3D59
Crystal structure of human plasma platelet activating factor acetylhydrolase
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003847 | molecular_function | 1-alkyl-2-acetylglycerophosphocholine esterase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005543 | molecular_function | phospholipid binding |
| A | 0005576 | cellular_component | extracellular region |
| A | 0006629 | biological_process | lipid metabolic process |
| A | 0009395 | biological_process | phospholipid catabolic process |
| A | 0016042 | biological_process | lipid catabolic process |
| A | 0016486 | biological_process | peptide hormone processing |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016788 | molecular_function | hydrolase activity, acting on ester bonds |
| A | 0034362 | cellular_component | low-density lipoprotein particle |
| A | 0034364 | cellular_component | high-density lipoprotein particle |
| A | 0034374 | biological_process | low-density lipoprotein particle remodeling |
| A | 0034440 | biological_process | lipid oxidation |
| A | 0034441 | biological_process | plasma lipoprotein particle oxidation |
| A | 0034638 | biological_process | phosphatidylcholine catabolic process |
| A | 0046469 | biological_process | platelet activating factor metabolic process |
| A | 0047499 | molecular_function | calcium-independent phospholipase A2 activity |
| A | 0050729 | biological_process | positive regulation of inflammatory response |
| A | 0062234 | biological_process | platelet activating factor catabolic process |
| A | 0090026 | biological_process | positive regulation of monocyte chemotaxis |
| B | 0003847 | molecular_function | 1-alkyl-2-acetylglycerophosphocholine esterase activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005543 | molecular_function | phospholipid binding |
| B | 0005576 | cellular_component | extracellular region |
| B | 0006629 | biological_process | lipid metabolic process |
| B | 0009395 | biological_process | phospholipid catabolic process |
| B | 0016042 | biological_process | lipid catabolic process |
| B | 0016486 | biological_process | peptide hormone processing |
| B | 0016787 | molecular_function | hydrolase activity |
| B | 0016788 | molecular_function | hydrolase activity, acting on ester bonds |
| B | 0034362 | cellular_component | low-density lipoprotein particle |
| B | 0034364 | cellular_component | high-density lipoprotein particle |
| B | 0034374 | biological_process | low-density lipoprotein particle remodeling |
| B | 0034440 | biological_process | lipid oxidation |
| B | 0034441 | biological_process | plasma lipoprotein particle oxidation |
| B | 0034638 | biological_process | phosphatidylcholine catabolic process |
| B | 0046469 | biological_process | platelet activating factor metabolic process |
| B | 0047499 | molecular_function | calcium-independent phospholipase A2 activity |
| B | 0050729 | biological_process | positive regulation of inflammatory response |
| B | 0062234 | biological_process | platelet activating factor catabolic process |
| B | 0090026 | biological_process | positive regulation of monocyte chemotaxis |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE ACT A 11 |
| Chain | Residue |
| A | ACT15 |
| A | LYS143 |
| A | HIS241 |
| A | ARG264 |
| A | HOH476 |
| B | SER308 |
| B | ARG309 |
| B | PRO311 |
| B | LYS339 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACT A 12 |
| Chain | Residue |
| A | SER230 |
| A | GLN231 |
| A | SER234 |
| A | HOH494 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACT A 15 |
| Chain | Residue |
| A | ACT11 |
| A | LYS143 |
| A | ILE262 |
| A | ASP263 |
| A | ARG264 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACT A 16 |
| Chain | Residue |
| A | ACT28 |
| A | SER202 |
| A | TRP203 |
| B | TYR189 |
| B | LYS191 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACT A 19 |
| Chain | Residue |
| A | HIS74 |
| A | ASP192 |
| A | GLN193 |
| A | HOH662 |
| A | HOH713 |
| site_id | AC6 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE ACT A 20 |
| Chain | Residue |
| A | VAL245 |
| A | LYS246 |
| A | ASN247 |
| A | PHE253 |
| A | MET255 |
| A | HOH490 |
| A | HOH495 |
| site_id | AC7 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT A 22 |
| Chain | Residue |
| A | PHE72 |
| A | HOH481 |
| site_id | AC8 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT A 24 |
| Chain | Residue |
| A | LEU124 |
| A | THR361 |
| site_id | AC9 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT A 25 |
| Chain | Residue |
| A | TRP298 |
| A | TYR324 |
| A | HOH446 |
| site_id | BC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ACT A 28 |
| Chain | Residue |
| A | ACT16 |
| A | LYS191 |
| A | HOH534 |
| B | TYR189 |
| B | LYS191 |
| B | HOH548 |
| site_id | BC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACT A 29 |
| Chain | Residue |
| A | GLU305 |
| A | SER308 |
| A | ARG309 |
| B | ASP260 |
| site_id | BC3 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE ACT A 30 |
| Chain | Residue |
| A | LYS246 |
| site_id | BC4 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT A 32 |
| Chain | Residue |
| A | LYS394 |
| A | HIS395 |
| site_id | BC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ACT A 33 |
| Chain | Residue |
| A | PRO57 |
| A | ARG58 |
| A | ASN378 |
| A | HOH548 |
| A | HOH566 |
| A | HOH711 |
| site_id | BC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACT A 35 |
| Chain | Residue |
| A | ASN378 |
| A | VAL379 |
| A | ASP382 |
| A | HOH510 |
| site_id | BC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT A 36 |
| Chain | Residue |
| A | ARG182 |
| A | HOH555 |
| A | HOH700 |
| site_id | BC8 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE ACT A 39 |
| Chain | Residue |
| A | ASP338 |
| A | GLU410 |
| A | ASP412 |
| A | PRO418 |
| A | HOH542 |
| A | HOH635 |
| A | HOH710 |
| site_id | BC9 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE SO4 B 1 |
| Chain | Residue |
| A | LYS101 |
| A | LYS201 |
| B | ARG182 |
| B | ARG207 |
| B | HOH471 |
| B | HOH482 |
| B | HOH490 |
| B | HOH496 |
| site_id | CC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE SO4 B 2 |
| Chain | Residue |
| A | ASP89 |
| A | ASN90 |
| B | ASN100 |
| B | LYS101 |
| B | HOH521 |
| B | HOH634 |
| site_id | CC2 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 13 |
| Chain | Residue |
| B | TRP134 |
| B | LEU251 |
| B | HOH518 |
| site_id | CC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACT B 14 |
| Chain | Residue |
| B | TYR321 |
| B | PHE322 |
| B | VAL350 |
| B | HIS351 |
| B | HOH449 |
| site_id | CC4 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 17 |
| Chain | Residue |
| B | SER234 |
| B | SER230 |
| B | GLN231 |
| site_id | CC5 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 18 |
| Chain | Residue |
| B | LYS266 |
| B | LEU398 |
| B | HIS399 |
| site_id | CC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACT B 21 |
| Chain | Residue |
| B | TRP298 |
| B | PHE300 |
| B | TYR324 |
| B | HOH441 |
| site_id | CC7 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE ACT B 23 |
| Chain | Residue |
| B | LEU107 |
| B | PHE357 |
| site_id | CC8 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 26 |
| Chain | Residue |
| A | LYS259 |
| A | HOH679 |
| B | ARG309 |
| site_id | CC9 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 27 |
| Chain | Residue |
| B | HIS74 |
| B | ASP192 |
| B | GLN193 |
| site_id | DC1 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE ACT B 31 |
| Chain | Residue |
| B | HOH593 |
| site_id | DC2 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE ACT B 34 |
| Chain | Residue |
| B | PHE110 |
| site_id | DC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACT B 37 |
| Chain | Residue |
| A | LYS370 |
| A | HOH620 |
| B | ILE329 |
| B | HOH639 |
| site_id | DC4 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE ACT B 38 |
| Chain | Residue |
| B | PRO140 |
| B | ASP412 |
| B | HOH594 |
Functional Information from PROSITE/UniProt
| site_id | PS00120 |
| Number of Residues | 10 |
| Details | LIPASE_SER Lipases, serine active site. IAVIGHSFGG |
| Chain | Residue | Details |
| A | ILE267-GLY276 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Nucleophile","evidences":[{"source":"PubMed","id":"18784071","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Charge relay system","evidences":[{"source":"PROSITE-ProRule","id":"PRU10037","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"18784071","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Glycosylation: {"description":"N-linked (GlcNAc...) asparagine","evidences":[{"evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
