5ZQD
Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Cefotaxime bound form
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0006508 | biological_process | proteolysis |
A | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
B | 0006508 | biological_process | proteolysis |
B | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
C | 0006508 | biological_process | proteolysis |
C | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
D | 0006508 | biological_process | proteolysis |
D | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
E | 0006508 | biological_process | proteolysis |
E | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
F | 0006508 | biological_process | proteolysis |
F | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
G | 0006508 | biological_process | proteolysis |
G | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
H | 0006508 | biological_process | proteolysis |
H | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 11 |
Details | binding site for residue CEF A 301 |
Chain | Residue |
A | ALA57 |
A | ARG257 |
A | HOH485 |
A | SER58 |
A | VAL94 |
A | SER118 |
A | ASN120 |
A | THR223 |
A | GLY224 |
A | PHE225 |
A | THR226 |
site_id | AC2 |
Number of Residues | 10 |
Details | binding site for residue GOL A 302 |
Chain | Residue |
A | LEU69 |
A | VAL72 |
A | ASP73 |
A | TRP79 |
A | GLU187 |
A | HOH427 |
A | HOH467 |
D | TYR28 |
D | SER30 |
D | LYS256 |
site_id | AC3 |
Number of Residues | 8 |
Details | binding site for residue GOL B 302 |
Chain | Residue |
B | VAL72 |
B | ASP73 |
B | TRP79 |
B | GLU187 |
B | HOH437 |
C | TYR28 |
C | SER30 |
C | LYS256 |
site_id | AC4 |
Number of Residues | 5 |
Details | binding site for residue GOL B 303 |
Chain | Residue |
B | GLY164 |
B | SER166 |
B | GLU228 |
B | HOH486 |
F | GLY213 |
site_id | AC5 |
Number of Residues | 3 |
Details | binding site for residue GOL B 304 |
Chain | Residue |
B | GLY42 |
B | LYS172 |
B | PHE175 |
site_id | AC6 |
Number of Residues | 9 |
Details | binding site for residue GOL C 302 |
Chain | Residue |
B | TYR28 |
B | LEU29 |
B | SER30 |
B | LYS256 |
C | LEU69 |
C | ASP73 |
C | TRP79 |
C | GLU187 |
C | HOH457 |
site_id | AC7 |
Number of Residues | 9 |
Details | binding site for residue GOL D 302 |
Chain | Residue |
A | TYR28 |
A | SER30 |
A | LYS256 |
D | VAL72 |
D | ASP73 |
D | TRP79 |
D | GLU187 |
D | HOH461 |
D | HOH482 |
site_id | AC8 |
Number of Residues | 7 |
Details | binding site for residue GOL E 302 |
Chain | Residue |
E | VAL72 |
E | ASP73 |
E | TRP79 |
E | GLU187 |
E | HOH427 |
H | SER30 |
H | LYS256 |
site_id | AC9 |
Number of Residues | 3 |
Details | binding site for residue GOL E 303 |
Chain | Residue |
E | SER30 |
E | ASP250 |
E | ALA251 |
site_id | AD1 |
Number of Residues | 7 |
Details | binding site for residue GOL F 302 |
Chain | Residue |
F | VAL72 |
F | ASP73 |
F | TRP79 |
F | GLU187 |
F | HOH484 |
G | SER30 |
G | LYS256 |
site_id | AD2 |
Number of Residues | 9 |
Details | binding site for residue GOL G 302 |
Chain | Residue |
F | TYR28 |
F | SER30 |
F | LYS256 |
G | LEU69 |
G | VAL72 |
G | ASP73 |
G | TRP79 |
G | GLU187 |
G | HOH416 |
site_id | AD3 |
Number of Residues | 9 |
Details | binding site for residue GOL H 302 |
Chain | Residue |
E | TYR28 |
E | LEU29 |
E | HOH419 |
H | LEU69 |
H | VAL72 |
H | ASP73 |
H | TRP79 |
H | GLU187 |
H | HOH472 |
site_id | AD4 |
Number of Residues | 15 |
Details | binding site for Di-peptide CEF B 301 and SER B 58 |
Chain | Residue |
B | LEU160 |
B | THR223 |
B | GLY224 |
B | PHE225 |
B | THR226 |
B | ARG257 |
B | ILE56 |
B | ALA57 |
B | LEU59 |
B | SER60 |
B | LYS61 |
B | VAL94 |
B | SER118 |
B | ASN120 |
B | SER158 |
site_id | AD5 |
Number of Residues | 16 |
Details | binding site for Di-peptide CEF C 301 and SER C 58 |
Chain | Residue |
C | ILE56 |
C | ALA57 |
C | LEU59 |
C | SER60 |
C | LYS61 |
C | SER118 |
C | ASN120 |
C | SER158 |
C | LEU160 |
C | LYS222 |
C | THR223 |
C | GLY224 |
C | PHE225 |
C | THR226 |
C | ARG257 |
C | HOH405 |
site_id | AD6 |
Number of Residues | 16 |
Details | binding site for Di-peptide CEF C 303 and LYS C 204 |
Chain | Residue |
A | LYS82 |
A | LEU83 |
A | ASP84 |
A | THR104 |
A | HOH409 |
C | VAL197 |
C | THR198 |
C | GLY202 |
C | ALA203 |
C | LEU205 |
C | HOH401 |
C | HOH412 |
C | HOH422 |
C | HOH483 |
C | HOH488 |
C | HOH502 |
site_id | AD7 |
Number of Residues | 20 |
Details | binding site for Di-peptide CEF D 301 and SER D 58 |
Chain | Residue |
D | ILE56 |
D | ALA57 |
D | LEU59 |
D | SER60 |
D | LYS61 |
D | VAL94 |
D | SER118 |
D | ASN120 |
D | SER158 |
D | LEU160 |
D | THR208 |
D | LYS222 |
D | THR223 |
D | GLY224 |
D | PHE225 |
D | THR226 |
D | ARG257 |
D | HOH401 |
D | HOH444 |
D | HOH491 |
site_id | AD8 |
Number of Residues | 13 |
Details | binding site for Di-peptide CEF D 303 and LYS D 204 |
Chain | Residue |
B | LYS82 |
B | LEU83 |
B | ASP84 |
B | THR104 |
B | HOH406 |
B | HOH422 |
D | VAL197 |
D | GLY202 |
D | ALA203 |
D | LEU205 |
D | HOH405 |
D | HOH438 |
D | HOH450 |
site_id | AD9 |
Number of Residues | 17 |
Details | binding site for Di-peptide CEF E 301 and SER E 58 |
Chain | Residue |
E | ILE56 |
E | ALA57 |
E | LEU59 |
E | SER60 |
E | LYS61 |
E | VAL94 |
E | SER118 |
E | ASN120 |
E | SER158 |
E | LEU160 |
E | THR208 |
E | THR223 |
E | GLY224 |
E | PHE225 |
E | THR226 |
E | ARG257 |
E | HOH405 |
site_id | AE1 |
Number of Residues | 17 |
Details | binding site for Di-peptide CEF F 301 and SER F 58 |
Chain | Residue |
F | ILE56 |
F | ALA57 |
F | LEU59 |
F | SER60 |
F | LYS61 |
F | VAL94 |
F | SER118 |
F | ASN120 |
F | SER158 |
F | LEU160 |
F | LYS222 |
F | THR223 |
F | GLY224 |
F | PHE225 |
F | THR226 |
F | ARG257 |
F | HOH454 |
site_id | AE2 |
Number of Residues | 18 |
Details | binding site for Di-peptide CEF G 301 and SER G 58 |
Chain | Residue |
G | ILE56 |
G | ALA57 |
G | LEU59 |
G | SER60 |
G | LYS61 |
G | VAL94 |
G | SER118 |
G | ASN120 |
G | SER158 |
G | LEU160 |
G | LYS222 |
G | THR223 |
G | GLY224 |
G | PHE225 |
G | THR226 |
G | ARG257 |
G | HOH458 |
G | HOH498 |
site_id | AE3 |
Number of Residues | 8 |
Details | binding site for Di-peptide CEF G 303 and LYS G 204 |
Chain | Residue |
G | VAL197 |
G | GLY202 |
G | ALA203 |
G | LEU205 |
G | GLU206 |
G | HOH401 |
G | HOH403 |
G | HOH470 |
site_id | AE4 |
Number of Residues | 16 |
Details | binding site for Di-peptide CEF H 301 and SER H 58 |
Chain | Residue |
H | ILE56 |
H | ALA57 |
H | LEU59 |
H | SER60 |
H | LYS61 |
H | VAL94 |
H | SER118 |
H | ASN120 |
H | SER158 |
H | THR208 |
H | THR223 |
H | GLY224 |
H | PHE225 |
H | THR226 |
H | ARG257 |
H | HOH491 |
site_id | AE5 |
Number of Residues | 8 |
Details | binding site for Di-peptide CEF H 303 and LYS H 204 |
Chain | Residue |
H | VAL197 |
H | GLY202 |
H | ALA203 |
H | LEU205 |
H | GLU206 |
H | HOH438 |
H | HOH446 |
H | HOH520 |