6Z9I
Escherichia coli D-2-deoxyribose-5-phosphate aldolase - N21K mutant complex with reaction products
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004139 | molecular_function | deoxyribose-phosphate aldolase activity |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0006018 | biological_process | 2-deoxyribose 1-phosphate catabolic process |
| A | 0006974 | biological_process | DNA damage response |
| A | 0009264 | biological_process | deoxyribonucleotide catabolic process |
| A | 0015949 | biological_process | nucleobase-containing small molecule interconversion |
| A | 0016020 | cellular_component | membrane |
| A | 0016052 | biological_process | carbohydrate catabolic process |
| A | 0016829 | molecular_function | lyase activity |
| A | 0046121 | biological_process | deoxyribonucleoside catabolic process |
| A | 0046386 | biological_process | deoxyribose phosphate catabolic process |
| B | 0004139 | molecular_function | deoxyribose-phosphate aldolase activity |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0006018 | biological_process | 2-deoxyribose 1-phosphate catabolic process |
| B | 0006974 | biological_process | DNA damage response |
| B | 0009264 | biological_process | deoxyribonucleotide catabolic process |
| B | 0015949 | biological_process | nucleobase-containing small molecule interconversion |
| B | 0016020 | cellular_component | membrane |
| B | 0016052 | biological_process | carbohydrate catabolic process |
| B | 0016829 | molecular_function | lyase activity |
| B | 0046121 | biological_process | deoxyribonucleoside catabolic process |
| B | 0046386 | biological_process | deoxyribose phosphate catabolic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 301 |
| Chain | Residue |
| A | LYS167 |
| A | SER169 |
| A | THR170 |
| A | HOH554 |
| site_id | AC2 |
| Number of Residues | 3 |
| Details | binding site for residue MG A 302 |
| Chain | Residue |
| A | HOH418 |
| A | HOH682 |
| A | HOH750 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | binding site for residue MG A 303 |
| Chain | Residue |
| A | HOH570 |
| A | HOH611 |
| A | ASP81 |
| A | HOH421 |
| site_id | AC4 |
| Number of Residues | 15 |
| Details | binding site for residue G3H B 302 |
| Chain | Residue |
| B | THR18 |
| B | LYS167 |
| B | THR170 |
| B | GLY204 |
| B | GLY205 |
| B | ARG207 |
| B | GLY236 |
| B | ALA237 |
| B | SER238 |
| B | EDO301 |
| B | HOH402 |
| B | HOH407 |
| B | HOH465 |
| B | HOH513 |
| B | HOH572 |
| site_id | AC5 |
| Number of Residues | 13 |
| Details | binding site for Di-peptide EDO B 301 and LYS B 167 |
| Chain | Residue |
| B | VAL73 |
| B | PHE76 |
| B | ASP102 |
| B | VAL138 |
| B | ILE139 |
| B | ILE140 |
| B | ILE166 |
| B | THR168 |
| B | SER169 |
| B | THR170 |
| B | LYS201 |
| B | ALA203 |
| B | G3H302 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_00592","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"11598300","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Schiff-base intermediate with acetaldehyde","evidences":[{"source":"HAMAP-Rule","id":"MF_00592","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"11598300","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15476818","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_00592","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"11598300","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"15476818","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 3 |
| Details | M-CSA 613 |
| Chain | Residue | Details |
| A | ASP102 | increase nucleophilicity, proton acceptor, proton donor, proton relay |
| A | LYS167 | covalently attached, electron pair acceptor, electron pair donor, nucleofuge, nucleophile, proton acceptor, proton donor |
| A | LYS201 | increase nucleophilicity, proton acceptor, proton donor, proton relay |
| site_id | MCSA2 |
| Number of Residues | 3 |
| Details | M-CSA 613 |
| Chain | Residue | Details |
| B | ASP102 | increase nucleophilicity, proton acceptor, proton donor, proton relay |
| B | LYS167 | covalently attached, electron pair acceptor, electron pair donor, nucleofuge, nucleophile, proton acceptor, proton donor |
| B | LYS201 | increase nucleophilicity, proton acceptor, proton donor, proton relay |
