4EG2
2.2 Angstrom Crystal Structure of Cytidine deaminase from Vibrio cholerae in Complex with Zinc and Uridine
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0004126 | molecular_function | cytidine deaminase activity |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| A | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0004126 | molecular_function | cytidine deaminase activity |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0008270 | molecular_function | zinc ion binding |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| B | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| C | 0003824 | molecular_function | catalytic activity |
| C | 0004126 | molecular_function | cytidine deaminase activity |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0008270 | molecular_function | zinc ion binding |
| C | 0016787 | molecular_function | hydrolase activity |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| C | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| D | 0003824 | molecular_function | catalytic activity |
| D | 0004126 | molecular_function | cytidine deaminase activity |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0008270 | molecular_function | zinc ion binding |
| D | 0016787 | molecular_function | hydrolase activity |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0046872 | molecular_function | metal ion binding |
| D | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| D | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| E | 0003824 | molecular_function | catalytic activity |
| E | 0004126 | molecular_function | cytidine deaminase activity |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0005829 | cellular_component | cytosol |
| E | 0008270 | molecular_function | zinc ion binding |
| E | 0016787 | molecular_function | hydrolase activity |
| E | 0042802 | molecular_function | identical protein binding |
| E | 0046872 | molecular_function | metal ion binding |
| E | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| E | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| F | 0003824 | molecular_function | catalytic activity |
| F | 0004126 | molecular_function | cytidine deaminase activity |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0005829 | cellular_component | cytosol |
| F | 0008270 | molecular_function | zinc ion binding |
| F | 0016787 | molecular_function | hydrolase activity |
| F | 0042802 | molecular_function | identical protein binding |
| F | 0046872 | molecular_function | metal ion binding |
| F | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| F | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| G | 0003824 | molecular_function | catalytic activity |
| G | 0004126 | molecular_function | cytidine deaminase activity |
| G | 0005737 | cellular_component | cytoplasm |
| G | 0005829 | cellular_component | cytosol |
| G | 0008270 | molecular_function | zinc ion binding |
| G | 0016787 | molecular_function | hydrolase activity |
| G | 0042802 | molecular_function | identical protein binding |
| G | 0046872 | molecular_function | metal ion binding |
| G | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| G | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
| H | 0003824 | molecular_function | catalytic activity |
| H | 0004126 | molecular_function | cytidine deaminase activity |
| H | 0005737 | cellular_component | cytoplasm |
| H | 0005829 | cellular_component | cytosol |
| H | 0008270 | molecular_function | zinc ion binding |
| H | 0016787 | molecular_function | hydrolase activity |
| H | 0042802 | molecular_function | identical protein binding |
| H | 0046872 | molecular_function | metal ion binding |
| H | 0055086 | biological_process | nucleobase-containing small molecule metabolic process |
| H | 0072527 | biological_process | pyrimidine-containing compound metabolic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN A 301 |
| Chain | Residue |
| A | HIS102 |
| A | CYS129 |
| A | CYS132 |
| A | URI302 |
| site_id | AC2 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE URI A 302 |
| Chain | Residue |
| A | VAL101 |
| A | HIS102 |
| A | ALA103 |
| A | GLU104 |
| A | PRO128 |
| A | CYS129 |
| A | ZN301 |
| A | HOH514 |
| B | ALA232 |
| A | PHE71 |
| A | VAL73 |
| A | ASN89 |
| A | GLU91 |
| A | THR100 |
| site_id | AC3 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT A 303 |
| Chain | Residue |
| A | GLU253 |
| A | PHE255 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG B 301 |
| Chain | Residue |
| B | HOH499 |
| B | HOH604 |
| B | HOH605 |
| E | HOH551 |
| E | HOH552 |
| F | HOH559 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN B 302 |
| Chain | Residue |
| B | HIS102 |
| B | CYS129 |
| B | CYS132 |
| B | URI303 |
| site_id | AC6 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE URI B 303 |
| Chain | Residue |
| A | ALA232 |
| A | ALA233 |
| B | PHE71 |
| B | VAL73 |
| B | ASN89 |
| B | GLU91 |
| B | THR100 |
| B | VAL101 |
| B | HIS102 |
| B | ALA103 |
| B | GLU104 |
| B | PRO128 |
| B | CYS129 |
| B | ZN302 |
| site_id | AC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 304 |
| Chain | Residue |
| B | TYR65 |
| B | GLU253 |
| B | PHE255 |
| site_id | AC8 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN C 301 |
| Chain | Residue |
| C | HIS102 |
| C | CYS129 |
| C | CYS132 |
| C | URI302 |
| site_id | AC9 |
| Number of Residues | 13 |
| Details | BINDING SITE FOR RESIDUE URI C 302 |
| Chain | Residue |
| C | PHE71 |
| C | ASN89 |
| C | GLU91 |
| C | THR100 |
| C | VAL101 |
| C | HIS102 |
| C | ALA103 |
| C | GLU104 |
| C | PRO128 |
| C | CYS129 |
| C | ZN301 |
| D | ALA232 |
| D | ALA233 |
| site_id | BC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN D 301 |
| Chain | Residue |
| D | HIS102 |
| D | CYS129 |
| D | CYS132 |
| D | URI302 |
| site_id | BC2 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE URI D 302 |
| Chain | Residue |
| C | PHE165 |
| C | ALA232 |
| C | ALA233 |
| C | PHE234 |
| D | PHE71 |
| D | VAL73 |
| D | ASN89 |
| D | GLU91 |
| D | THR100 |
| D | VAL101 |
| D | HIS102 |
| D | ALA103 |
| D | GLU104 |
| D | PRO128 |
| D | CYS129 |
| D | ZN301 |
| site_id | BC3 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT D 303 |
| Chain | Residue |
| B | ARG198 |
| D | GLN40 |
| site_id | BC4 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT D 304 |
| Chain | Residue |
| D | TYR65 |
| D | GLU253 |
| D | PHE255 |
| site_id | BC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN E 301 |
| Chain | Residue |
| E | HIS102 |
| E | CYS129 |
| E | CYS132 |
| E | URI302 |
| site_id | BC6 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE URI E 302 |
| Chain | Residue |
| E | ALA103 |
| E | GLU104 |
| E | PRO128 |
| E | CYS129 |
| E | ZN301 |
| F | ALA232 |
| F | ALA233 |
| F | PHE234 |
| E | PHE71 |
| E | VAL73 |
| E | ASN89 |
| E | GLU91 |
| E | THR100 |
| E | HIS102 |
| site_id | BC7 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT E 303 |
| Chain | Residue |
| E | GLU253 |
| E | PHE255 |
| site_id | BC8 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACT E 304 |
| Chain | Residue |
| E | ARG4 |
| E | ALA66 |
| E | GLU70 |
| E | TYR72 |
| site_id | BC9 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT E 305 |
| Chain | Residue |
| E | ASP51 |
| E | LYS151 |
| E | ARG152 |
| site_id | CC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN F 301 |
| Chain | Residue |
| F | HIS102 |
| F | CYS129 |
| F | CYS132 |
| F | URI302 |
| site_id | CC2 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE URI F 302 |
| Chain | Residue |
| E | ALA232 |
| E | ALA233 |
| F | PHE71 |
| F | VAL73 |
| F | ASN89 |
| F | GLU91 |
| F | THR100 |
| F | VAL101 |
| F | HIS102 |
| F | ALA103 |
| F | GLU104 |
| F | PRO128 |
| F | CYS129 |
| F | ZN301 |
| site_id | CC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT F 303 |
| Chain | Residue |
| F | TYR65 |
| F | GLU253 |
| F | PHE255 |
| site_id | CC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN G 301 |
| Chain | Residue |
| G | HIS102 |
| G | CYS129 |
| G | CYS132 |
| G | URI302 |
| site_id | CC5 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE URI G 302 |
| Chain | Residue |
| G | PHE71 |
| G | VAL73 |
| G | ASN89 |
| G | GLU91 |
| G | THR100 |
| G | VAL101 |
| G | HIS102 |
| G | ALA103 |
| G | GLU104 |
| G | SER127 |
| G | PRO128 |
| G | CYS129 |
| G | ZN301 |
| H | ALA232 |
| H | ALA233 |
| H | PHE234 |
| site_id | CC6 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT G 303 |
| Chain | Residue |
| G | GLU253 |
| G | PHE255 |
| site_id | CC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN H 301 |
| Chain | Residue |
| H | HIS102 |
| H | CYS129 |
| H | CYS132 |
| H | URI302 |
| site_id | CC8 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE URI H 302 |
| Chain | Residue |
| G | ALA232 |
| G | PHE234 |
| H | ASN89 |
| H | GLU91 |
| H | THR100 |
| H | VAL101 |
| H | HIS102 |
| H | ALA103 |
| H | GLU104 |
| H | PRO128 |
| H | CYS129 |
| H | ZN301 |
Functional Information from PROSITE/UniProt
| site_id | PS00903 |
| Number of Residues | 35 |
| Details | CYT_DCMP_DEAMINASES_1 Cytidine and deoxycytidylate deaminases zinc-binding region signature. HAEqcAIshawmkgekgvaditinfs..............PCgh......CrqfM |
| Chain | Residue | Details |
| A | HIS102-MSE136 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | Active site: {"description":"Proton donor","evidences":[{"source":"HAMAP-Rule","id":"MF_01558","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 24 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_01558","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
