3B9X
Crystal structure of the E. coli pyrimidine nucleoside hydrolase YeiK in complex with inosine
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005509 | molecular_function | calcium ion binding |
| A | 0006206 | biological_process | pyrimidine nucleobase metabolic process |
| A | 0016799 | molecular_function | hydrolase activity, hydrolyzing N-glycosyl compounds |
| A | 0032991 | cellular_component | protein-containing complex |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0045437 | molecular_function | uridine nucleosidase activity |
| A | 0046133 | biological_process | pyrimidine ribonucleoside catabolic process |
| A | 0050263 | molecular_function | ribosylpyrimidine nucleosidase activity |
| A | 0051289 | biological_process | protein homotetramerization |
| B | 0005509 | molecular_function | calcium ion binding |
| B | 0006206 | biological_process | pyrimidine nucleobase metabolic process |
| B | 0016799 | molecular_function | hydrolase activity, hydrolyzing N-glycosyl compounds |
| B | 0032991 | cellular_component | protein-containing complex |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0045437 | molecular_function | uridine nucleosidase activity |
| B | 0046133 | biological_process | pyrimidine ribonucleoside catabolic process |
| B | 0050263 | molecular_function | ribosylpyrimidine nucleosidase activity |
| B | 0051289 | biological_process | protein homotetramerization |
| C | 0005509 | molecular_function | calcium ion binding |
| C | 0006206 | biological_process | pyrimidine nucleobase metabolic process |
| C | 0016799 | molecular_function | hydrolase activity, hydrolyzing N-glycosyl compounds |
| C | 0032991 | cellular_component | protein-containing complex |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0045437 | molecular_function | uridine nucleosidase activity |
| C | 0046133 | biological_process | pyrimidine ribonucleoside catabolic process |
| C | 0050263 | molecular_function | ribosylpyrimidine nucleosidase activity |
| C | 0051289 | biological_process | protein homotetramerization |
| D | 0005509 | molecular_function | calcium ion binding |
| D | 0006206 | biological_process | pyrimidine nucleobase metabolic process |
| D | 0016799 | molecular_function | hydrolase activity, hydrolyzing N-glycosyl compounds |
| D | 0032991 | cellular_component | protein-containing complex |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0045437 | molecular_function | uridine nucleosidase activity |
| D | 0046133 | biological_process | pyrimidine ribonucleoside catabolic process |
| D | 0050263 | molecular_function | ribosylpyrimidine nucleosidase activity |
| D | 0051289 | biological_process | protein homotetramerization |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CA A 400 |
| Chain | Residue |
| A | ASP11 |
| A | ASP16 |
| A | ASP240 |
| A | HOH502 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CA B 400 |
| Chain | Residue |
| B | ASP11 |
| B | ASP16 |
| B | ASN40 |
| B | ASP240 |
| B | HOH404 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CA C 400 |
| Chain | Residue |
| C | ASP11 |
| C | ASP16 |
| C | ASN40 |
| C | ASP240 |
| C | HOH433 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CA D 400 |
| Chain | Residue |
| D | ASP11 |
| D | ASP16 |
| D | ASN40 |
| D | ASP240 |
| D | HOH417 |
| site_id | AC5 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE NOS A 401 |
| Chain | Residue |
| A | ASP15 |
| A | ASP16 |
| A | ASN40 |
| A | ILE81 |
| A | HIS82 |
| A | MET150 |
| A | ASN158 |
| A | GLU164 |
| A | PHE165 |
| A | ASN166 |
| A | GLN227 |
| A | TYR231 |
| A | HIS239 |
| A | ASP240 |
| A | HOH502 |
| site_id | AC6 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE NOS B 401 |
| Chain | Residue |
| B | ASP15 |
| B | ASP16 |
| B | ASN40 |
| B | MET150 |
| B | ASN158 |
| B | GLU164 |
| B | PHE165 |
| B | ASN166 |
| B | GLN227 |
| B | TYR231 |
| B | ASP240 |
| site_id | AC7 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE NOS C 401 |
| Chain | Residue |
| C | ASP15 |
| C | ASP16 |
| C | ASN40 |
| C | ALA78 |
| C | MET150 |
| C | ASN158 |
| C | GLU164 |
| C | ASN166 |
| C | ASP240 |
| site_id | AC8 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE NOS D 401 |
| Chain | Residue |
| D | ASP15 |
| D | ASP16 |
| D | ASN40 |
| D | ALA78 |
| D | ILE81 |
| D | HIS82 |
| D | MET150 |
| D | ASN158 |
| D | GLU164 |
| D | PHE165 |
| D | ASN166 |
| D | GLN227 |
| D | TYR231 |
| D | ASP240 |
| D | HOH417 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE TAM D 402 |
| Chain | Residue |
| C | MET136 |
| C | GLN137 |
| D | LEU43 |
| D | GLY66 |
| D | PRO68 |
| D | HIS103 |
Functional Information from PROSITE/UniProt
| site_id | PS01247 |
| Number of Residues | 11 |
| Details | IUNH Inosine-uridine preferring nucleoside hydrolase family signature. DcDPGhDDAIA |
| Chain | Residue | Details |
| A | ASP9-ALA19 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Proton acceptor","evidences":[{"evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 16 |
| Details | Binding site: {} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 7 |
| Details | Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1mas |
| Chain | Residue | Details |
| A | ASN166 | |
| A | ASP11 | |
| A | HIS239 |
| site_id | CSA2 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1mas |
| Chain | Residue | Details |
| B | ASN166 | |
| B | ASP11 | |
| B | HIS239 |
| site_id | CSA3 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1mas |
| Chain | Residue | Details |
| C | ASN166 | |
| C | ASP11 | |
| C | HIS239 |
| site_id | CSA4 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1mas |
| Chain | Residue | Details |
| D | ASN166 | |
| D | ASP11 | |
| D | HIS239 |
