8GCQ
SFX structure of oxidized cytochrome c oxidase at 2.38 Angstrom resolution
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004129 | molecular_function | cytochrome-c oxidase activity |
| A | 0005739 | cellular_component | mitochondrion |
| A | 0005743 | cellular_component | mitochondrial inner membrane |
| A | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| A | 0006119 | biological_process | oxidative phosphorylation |
| A | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| A | 0009060 | biological_process | aerobic respiration |
| A | 0015990 | biological_process | electron transport coupled proton transport |
| A | 0016020 | cellular_component | membrane |
| A | 0020037 | molecular_function | heme binding |
| A | 0045277 | cellular_component | respiratory chain complex IV |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0070469 | cellular_component | respirasome |
| B | 0004129 | molecular_function | cytochrome-c oxidase activity |
| B | 0005507 | molecular_function | copper ion binding |
| B | 0005739 | cellular_component | mitochondrion |
| B | 0005743 | cellular_component | mitochondrial inner membrane |
| B | 0016020 | cellular_component | membrane |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0022900 | biological_process | electron transport chain |
| B | 0042773 | biological_process | ATP synthesis coupled electron transport |
| B | 0045277 | cellular_component | respiratory chain complex IV |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0070469 | cellular_component | respirasome |
| B | 1902600 | biological_process | proton transmembrane transport |
| C | 0004129 | molecular_function | cytochrome-c oxidase activity |
| C | 0005739 | cellular_component | mitochondrion |
| C | 0005743 | cellular_component | mitochondrial inner membrane |
| C | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| C | 0008535 | biological_process | respiratory chain complex IV assembly |
| C | 0009055 | molecular_function | electron transfer activity |
| C | 0016020 | cellular_component | membrane |
| C | 0019646 | biological_process | aerobic electron transport chain |
| C | 0022904 | biological_process | respiratory electron transport chain |
| C | 0045277 | cellular_component | respiratory chain complex IV |
| C | 1902600 | biological_process | proton transmembrane transport |
| D | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| D | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| E | 0005743 | cellular_component | mitochondrial inner membrane |
| E | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| E | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| F | 0005740 | cellular_component | mitochondrial envelope |
| F | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| F | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| G | 0005743 | cellular_component | mitochondrial inner membrane |
| G | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| H | 0005739 | cellular_component | mitochondrion |
| H | 0005743 | cellular_component | mitochondrial inner membrane |
| H | 0006119 | biological_process | oxidative phosphorylation |
| H | 0045277 | cellular_component | respiratory chain complex IV |
| I | 0005739 | cellular_component | mitochondrion |
| I | 0005743 | cellular_component | mitochondrial inner membrane |
| I | 0006119 | biological_process | oxidative phosphorylation |
| I | 0045277 | cellular_component | respiratory chain complex IV |
| J | 0005746 | cellular_component | mitochondrial respirasome |
| J | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| J | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| K | 0005746 | cellular_component | mitochondrial respirasome |
| K | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| L | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| L | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| M | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| M | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| N | 0004129 | molecular_function | cytochrome-c oxidase activity |
| N | 0005739 | cellular_component | mitochondrion |
| N | 0005743 | cellular_component | mitochondrial inner membrane |
| N | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| N | 0006119 | biological_process | oxidative phosphorylation |
| N | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| N | 0009060 | biological_process | aerobic respiration |
| N | 0015990 | biological_process | electron transport coupled proton transport |
| N | 0016020 | cellular_component | membrane |
| N | 0020037 | molecular_function | heme binding |
| N | 0045277 | cellular_component | respiratory chain complex IV |
| N | 0046872 | molecular_function | metal ion binding |
| N | 0070469 | cellular_component | respirasome |
| O | 0004129 | molecular_function | cytochrome-c oxidase activity |
| O | 0005507 | molecular_function | copper ion binding |
| O | 0005739 | cellular_component | mitochondrion |
| O | 0005743 | cellular_component | mitochondrial inner membrane |
| O | 0016020 | cellular_component | membrane |
| O | 0016491 | molecular_function | oxidoreductase activity |
| O | 0022900 | biological_process | electron transport chain |
| O | 0042773 | biological_process | ATP synthesis coupled electron transport |
| O | 0045277 | cellular_component | respiratory chain complex IV |
| O | 0046872 | molecular_function | metal ion binding |
| O | 0070469 | cellular_component | respirasome |
| O | 1902600 | biological_process | proton transmembrane transport |
| P | 0004129 | molecular_function | cytochrome-c oxidase activity |
| P | 0005739 | cellular_component | mitochondrion |
| P | 0005743 | cellular_component | mitochondrial inner membrane |
| P | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| P | 0008535 | biological_process | respiratory chain complex IV assembly |
| P | 0009055 | molecular_function | electron transfer activity |
| P | 0016020 | cellular_component | membrane |
| P | 0019646 | biological_process | aerobic electron transport chain |
| P | 0022904 | biological_process | respiratory electron transport chain |
| P | 0045277 | cellular_component | respiratory chain complex IV |
| P | 1902600 | biological_process | proton transmembrane transport |
| Q | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| Q | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| R | 0005743 | cellular_component | mitochondrial inner membrane |
| R | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| R | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| S | 0005740 | cellular_component | mitochondrial envelope |
| S | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| S | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| T | 0005743 | cellular_component | mitochondrial inner membrane |
| T | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| U | 0005739 | cellular_component | mitochondrion |
| U | 0005743 | cellular_component | mitochondrial inner membrane |
| U | 0006119 | biological_process | oxidative phosphorylation |
| U | 0045277 | cellular_component | respiratory chain complex IV |
| V | 0005739 | cellular_component | mitochondrion |
| V | 0005743 | cellular_component | mitochondrial inner membrane |
| V | 0006119 | biological_process | oxidative phosphorylation |
| V | 0045277 | cellular_component | respiratory chain complex IV |
| W | 0005746 | cellular_component | mitochondrial respirasome |
| W | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| W | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| X | 0005746 | cellular_component | mitochondrial respirasome |
| X | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| Y | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| Y | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
| Z | 0005751 | cellular_component | mitochondrial respiratory chain complex IV |
| Z | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
Functional Information from PROSITE/UniProt
| site_id | PS00848 |
| Number of Residues | 23 |
| Details | COX5B_1 Cytochrome c oxidase subunit Vb, zinc binding region signature. VIWfwlhkgeaqrCpsCGthYKL |
| Chain | Residue | Details |
| F | VAL69-LEU91 |
| site_id | PS00078 |
| Number of Residues | 49 |
| Details | COX2 CO II and nitrous oxide reductase dinuclear copper centers signature. VlHswavpslglktdaipgrlnqttlmssrpglyygq......CseiCgsnHsfM |
| Chain | Residue | Details |
| B | VAL159-MET207 |
| site_id | PS01329 |
| Number of Residues | 18 |
| Details | COX6A Cytochrome c oxidase subunit VIa signature. IRtKpFsWGDGnHTfFhN |
| Chain | Residue | Details |
| G | ILE55-ASN72 |
| site_id | PS00077 |
| Number of Residues | 56 |
| Details | COX1_CUB Heme-copper oxidase catalytic subunit, copper B binding region signature. WFFGHPeVyililpgfgmishivtyysgkkepfgymgmvwammsigflgfivwa.HH |
| Chain | Residue | Details |
| A | TRP236-HIS291 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 304 |
| Details | TOPO_DOM: Mitochondrial intermembrane => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| O | FME1-SER14 | |
| O | ASP88-LEU227 | |
| A | LYS479-LYS514 | |
| N | SER262-GLY269 | |
| N | SER401-ASN406 | |
| N | LYS479-LYS514 | |
| A | SER401-ASN406 | |
| N | MET171-PRO182 | |
| B | ASP88-LEU227 | |
| B | FME1-SER14 | |
| N | FME1-ASN11 | |
| N | ILE87-PHE94 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 60 |
| Details | TRANSMEM: Helical; Name=I => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| F | LYS90 | |
| S | LYS37 | |
| S | LYS55 | |
| S | LYS90 | |
| B | PRO15-MET45 | |
| O | PRO15-MET45 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 26 |
| Details | TOPO_DOM: Mitochondrial matrix => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| C | ALA184-ASP190 | |
| C | TYR257-SER261 | |
| P | PHE35-MET40 | |
| P | LEU106-GLU128 | |
| P | ALA184-ASP190 | |
| P | TYR257-SER261 | |
| O | LEU46-GLN59 | |
| B | LEU46-GLN59 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 54 |
| Details | TRANSMEM: Helical; Name=II => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| Q | LYS7 | |
| Q | LYS38 | |
| O | GLU60-MET87 | |
| B | GLU60-MET87 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 12 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:20385840, ECO:0000269|PubMed:8638158 |
| Chain | Residue | Details |
| O | CYS200 | |
| O | HIS204 | |
| O | MET207 | |
| B | GLU198 | |
| B | CYS200 | |
| B | HIS204 | |
| B | MET207 | |
| O | HIS161 | |
| O | CYS196 | |
| O | GLU198 | |
| B | HIS161 | |
| B | CYS196 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | MOD_RES: N-formylmethionine => ECO:0000269|PubMed:220175 |
| Chain | Residue | Details |
| O | FME1 | |
| N | ARG213-ASP227 | |
| N | VAL287-ASP298 | |
| B | FME1 | |
| A | VAL287-ASP298 | |
| N | VAL118-GLY140 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:P00406 |
| Chain | Residue | Details |
| B | TYR218 | |
| O | TYR218 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 58 |
| Details | TRANSMEM: Helical; Name=V => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | LEU183-ASP212 | |
| N | LEU183-ASP212 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 66 |
| Details | TRANSMEM: Helical; Name=VI => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | PRO228-TYR261 | |
| N | PRO228-TYR261 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 32 |
| Details | TRANSMEM: Helical; Name=VII => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | TYR270-ILE286 | |
| N | TYR270-ILE286 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 56 |
| Details | TRANSMEM: Helical; Name=VIII => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | VAL299-LEU327 | |
| N | VAL299-LEU327 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 14 |
| Details | TOPO_DOM: Mitochondrial matrix => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | HIS328-SER335 | |
| N | HIS328-SER335 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 42 |
| Details | TRANSMEM: Helical; Name=IX => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | PRO336-VAL357 | |
| N | PRO336-VAL357 |
| site_id | SWS_FT_FI14 |
| Number of Residues | 48 |
| Details | TOPO_DOM: Mitochondrial intermembrane => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | LEU358-THR370 | |
| A | SER434-ALA446 | |
| N | LEU358-THR370 | |
| N | SER434-ALA446 |
| site_id | SWS_FT_FI15 |
| Number of Residues | 58 |
| Details | TRANSMEM: Helical; Name=X => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | TYR371-PHE400 | |
| N | TYR371-PHE400 |
| site_id | SWS_FT_FI16 |
| Number of Residues | 52 |
| Details | TRANSMEM: Helical; Name=XI => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | ASP407-LEU433 | |
| N | ASP407-LEU433 |
| site_id | SWS_FT_FI17 |
| Number of Residues | 62 |
| Details | TRANSMEM: Helical; Name=XII => ECO:0000269|PubMed:27605664 |
| Chain | Residue | Details |
| A | TYR447-SER478 | |
| N | TYR447-SER478 |
| site_id | SWS_FT_FI18 |
| Number of Residues | 6 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:27605664, ECO:0000305|PubMed:23537388 |
| Chain | Residue | Details |
| A | GLU40 | |
| A | GLY45 | |
| A | SER441 | |
| N | GLU40 | |
| N | GLY45 | |
| N | SER441 |
| site_id | SWS_FT_FI19 |
| Number of Residues | 6 |
| Details | BINDING: axial binding residue => ECO:0000269|PubMed:20385840, ECO:0000269|PubMed:8638158 |
| Chain | Residue | Details |
| A | HIS61 | |
| A | HIS376 | |
| A | HIS378 | |
| N | HIS61 | |
| N | HIS376 | |
| N | HIS378 |
| site_id | SWS_FT_FI20 |
| Number of Residues | 10 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:20385840, ECO:0000269|PubMed:8638158 |
| Chain | Residue | Details |
| A | HIS240 | |
| N | ASP369 | |
| A | HIS290 | |
| A | HIS291 | |
| A | HIS368 | |
| A | ASP369 | |
| N | HIS240 | |
| N | HIS290 | |
| N | HIS291 | |
| N | HIS368 |
| site_id | SWS_FT_FI21 |
| Number of Residues | 2 |
| Details | BINDING: BINDING => ECO:0000305 |
| Chain | Residue | Details |
| A | TYR244 | |
| N | TYR244 |
| site_id | SWS_FT_FI22 |
| Number of Residues | 2 |
| Details | MOD_RES: N-formylmethionine => ECO:0000269|PubMed:2165784 |
| Chain | Residue | Details |
| A | FME1 | |
| N | FME1 |
| site_id | SWS_FT_FI23 |
| Number of Residues | 4 |
| Details | CROSSLNK: 1'-histidyl-3'-tyrosine (His-Tyr) => ECO:0000269|PubMed:10338009 |
| Chain | Residue | Details |
| A | HIS240 | |
| A | TYR244 | |
| N | HIS240 | |
| N | TYR244 |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 14 |
| Details | M-CSA 124 |
| Chain | Residue | Details |
| A | HIS61 | metal ligand |
| A | HIS290 | metal ligand |
| A | HIS291 | metal ligand, proton acceptor, proton donor |
| A | THR316 | proton acceptor, proton donor, proton relay |
| A | LYS319 | proton acceptor, proton donor, proton relay |
| A | ARG438 | proton acceptor, proton donor, proton relay |
| A | ASP91 | proton acceptor, proton donor, proton relay |
| A | TRP126 | proton acceptor, proton donor, proton relay |
| A | SER156 | proton acceptor, proton donor, proton relay |
| A | SER157 | proton acceptor, proton donor, proton relay |
| A | HIS240 | covalently attached, electrostatic stabiliser, metal ligand, radical stabiliser |
| A | GLU242 | proton acceptor, proton donor, proton relay |
| A | TYR244 | covalently attached, hydrogen radical donor, proton acceptor, proton donor, proton relay, single electron acceptor |
| A | SER255 | proton acceptor, proton donor, proton relay |
| site_id | MCSA2 |
| Number of Residues | 14 |
| Details | M-CSA 124 |
| Chain | Residue | Details |
| N | HIS61 | metal ligand |
| N | HIS290 | metal ligand |
| N | HIS291 | metal ligand, proton acceptor, proton donor |
| N | THR316 | proton acceptor, proton donor, proton relay |
| N | LYS319 | proton acceptor, proton donor, proton relay |
| N | ARG438 | proton acceptor, proton donor, proton relay |
| N | ASP91 | proton acceptor, proton donor, proton relay |
| N | TRP126 | proton acceptor, proton donor, proton relay |
| N | SER156 | proton acceptor, proton donor, proton relay |
| N | SER157 | proton acceptor, proton donor, proton relay |
| N | HIS240 | covalently attached, electrostatic stabiliser, metal ligand, radical stabiliser |
| N | GLU242 | proton acceptor, proton donor, proton relay |
| N | TYR244 | covalently attached, hydrogen radical donor, proton acceptor, proton donor, proton relay, single electron acceptor |
| N | SER255 | proton acceptor, proton donor, proton relay |
