4P9C
Crystal structure of dCMP deaminase from the cyanophage S-TIM5 in complex with dCMP and dUMP
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0004132 | molecular_function | dCMP deaminase activity |
| A | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0046872 | molecular_function | metal ion binding |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0004132 | molecular_function | dCMP deaminase activity |
| B | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| B | 0008270 | molecular_function | zinc ion binding |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0046872 | molecular_function | metal ion binding |
| C | 0000166 | molecular_function | nucleotide binding |
| C | 0003824 | molecular_function | catalytic activity |
| C | 0004132 | molecular_function | dCMP deaminase activity |
| C | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| C | 0008270 | molecular_function | zinc ion binding |
| C | 0016787 | molecular_function | hydrolase activity |
| C | 0046872 | molecular_function | metal ion binding |
| D | 0000166 | molecular_function | nucleotide binding |
| D | 0003824 | molecular_function | catalytic activity |
| D | 0004132 | molecular_function | dCMP deaminase activity |
| D | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| D | 0008270 | molecular_function | zinc ion binding |
| D | 0016787 | molecular_function | hydrolase activity |
| D | 0046872 | molecular_function | metal ion binding |
| E | 0000166 | molecular_function | nucleotide binding |
| E | 0003824 | molecular_function | catalytic activity |
| E | 0004132 | molecular_function | dCMP deaminase activity |
| E | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| E | 0008270 | molecular_function | zinc ion binding |
| E | 0016787 | molecular_function | hydrolase activity |
| E | 0046872 | molecular_function | metal ion binding |
| F | 0000166 | molecular_function | nucleotide binding |
| F | 0003824 | molecular_function | catalytic activity |
| F | 0004132 | molecular_function | dCMP deaminase activity |
| F | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| F | 0008270 | molecular_function | zinc ion binding |
| F | 0016787 | molecular_function | hydrolase activity |
| F | 0046872 | molecular_function | metal ion binding |
| G | 0000166 | molecular_function | nucleotide binding |
| G | 0003824 | molecular_function | catalytic activity |
| G | 0004132 | molecular_function | dCMP deaminase activity |
| G | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| G | 0008270 | molecular_function | zinc ion binding |
| G | 0016787 | molecular_function | hydrolase activity |
| G | 0046872 | molecular_function | metal ion binding |
| H | 0000166 | molecular_function | nucleotide binding |
| H | 0003824 | molecular_function | catalytic activity |
| H | 0004132 | molecular_function | dCMP deaminase activity |
| H | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| H | 0008270 | molecular_function | zinc ion binding |
| H | 0016787 | molecular_function | hydrolase activity |
| H | 0046872 | molecular_function | metal ion binding |
| I | 0000166 | molecular_function | nucleotide binding |
| I | 0003824 | molecular_function | catalytic activity |
| I | 0004132 | molecular_function | dCMP deaminase activity |
| I | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| I | 0008270 | molecular_function | zinc ion binding |
| I | 0016787 | molecular_function | hydrolase activity |
| I | 0046872 | molecular_function | metal ion binding |
| J | 0000166 | molecular_function | nucleotide binding |
| J | 0003824 | molecular_function | catalytic activity |
| J | 0004132 | molecular_function | dCMP deaminase activity |
| J | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| J | 0008270 | molecular_function | zinc ion binding |
| J | 0016787 | molecular_function | hydrolase activity |
| J | 0046872 | molecular_function | metal ion binding |
| K | 0000166 | molecular_function | nucleotide binding |
| K | 0003824 | molecular_function | catalytic activity |
| K | 0004132 | molecular_function | dCMP deaminase activity |
| K | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| K | 0008270 | molecular_function | zinc ion binding |
| K | 0016787 | molecular_function | hydrolase activity |
| K | 0046872 | molecular_function | metal ion binding |
| L | 0000166 | molecular_function | nucleotide binding |
| L | 0003824 | molecular_function | catalytic activity |
| L | 0004132 | molecular_function | dCMP deaminase activity |
| L | 0006220 | biological_process | pyrimidine nucleotide metabolic process |
| L | 0008270 | molecular_function | zinc ion binding |
| L | 0016787 | molecular_function | hydrolase activity |
| L | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | binding site for residue ZN A 201 |
| Chain | Residue |
| A | HIS67 |
| A | GLU69 |
| A | CYS95 |
| A | CYS98 |
| A | DU203 |
| site_id | AC2 |
| Number of Residues | 10 |
| Details | binding site for residue DCM A 202 |
| Chain | Residue |
| A | THR45 |
| A | SER47 |
| A | ASN71 |
| A | LYS75 |
| A | HOH325 |
| L | GLN104 |
| A | HIS40 |
| A | GLY41 |
| A | TRP42 |
| A | GLY44 |
| site_id | AC3 |
| Number of Residues | 14 |
| Details | binding site for residue DU A 203 |
| Chain | Residue |
| A | CYS22 |
| A | ARG24 |
| A | VAL27 |
| A | ASN43 |
| A | THR61 |
| A | HIS67 |
| A | ALA68 |
| A | GLU69 |
| A | CYS95 |
| A | TYR116 |
| A | ARG117 |
| A | ZN201 |
| A | HOH301 |
| A | HOH317 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | binding site for residue ZN B 201 |
| Chain | Residue |
| B | HIS67 |
| B | GLU69 |
| B | CYS95 |
| B | CYS98 |
| B | DU203 |
| B | HOH335 |
| site_id | AC5 |
| Number of Residues | 10 |
| Details | binding site for residue DCM B 202 |
| Chain | Residue |
| B | HIS40 |
| B | GLY41 |
| B | TRP42 |
| B | GLY44 |
| B | THR45 |
| B | SER47 |
| B | ASN71 |
| B | LYS75 |
| B | HOH331 |
| G | GLN104 |
| site_id | AC6 |
| Number of Residues | 16 |
| Details | binding site for residue DU B 203 |
| Chain | Residue |
| B | CYS22 |
| B | ARG24 |
| B | VAL27 |
| B | ASN43 |
| B | THR61 |
| B | HIS67 |
| B | ALA68 |
| B | GLU69 |
| B | CYS95 |
| B | TYR116 |
| B | ARG117 |
| B | ZN201 |
| B | HOH304 |
| B | HOH311 |
| B | HOH334 |
| B | HOH335 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | binding site for residue ZN C 201 |
| Chain | Residue |
| C | HIS67 |
| C | GLU69 |
| C | CYS95 |
| C | CYS98 |
| C | DU203 |
| site_id | AC8 |
| Number of Residues | 12 |
| Details | binding site for residue DCM C 202 |
| Chain | Residue |
| C | HIS40 |
| C | GLY41 |
| C | TRP42 |
| C | GLY44 |
| C | THR45 |
| C | SER47 |
| C | ASN71 |
| C | LYS75 |
| C | HOH310 |
| H | GLN104 |
| I | LYS2 |
| I | GLY35 |
| site_id | AC9 |
| Number of Residues | 15 |
| Details | binding site for residue DU C 203 |
| Chain | Residue |
| C | CYS22 |
| C | ARG24 |
| C | VAL27 |
| C | ASN43 |
| C | THR61 |
| C | HIS67 |
| C | ALA68 |
| C | GLU69 |
| C | CYS95 |
| C | TYR116 |
| C | ARG117 |
| C | ZN201 |
| C | HOH301 |
| C | HOH322 |
| D | HOH301 |
| site_id | AD1 |
| Number of Residues | 5 |
| Details | binding site for residue ZN D 201 |
| Chain | Residue |
| D | HIS67 |
| D | GLU69 |
| D | CYS95 |
| D | CYS98 |
| D | DU203 |
| site_id | AD2 |
| Number of Residues | 9 |
| Details | binding site for residue DCM D 202 |
| Chain | Residue |
| D | GLY41 |
| D | TRP42 |
| D | GLY44 |
| D | THR45 |
| D | SER47 |
| D | ASN71 |
| D | HOH332 |
| I | GLN104 |
| D | HIS40 |
| site_id | AD3 |
| Number of Residues | 14 |
| Details | binding site for residue DU D 203 |
| Chain | Residue |
| C | HOH304 |
| D | CYS22 |
| D | ARG24 |
| D | VAL27 |
| D | ASN43 |
| D | THR61 |
| D | HIS67 |
| D | ALA68 |
| D | GLU69 |
| D | CYS95 |
| D | TYR116 |
| D | ARG117 |
| D | ZN201 |
| D | HOH307 |
| site_id | AD4 |
| Number of Residues | 5 |
| Details | binding site for residue ZN E 201 |
| Chain | Residue |
| E | HIS67 |
| E | GLU69 |
| E | CYS95 |
| E | CYS98 |
| E | DU203 |
| site_id | AD5 |
| Number of Residues | 9 |
| Details | binding site for residue DCM E 202 |
| Chain | Residue |
| E | HIS40 |
| E | GLY41 |
| E | TRP42 |
| E | GLY44 |
| E | THR45 |
| E | SER47 |
| E | ASN71 |
| E | LYS75 |
| K | GLN104 |
| site_id | AD6 |
| Number of Residues | 15 |
| Details | binding site for residue DU E 203 |
| Chain | Residue |
| E | CYS22 |
| E | ARG24 |
| E | VAL27 |
| E | ASN43 |
| E | THR61 |
| E | HIS67 |
| E | ALA68 |
| E | GLU69 |
| E | CYS95 |
| E | TYR116 |
| E | ARG117 |
| E | ZN201 |
| E | HOH304 |
| E | HOH320 |
| E | HOH329 |
| site_id | AD7 |
| Number of Residues | 5 |
| Details | binding site for residue ZN F 201 |
| Chain | Residue |
| F | HIS67 |
| F | GLU69 |
| F | CYS95 |
| F | CYS98 |
| F | DU203 |
| site_id | AD8 |
| Number of Residues | 10 |
| Details | binding site for residue DCM F 202 |
| Chain | Residue |
| F | HIS40 |
| F | GLY41 |
| F | TRP42 |
| F | GLY44 |
| F | THR45 |
| F | SER47 |
| F | ASN71 |
| F | HOH321 |
| J | GLN104 |
| L | HOH305 |
| site_id | AD9 |
| Number of Residues | 14 |
| Details | binding site for residue DU F 203 |
| Chain | Residue |
| F | CYS22 |
| F | ARG24 |
| F | VAL27 |
| F | ASN43 |
| F | THR61 |
| F | HIS67 |
| F | ALA68 |
| F | GLU69 |
| F | CYS95 |
| F | TYR116 |
| F | ARG117 |
| F | ZN201 |
| F | HOH301 |
| F | HOH325 |
| site_id | AE1 |
| Number of Residues | 6 |
| Details | binding site for residue ZN G 201 |
| Chain | Residue |
| G | HIS67 |
| G | GLU69 |
| G | CYS95 |
| G | CYS98 |
| G | DU203 |
| G | HOH323 |
| site_id | AE2 |
| Number of Residues | 9 |
| Details | binding site for residue DCM G 202 |
| Chain | Residue |
| B | GLN104 |
| G | HIS40 |
| G | GLY41 |
| G | TRP42 |
| G | GLY44 |
| G | THR45 |
| G | SER47 |
| G | ASN71 |
| G | HOH318 |
| site_id | AE3 |
| Number of Residues | 16 |
| Details | binding site for residue DU G 203 |
| Chain | Residue |
| G | CYS22 |
| G | ARG24 |
| G | VAL27 |
| G | ASN43 |
| G | THR61 |
| G | HIS67 |
| G | ALA68 |
| G | GLU69 |
| G | CYS95 |
| G | TYR116 |
| G | ARG117 |
| G | ZN201 |
| G | HOH302 |
| G | HOH320 |
| G | HOH322 |
| G | HOH323 |
| site_id | AE4 |
| Number of Residues | 6 |
| Details | binding site for residue ZN H 201 |
| Chain | Residue |
| H | HIS67 |
| H | GLU69 |
| H | CYS95 |
| H | CYS98 |
| H | DU203 |
| H | HOH322 |
| site_id | AE5 |
| Number of Residues | 9 |
| Details | binding site for residue DCM H 202 |
| Chain | Residue |
| C | GLN104 |
| H | HIS40 |
| H | GLY41 |
| H | TRP42 |
| H | GLY44 |
| H | THR45 |
| H | SER47 |
| H | ASN71 |
| H | HOH309 |
| site_id | AE6 |
| Number of Residues | 11 |
| Details | binding site for residue DU H 203 |
| Chain | Residue |
| H | ARG24 |
| H | VAL27 |
| H | ASN43 |
| H | THR61 |
| H | HIS67 |
| H | ALA68 |
| H | GLU69 |
| H | CYS95 |
| H | TYR116 |
| H | ZN201 |
| H | HOH322 |
| site_id | AE7 |
| Number of Residues | 6 |
| Details | binding site for residue ZN I 201 |
| Chain | Residue |
| I | HIS67 |
| I | GLU69 |
| I | CYS95 |
| I | CYS98 |
| I | DU203 |
| I | HOH321 |
| site_id | AE8 |
| Number of Residues | 10 |
| Details | binding site for residue DCM I 202 |
| Chain | Residue |
| C | GLY35 |
| D | GLN104 |
| I | HIS40 |
| I | GLY41 |
| I | TRP42 |
| I | GLY44 |
| I | THR45 |
| I | SER47 |
| I | ASN71 |
| I | LYS75 |
| site_id | AE9 |
| Number of Residues | 14 |
| Details | binding site for residue DU I 203 |
| Chain | Residue |
| I | ARG24 |
| I | VAL27 |
| I | ASN43 |
| I | THR61 |
| I | HIS67 |
| I | ALA68 |
| I | GLU69 |
| I | CYS95 |
| I | TYR116 |
| I | ARG117 |
| I | ZN201 |
| I | HOH319 |
| I | HOH320 |
| I | HOH321 |
| site_id | AF1 |
| Number of Residues | 6 |
| Details | binding site for residue ZN J 201 |
| Chain | Residue |
| J | HIS67 |
| J | GLU69 |
| J | CYS95 |
| J | CYS98 |
| J | DU203 |
| J | HOH322 |
| site_id | AF2 |
| Number of Residues | 10 |
| Details | binding site for residue DCM J 202 |
| Chain | Residue |
| F | GLN104 |
| J | HIS40 |
| J | GLY41 |
| J | TRP42 |
| J | GLY44 |
| J | THR45 |
| J | SER47 |
| J | ASN71 |
| J | HOH313 |
| J | HOH320 |
| site_id | AF3 |
| Number of Residues | 14 |
| Details | binding site for residue DU J 203 |
| Chain | Residue |
| J | CYS22 |
| J | ARG24 |
| J | VAL27 |
| J | ASN43 |
| J | THR61 |
| J | HIS67 |
| J | ALA68 |
| J | GLU69 |
| J | CYS95 |
| J | TYR116 |
| J | ARG117 |
| J | ZN201 |
| J | HOH321 |
| J | HOH322 |
| site_id | AF4 |
| Number of Residues | 5 |
| Details | binding site for residue ZN K 201 |
| Chain | Residue |
| K | HIS67 |
| K | GLU69 |
| K | CYS95 |
| K | CYS98 |
| K | DU203 |
| site_id | AF5 |
| Number of Residues | 8 |
| Details | binding site for residue DCM K 202 |
| Chain | Residue |
| E | GLN104 |
| K | HIS40 |
| K | GLY41 |
| K | TRP42 |
| K | GLY44 |
| K | THR45 |
| K | SER47 |
| K | ASN71 |
| site_id | AF6 |
| Number of Residues | 11 |
| Details | binding site for residue DU K 203 |
| Chain | Residue |
| K | CYS22 |
| K | ARG24 |
| K | VAL27 |
| K | ASN43 |
| K | THR61 |
| K | HIS67 |
| K | ALA68 |
| K | GLU69 |
| K | CYS95 |
| K | TYR116 |
| K | ZN201 |
| site_id | AF7 |
| Number of Residues | 6 |
| Details | binding site for residue ZN L 201 |
| Chain | Residue |
| L | HIS67 |
| L | GLU69 |
| L | CYS95 |
| L | CYS98 |
| L | DU203 |
| L | HOH312 |
| site_id | AF8 |
| Number of Residues | 9 |
| Details | binding site for residue DCM L 202 |
| Chain | Residue |
| A | GLN104 |
| F | HOH317 |
| L | HIS40 |
| L | GLY41 |
| L | TRP42 |
| L | GLY44 |
| L | THR45 |
| L | SER47 |
| L | ASN71 |
| site_id | AF9 |
| Number of Residues | 13 |
| Details | binding site for residue DU L 203 |
| Chain | Residue |
| L | CYS22 |
| L | ARG24 |
| L | ASN43 |
| L | THR61 |
| L | HIS67 |
| L | ALA68 |
| L | GLU69 |
| L | CYS95 |
| L | TYR116 |
| L | ARG117 |
| L | ZN201 |
| L | HOH312 |
| L | HOH313 |
Functional Information from PROSITE/UniProt
| site_id | PS00903 |
| Number of Residues | 36 |
| Details | CYT_DCMP_DEAMINASES_1 Cytidine and deoxycytidylate deaminases zinc-binding region signature. HAEqnALvkmakssesidgselfcths.............PCpd......CskmI |
| Chain | Residue | Details |
| A | HIS67-ILE102 |
