1W8Q
Crystal Structure of the DD-Transpeptidase-carboxypeptidase from Actinomadura R39
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000270 | biological_process | peptidoglycan metabolic process |
| A | 0004185 | molecular_function | serine-type carboxypeptidase activity |
| A | 0005576 | cellular_component | extracellular region |
| A | 0006508 | biological_process | proteolysis |
| A | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
| A | 0009252 | biological_process | peptidoglycan biosynthetic process |
| B | 0000270 | biological_process | peptidoglycan metabolic process |
| B | 0004185 | molecular_function | serine-type carboxypeptidase activity |
| B | 0005576 | cellular_component | extracellular region |
| B | 0006508 | biological_process | proteolysis |
| B | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
| B | 0009252 | biological_process | peptidoglycan biosynthetic process |
| C | 0000270 | biological_process | peptidoglycan metabolic process |
| C | 0004185 | molecular_function | serine-type carboxypeptidase activity |
| C | 0005576 | cellular_component | extracellular region |
| C | 0006508 | biological_process | proteolysis |
| C | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
| C | 0009252 | biological_process | peptidoglycan biosynthetic process |
| D | 0000270 | biological_process | peptidoglycan metabolic process |
| D | 0004185 | molecular_function | serine-type carboxypeptidase activity |
| D | 0005576 | cellular_component | extracellular region |
| D | 0006508 | biological_process | proteolysis |
| D | 0009002 | molecular_function | serine-type D-Ala-D-Ala carboxypeptidase activity |
| D | 0009252 | biological_process | peptidoglycan biosynthetic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE SO4 A 500 |
| Chain | Residue |
| A | SER49 |
| A | SER298 |
| A | LYS410 |
| A | THR411 |
| A | GLY412 |
| A | THR413 |
| site_id | AC2 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE SO4 A 501 |
| Chain | Residue |
| A | HIS282 |
| A | THR283 |
| site_id | AC3 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE SO4 A 502 |
| Chain | Residue |
| A | ARG236 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 A 503 |
| Chain | Residue |
| A | SER131 |
| A | GLU132 |
| A | ARG133 |
| A | LEU134 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 A 504 |
| Chain | Residue |
| A | GLY159 |
| A | GLU160 |
| A | ARG161 |
| A | CO513 |
| site_id | AC6 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO A 510 |
| Chain | Residue |
| A | GLU188 |
| A | HIS247 |
| A | GLU251 |
| site_id | AC7 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO A 511 |
| Chain | Residue |
| A | VAL406 |
| A | HIS462 |
| site_id | AC8 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO A 512 |
| Chain | Residue |
| A | LEU63 |
| A | ASP66 |
| A | HIS67 |
| site_id | AC9 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO A 513 |
| Chain | Residue |
| A | HIS158 |
| A | GLU168 |
| A | SO4504 |
| site_id | BC1 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO A 514 |
| Chain | Residue |
| A | ASP102 |
| A | HIS282 |
| site_id | BC2 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE SO4 B 500 |
| Chain | Residue |
| B | SER49 |
| B | SER298 |
| B | THR393 |
| B | LYS410 |
| B | THR411 |
| B | GLY412 |
| B | THR413 |
| site_id | BC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 B 501 |
| Chain | Residue |
| B | ASP281 |
| B | HIS282 |
| B | THR283 |
| site_id | BC4 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE SO4 B 502 |
| Chain | Residue |
| B | ALA234 |
| B | ARG236 |
| site_id | BC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 B 503 |
| Chain | Residue |
| B | SER131 |
| B | GLU132 |
| B | ARG133 |
| B | LEU134 |
| site_id | BC6 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 B 504 |
| Chain | Residue |
| B | GLY159 |
| B | GLU160 |
| B | ARG161 |
| site_id | BC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO B 510 |
| Chain | Residue |
| B | GLU188 |
| B | HIS247 |
| B | GLU251 |
| site_id | BC8 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO B 512 |
| Chain | Residue |
| B | LEU63 |
| B | HIS67 |
| B | GLU313 |
| site_id | BC9 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO B 513 |
| Chain | Residue |
| B | HIS158 |
| B | GLU168 |
| site_id | CC1 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO B 514 |
| Chain | Residue |
| B | ASP102 |
| B | HIS282 |
| site_id | CC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE SO4 C 500 |
| Chain | Residue |
| C | SER49 |
| C | SER298 |
| C | LYS410 |
| C | THR411 |
| C | GLY412 |
| C | THR413 |
| site_id | CC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 C 501 |
| Chain | Residue |
| C | ASP281 |
| C | HIS282 |
| C | THR283 |
| site_id | CC4 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 C 502 |
| Chain | Residue |
| C | ALA234 |
| C | ARG236 |
| C | HOH2011 |
| site_id | CC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 C 503 |
| Chain | Residue |
| C | SER131 |
| C | GLU132 |
| C | ARG133 |
| C | LEU134 |
| site_id | CC6 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 C 504 |
| Chain | Residue |
| C | GLY159 |
| C | GLU160 |
| C | ARG161 |
| site_id | CC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO C 510 |
| Chain | Residue |
| C | GLU188 |
| C | HIS247 |
| C | GLU251 |
| site_id | CC8 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO C 512 |
| Chain | Residue |
| C | LEU63 |
| C | HIS67 |
| site_id | CC9 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO C 513 |
| Chain | Residue |
| C | HIS158 |
| C | GLU168 |
| site_id | DC1 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO C 514 |
| Chain | Residue |
| C | ASP102 |
| C | HIS282 |
| site_id | DC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE SO4 D 500 |
| Chain | Residue |
| D | SER49 |
| D | SER298 |
| D | LYS410 |
| D | THR411 |
| D | GLY412 |
| D | THR413 |
| site_id | DC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 D 501 |
| Chain | Residue |
| D | ASP281 |
| D | HIS282 |
| D | THR283 |
| site_id | DC4 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE SO4 D 502 |
| Chain | Residue |
| D | ARG236 |
| site_id | DC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 D 503 |
| Chain | Residue |
| D | LEU134 |
| D | HOH2023 |
| D | GLU132 |
| D | ARG133 |
| site_id | DC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 D 504 |
| Chain | Residue |
| D | GLY159 |
| D | GLU160 |
| D | ARG161 |
| D | CO513 |
| site_id | DC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO D 510 |
| Chain | Residue |
| D | GLU188 |
| D | HIS247 |
| D | GLU251 |
| site_id | DC8 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE CO D 511 |
| Chain | Residue |
| D | HIS462 |
| site_id | DC9 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CO D 512 |
| Chain | Residue |
| D | LEU63 |
| D | HIS67 |
| site_id | EC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO D 513 |
| Chain | Residue |
| D | HIS158 |
| D | GLU168 |
| D | SO4504 |
| site_id | EC2 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CO D 514 |
| Chain | Residue |
| D | THR97 |
| D | ASP102 |
| D | HIS282 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 692 |
| Details | Region: {"description":"Absent in class-A beta-lactamases"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Acyl-ester intermediate"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Proton acceptor"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | Active site: {"evidences":[{"evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | Binding site: {} |
| Chain | Residue | Details |
