3ZFS
Cryo-EM structure of the F420-reducing NiFe-hydrogenase from a methanogenic archaeon with bound substrate
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0008901 | molecular_function | ferredoxin hydrogenase activity |
| A | 0016151 | molecular_function | nickel cation binding |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0050454 | molecular_function | coenzyme F420 hydrogenase activity |
| A | 0050660 | molecular_function | flavin adenine dinucleotide binding |
| A | 0051536 | molecular_function | iron-sulfur cluster binding |
| B | 0016151 | molecular_function | nickel cation binding |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0050454 | molecular_function | coenzyme F420 hydrogenase activity |
| B | 0050660 | molecular_function | flavin adenine dinucleotide binding |
| B | 0051536 | molecular_function | iron-sulfur cluster binding |
| B | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
| C | 0000166 | molecular_function | nucleotide binding |
| C | 0016151 | molecular_function | nickel cation binding |
| C | 0016491 | molecular_function | oxidoreductase activity |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0050454 | molecular_function | coenzyme F420 hydrogenase activity |
| C | 0050660 | molecular_function | flavin adenine dinucleotide binding |
| C | 0051536 | molecular_function | iron-sulfur cluster binding |
| C | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
| C | 0052592 | molecular_function | oxidoreductase activity, acting on CH or CH2 groups, with an iron-sulfur protein as acceptor |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE FCO A 2989 |
| Chain | Residue |
| A | NI2990 |
| site_id | AC2 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE NI A 2990 |
| Chain | Residue |
| A | FCO2989 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SF4 B 300 |
| Chain | Residue |
| B | GLY56 |
| B | CYS57 |
| B | GLY59 |
| B | CYS132 |
| B | CYS171 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SF4 B 301 |
| Chain | Residue |
| B | CYS252 |
| B | CYS255 |
| B | CYS249 |
| B | LYS251 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE SF4 B 302 |
| Chain | Residue |
| B | ILE221 |
| B | GLY222 |
| B | CYS223 |
| B | GLY224 |
| B | THR225 |
| B | CYS226 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE F42 C 285 |
| Chain | Residue |
| C | GLY164 |
| C | SER209 |
| C | VAL210 |
| C | SER217 |
| C | FAD304 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SF4 C 303 |
| Chain | Residue |
| C | PRO103 |
| C | CYS104 |
| C | CYS134 |
| C | MET135 |
| site_id | AC8 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE FAD C 304 |
| Chain | Residue |
| C | GLN24 |
| C | ASP25 |
| C | GLY26 |
| C | ILE28 |
| C | VAL29 |
| C | VAL47 |
| C | ALA48 |
| C | ALA72 |
| C | THR74 |
| C | TYR76 |
| C | ILE132 |
| C | GLY208 |
| C | SER209 |
| C | F42285 |
Functional Information from PROSITE/UniProt
| site_id | PS00198 |
| Number of Residues | 12 |
| Details | 4FE4S_FER_1 4Fe-4S ferredoxin-type iron-sulfur binding region signature. CiKCGiCYvQCP |
| Chain | Residue | Details |
| B | CYS249-PRO260 |
| site_id | PS00507 |
| Number of Residues | 26 |
| Details | NI_HGENASE_L_1 Nickel-dependent hydrogenases large subunit signature 1. RGLEkmvtgkapetapvmvQRiCGVC |
| Chain | Residue | Details |
| A | ARG41-CYS66 |
| site_id | PS00508 |
| Number of Residues | 10 |
| Details | NI_HGENASE_L_2 Nickel-dependent hydrogenases large subunit signature 2. YDPCLSCat.H |
| Chain | Residue | Details |
| A | TYR377-HIS386 |
