | 0046872 | molecular_function | metal ion binding |
A | 0050660 | molecular_function | flavin adenine dinucleotide binding |
A | 0050695 | molecular_function | benzoylformate decarboxylase activity |
B | 0000287 | molecular_function | magnesium ion binding |
B | 0003824 | molecular_function | catalytic activity |
B | 0003984 | molecular_function | acetolactate synthase activity |
B | 0009056 | biological_process | catabolic process |
B | 0016831 | molecular_function | carboxy-lyase activity |
B | 0018924 | biological_process | mandelate metabolic process |
B | 0019596 | biological_process | mandelate catabolic process |
B | 0019752 | biological_process | carboxylic acid metabolic process |
B | 0030976 | molecular_function | thiamine pyrophosphate binding |
B | 0046872 | molecular_function | metal ion binding |
B | 0050660 | molecular_function | flavin adenine dinucleotide binding |
B | 0050695 | molecular_function | benzoylformate decarboxylase activity |
C | 0000287 | molecular_function | magnesium ion binding |
C | 0003824 | molecular_function | catalytic activity |
C | 0003984 | molecular_function | acetolactate synthase activity |
C | 0009056 | biological_process | catabolic process |
C | 0016831 | molecular_function | carboxy-lyase activity |
C | 0018924 | biological_process | mandelate metabolic process |
C | 0019596 | biological_process | mandelate catabolic process |
C | 0019752 | biological_process | carboxylic acid metabolic process |
C | 0030976 | molecular_function | thiamine pyrophosphate binding |
C | 0046872 | molecular_function | metal ion binding |
C | 0050660 | molecular_function | flavin adenine dinucleotide binding |
C | 0050695 | molecular_function | benzoylformate decarboxylase activity |
D | 0000287 | molecular_function | magnesium ion binding |
D | 0003824 | molecular_function | catalytic activity |
D | 0003984 | molecular_function | acetolactate synthase activity |
D | 0009056 | biological_process | catabolic process |
D | 0016831 | molecular_function | carboxy-lyase activity |
D | 0018924 | biological_process | mandelate metabolic process |
D | 0019596 | biological_process | mandelate catabolic process |
D | 0019752 | biological_process | carboxylic acid metabolic process |
D | 0030976 | molecular_function | thiamine pyrophosphate binding |
D | 0046872 | molecular_function | metal ion binding |
D | 0050660 | molecular_function | flavin adenine dinucleotide binding |
D | 0050695 | molecular_function | benzoylformate decarboxylase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG A 1528 |
Chain | Residue |
A | ASP428 |
A | ASN455 |
A | THR457 |
A | TPP1531 |
A | HOH2226 |
site_id | AC2 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG A 1529 |
Chain | Residue |
C | LEU118 |
C | ARG120 |
A | ASN117 |
A | LEU118 |
A | ARG120 |
C | ASN117 |
site_id | AC3 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG B 1528 |
Chain | Residue |
B | ASP428 |
B | ASN455 |
B | THR457 |
B | TPP1531 |
B | HOH2214 |
site_id | AC4 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG B 1529 |
Chain | Residue |
B | ASN117 |
B | LEU118 |
B | ARG120 |
D | ASN117 |
D | LEU118 |
D | ARG120 |
site_id | AC5 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG C 1528 |
Chain | Residue |
C | ASP428 |
C | ASN455 |
C | THR457 |
C | TPP1530 |
C | HOH2206 |
site_id | AC6 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG D 1528 |
Chain | Residue |
D | ASP428 |
D | ASN455 |
D | THR457 |
D | TPP1530 |
D | HOH2192 |
site_id | AC7 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE SO4 C 1529 |
Chain | Residue |
A | HIS281 |
A | PHE464 |
A | TPP1531 |
C | GLY25 |
C | SER26 |
C | HIS70 |
C | LEU110 |
C | HOH2246 |
site_id | AC8 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE SO4 D 1529 |
Chain | Residue |
B | HIS281 |
B | TPP1531 |
D | GLY25 |
D | SER26 |
D | HIS70 |
D | LEU110 |
site_id | AC9 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE SO4 A 1530 |
Chain | Residue |
A | GLY25 |
A | SER26 |
A | HIS70 |
A | LEU110 |
C | HIS281 |
C | PHE464 |
C | TPP1530 |
site_id | BC1 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE SO4 B 1530 |
Chain | Residue |
B | GLY25 |
B | SER26 |
B | HIS70 |
B | LEU110 |
B | HOH2240 |
D | HIS281 |
D | TPP1530 |
site_id | BC2 |
Number of Residues | 23 |
Details | BINDING SITE FOR RESIDUE TPP A 1531 |
Chain | Residue |
A | THR377 |
A | SER378 |
A | GLY401 |
A | LEU403 |
A | GLY427 |
A | ASP428 |
A | GLY429 |
A | SER430 |
A | TYR433 |
A | ASN455 |
A | THR457 |
A | TYR458 |
A | GLY459 |
A | ALA460 |
A | MG1528 |
A | HOH2190 |
A | HOH2226 |
C | ASN23 |
C | PRO24 |
C | GLU47 |
C | HIS70 |
C | ASN77 |
C | SO41529 |
site_id | BC3 |
Number of Residues | 24 |
Details | BINDING SITE FOR RESIDUE TPP B 1531 |
Chain | Residue |
B | HOH2214 |
D | ASN23 |
D | PRO24 |
D | GLY25 |
D | GLU47 |
D | HIS70 |
D | ASN77 |
D | SO41529 |
B | THR377 |
B | SER378 |
B | GLY401 |
B | LEU403 |
B | GLY427 |
B | ASP428 |
B | GLY429 |
B | SER430 |
B | TYR433 |
B | ASN455 |
B | THR457 |
B | TYR458 |
B | GLY459 |
B | ALA460 |
B | MG1528 |
B | HOH2176 |
site_id | BC4 |
Number of Residues | 24 |
Details | BINDING SITE FOR RESIDUE TPP C 1530 |
Chain | Residue |
A | ASN23 |
A | PRO24 |
A | GLY25 |
A | GLU47 |
A | HIS70 |
A | ASN77 |
A | SO41530 |
C | THR377 |
C | SER378 |
C | GLY401 |
C | LEU403 |
C | GLY427 |
C | ASP428 |
C | GLY429 |
C | SER430 |
C | TYR433 |
C | ASN455 |
C | THR457 |
C | TYR458 |
C | GLY459 |
C | ALA460 |
C | MG1528 |
C | HOH2206 |
C | HOH2247 |
site_id | BC5 |
Number of Residues | 23 |
Details | BINDING SITE FOR RESIDUE TPP D 1530 |
Chain | Residue |
B | ASN23 |
B | PRO24 |
B | GLU47 |
B | HIS70 |
B | ASN77 |
B | SO41530 |
D | THR377 |
D | SER378 |
D | GLY401 |
D | LEU403 |
D | GLY427 |
D | ASP428 |
D | GLY429 |
D | SER430 |
D | TYR433 |
D | ASN455 |
D | THR457 |
D | TYR458 |
D | GLY459 |
D | ALA460 |
D | MG1528 |
D | HOH2158 |
D | HOH2192 |
Functional Information from PROSITE/UniProt
site_id | PS00187 |
Number of Residues | 20 |
Details | TPP_ENZYMES Thiamine pyrophosphate enzymes signature. IGvqlaePerqvIaViGDGS |
Chain | Residue | Details |
A | ILE411-SER430 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 24 |
Details | BINDING: |
Chain | Residue | Details |
A | ASN117 | |
B | ASP428 | |
B | ASN455 | |
B | THR457 | |
C | ASN117 | |
C | LEU118 | |
C | ARG120 | |
C | ASP428 | |
C | ASN455 | |
C | THR457 | |
D | ASN117 | |
A | LEU118 | |
D | LEU118 | |
D | ARG120 | |
D | ASP428 | |
D | ASN455 | |
D | THR457 | |
A | ARG120 | |
A | ASP428 | |
A | ASN455 | |
A | THR457 | |
B | ASN117 | |
B | LEU118 | |
B | ARG120 |
Catalytic Information from CSA
site_id | CSA1 |
Number of Residues | 3 |
Details | Annotated By Reference To The Literature 1bfd |
Chain | Residue | Details |
A | GLU28 | |
A | HIS281 | |
A | HIS70 |
site_id | CSA2 |
Number of Residues | 3 |
Details | Annotated By Reference To The Literature 1bfd |
Chain | Residue | Details |
B | GLU28 | |
B | HIS281 | |
B | HIS70 |
site_id | CSA3 |
Number of Residues | 3 |
Details | Annotated By Reference To The Literature 1bfd |
Chain | Residue | Details |
C | GLU28 | |
C | HIS281 | |
C | HIS70 |
site_id | CSA4 |
Number of Residues | 3 |
Details | Annotated By Reference To The Literature 1bfd |
Chain | Residue | Details |
D | GLU28 | |
D | HIS281 | |
D | HIS70 |
site_id | MCSA1 |
Number of Residues | 7 |
Details | M-CSA 220 |
Chain | Residue | Details |
A | GLY25 | electrostatic stabiliser, hydrogen bond donor |
A | SER26 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor |
A | GLU28 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
A | GLU47 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
A | HIS70 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay |
A | HIS281 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
A | GLY401 | electrostatic stabiliser, hydrogen bond acceptor |
site_id | MCSA2 |
Number of Residues | 7 |
Details | M-CSA 220 |
Chain | Residue | Details |
B | GLY25 | electrostatic stabiliser, hydrogen bond donor |
B | SER26 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor |
B | GLU28 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
B | GLU47 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
B | HIS70 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay |
B | HIS281 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
B | GLY401 | electrostatic stabiliser, hydrogen bond acceptor |
site_id | MCSA3 |
Number of Residues | 7 |
Details | M-CSA 220 |
Chain | Residue | Details |
C | GLY25 | electrostatic stabiliser, hydrogen bond donor |
C | SER26 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor |
C | GLU28 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
C | GLU47 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
C | HIS70 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay |
C | HIS281 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
C | GLY401 | electrostatic stabiliser, hydrogen bond acceptor |
site_id | MCSA4 |
Number of Residues | 7 |
Details | M-CSA 220 |
Chain | Residue | Details |
D | GLY25 | electrostatic stabiliser, hydrogen bond donor |
D | SER26 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor |
D | GLU28 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
D | GLU47 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
D | HIS70 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay |
D | HIS281 | hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
D | GLY401 | electrostatic stabiliser, hydrogen bond acceptor |