3SB5
Zn-mediated Trimer of T4 Lysozyme R125C/E128C by Synthetic Symmetrization
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003796 | molecular_function | lysozyme activity |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0009253 | biological_process | peptidoglycan catabolic process |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016798 | molecular_function | hydrolase activity, acting on glycosyl bonds |
| A | 0016998 | biological_process | cell wall macromolecule catabolic process |
| A | 0030430 | cellular_component | host cell cytoplasm |
| A | 0031640 | biological_process | killing of cells of another organism |
| A | 0042742 | biological_process | defense response to bacterium |
| A | 0044659 | biological_process | viral release from host cell by cytolysis |
| B | 0003796 | molecular_function | lysozyme activity |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0009253 | biological_process | peptidoglycan catabolic process |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0016798 | molecular_function | hydrolase activity, acting on glycosyl bonds |
| B | 0016998 | biological_process | cell wall macromolecule catabolic process |
| B | 0030430 | cellular_component | host cell cytoplasm |
| B | 0031640 | biological_process | killing of cells of another organism |
| B | 0042742 | biological_process | defense response to bacterium |
| B | 0044659 | biological_process | viral release from host cell by cytolysis |
| C | 0003796 | molecular_function | lysozyme activity |
| C | 0003824 | molecular_function | catalytic activity |
| C | 0009253 | biological_process | peptidoglycan catabolic process |
| C | 0016787 | molecular_function | hydrolase activity |
| C | 0016798 | molecular_function | hydrolase activity, acting on glycosyl bonds |
| C | 0016998 | biological_process | cell wall macromolecule catabolic process |
| C | 0030430 | cellular_component | host cell cytoplasm |
| C | 0031640 | biological_process | killing of cells of another organism |
| C | 0042742 | biological_process | defense response to bacterium |
| C | 0044659 | biological_process | viral release from host cell by cytolysis |
| D | 0003796 | molecular_function | lysozyme activity |
| D | 0003824 | molecular_function | catalytic activity |
| D | 0009253 | biological_process | peptidoglycan catabolic process |
| D | 0016787 | molecular_function | hydrolase activity |
| D | 0016798 | molecular_function | hydrolase activity, acting on glycosyl bonds |
| D | 0016998 | biological_process | cell wall macromolecule catabolic process |
| D | 0030430 | cellular_component | host cell cytoplasm |
| D | 0031640 | biological_process | killing of cells of another organism |
| D | 0042742 | biological_process | defense response to bacterium |
| D | 0044659 | biological_process | viral release from host cell by cytolysis |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN A 163 |
| Chain | Residue |
| A | CYS125 |
| A | CYS125 |
| A | CYS128 |
| A | CL166 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ZN A 164 |
| Chain | Residue |
| A | CL169 |
| A | CYS128 |
| A | CYS128 |
| A | CYS128 |
| A | CL169 |
| A | CL169 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN D 163 |
| Chain | Residue |
| D | CYS125 |
| D | CYS125 |
| D | CYS128 |
| D | CL167 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ZN D 164 |
| Chain | Residue |
| D | CYS128 |
| D | CYS128 |
| D | CYS128 |
| D | CL171 |
| D | CL171 |
| D | CL171 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ZN B 163 |
| Chain | Residue |
| B | CYS128 |
| B | CYS128 |
| B | CYS128 |
| B | CL170 |
| B | CL170 |
| B | CL170 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN B 164 |
| Chain | Residue |
| B | CYS125 |
| B | CYS125 |
| B | CYS128 |
| B | CL165 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN C 163 |
| Chain | Residue |
| C | CYS125 |
| C | CYS125 |
| C | CYS128 |
| C | CL165 |
| site_id | AC8 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ZN C 164 |
| Chain | Residue |
| C | CYS128 |
| C | CYS128 |
| C | CYS128 |
| C | CL167 |
| C | CL167 |
| C | CL167 |
| site_id | AC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL C 165 |
| Chain | Residue |
| C | GLN123 |
| C | CYS125 |
| C | ASP127 |
| C | CYS128 |
| C | ZN163 |
| site_id | BC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL A 165 |
| Chain | Residue |
| A | GLU11 |
| A | ILE29 |
| A | GLY30 |
| A | ASP70 |
| A | PHE104 |
| site_id | BC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL B 165 |
| Chain | Residue |
| B | CYS125 |
| B | ASP127 |
| B | CYS128 |
| B | ZN164 |
| site_id | BC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 166 |
| Chain | Residue |
| A | GLN123 |
| A | ASP127 |
| A | CYS128 |
| A | ZN163 |
| site_id | BC4 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE GOL D 165 |
| Chain | Residue |
| C | TYR25 |
| C | PRO37 |
| C | SER38 |
| C | LEU39 |
| D | ILE9 |
| D | ASP10 |
| D | ASN144 |
| D | ARG145 |
| D | ARG148 |
| D | MG166 |
| D | HOH193 |
| D | HOH223 |
| site_id | BC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MG B 166 |
| Chain | Residue |
| B | THR142 |
| B | ASN144 |
| B | ARG145 |
| B | GOL169 |
| site_id | BC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG D 166 |
| Chain | Residue |
| D | THR142 |
| D | ASN144 |
| D | ARG145 |
| D | GOL165 |
| D | HOH193 |
| site_id | BC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE MG A 167 |
| Chain | Residue |
| A | THR142 |
| A | ASN144 |
| A | ARG145 |
| site_id | BC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL D 167 |
| Chain | Residue |
| D | GLN123 |
| D | CYS125 |
| D | ASP127 |
| D | CYS128 |
| D | ZN163 |
| site_id | BC9 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE MG B 167 |
| Chain | Residue |
| B | HOH177 |
| site_id | CC1 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL A 168 |
| Chain | Residue |
| A | SER90 |
| A | LEU91 |
| A | LEU121 |
| A | GLN122 |
| A | LYS124 |
| A | TRP126 |
| A | HOH178 |
| D | TRP126 |
| site_id | CC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL B 168 |
| Chain | Residue |
| B | LYS147 |
| B | ILE150 |
| B | THR151 |
| B | HOH196 |
| B | HOH224 |
| B | ALA130 |
| B | ALA134 |
| B | TYR139 |
| site_id | CC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE MG D 168 |
| Chain | Residue |
| D | GLU11 |
| D | HOH226 |
| D | HOH227 |
| D | HOH228 |
| D | HOH229 |
| D | HOH230 |
| D | HOH231 |
| site_id | CC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL D 169 |
| Chain | Residue |
| D | TYR88 |
| D | ALA93 |
| D | ARG96 |
| D | ILE100 |
| D | HOH177 |
| site_id | CC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE GOL C 166 |
| Chain | Residue |
| C | ILE29 |
| C | GLY30 |
| C | ASP70 |
| C | PHE104 |
| site_id | CC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL B 169 |
| Chain | Residue |
| B | ASP10 |
| B | THR142 |
| B | ARG145 |
| B | ARG148 |
| B | MG166 |
| site_id | CC7 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE GOL D 170 |
| Chain | Residue |
| C | LYS35 |
| C | SER36 |
| D | TYR18 |
| D | LYS19 |
| D | HOH212 |
| site_id | CC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL D 171 |
| Chain | Residue |
| D | CYS128 |
| D | CYS128 |
| D | ZN164 |
| D | ZN164 |
| D | ZN164 |
| site_id | CC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL A 169 |
| Chain | Residue |
| A | CYS128 |
| A | CYS128 |
| A | ZN164 |
| A | ZN164 |
| A | ZN164 |
| site_id | DC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CL B 170 |
| Chain | Residue |
| B | ZN163 |
| B | ZN163 |
| B | ZN163 |
| site_id | DC2 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CL C 167 |
| Chain | Residue |
| C | ZN164 |
| C | ZN164 |
| C | ZN164 |
| site_id | DC3 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE GOL A 170 |
| Chain | Residue |
| A | ALA93 |
| site_id | DC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MG A 171 |
| Chain | Residue |
| A | PHE114 |
| A | SER117 |
| A | ASN132 |
| B | ARG137 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | ACT_SITE: Proton donor/acceptor => ECO:0000255|HAMAP-Rule:MF_04110, ECO:0000269|PubMed:3382407, ECO:0000269|PubMed:7831309, ECO:0000269|PubMed:8266098 |
| Chain | Residue | Details |
| B | GLU11 | |
| A | GLU11 | |
| C | GLU11 | |
| D | GLU11 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | ACT_SITE: Proton donor/acceptor => ECO:0000255|HAMAP-Rule:MF_04110, ECO:0000269|PubMed:1892846, ECO:0000269|PubMed:3382407, ECO:0000269|PubMed:7831309, ECO:0000269|PubMed:8266098 |
| Chain | Residue | Details |
| B | ASP20 | |
| A | ASP20 | |
| C | ASP20 | |
| D | ASP20 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 8 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:8266098 |
| Chain | Residue | Details |
| B | LEU32 | |
| B | PHE104 | |
| A | LEU32 | |
| A | PHE104 | |
| C | LEU32 | |
| C | PHE104 | |
| D | LEU32 | |
| D | PHE104 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 8 |
| Details | BINDING: BINDING => ECO:0000303|PubMed:7831309 |
| Chain | Residue | Details |
| B | SER117 | |
| B | ASN132 | |
| A | SER117 | |
| A | ASN132 | |
| C | SER117 | |
| C | ASN132 | |
| D | SER117 | |
| D | ASN132 |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 2 |
| Details | M-CSA 921 |
| Chain | Residue | Details |
| A | GLU11 | proton shuttle (general acid/base) |
| A | ASP20 | covalent catalysis |
| site_id | MCSA2 |
| Number of Residues | 2 |
| Details | M-CSA 921 |
| Chain | Residue | Details |
| B | GLU11 | proton shuttle (general acid/base) |
| B | ASP20 | covalent catalysis |
| site_id | MCSA3 |
| Number of Residues | 2 |
| Details | M-CSA 921 |
| Chain | Residue | Details |
| C | GLU11 | proton shuttle (general acid/base) |
| C | ASP20 | covalent catalysis |
| site_id | MCSA4 |
| Number of Residues | 2 |
| Details | M-CSA 921 |
| Chain | Residue | Details |
| D | GLU11 | proton shuttle (general acid/base) |
| D | ASP20 | covalent catalysis |
