3L30
Crystal structure of porcine pancreatic phospholipase A2 complexed with dihydroxyberberine
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0002446 | biological_process | neutrophil mediated immunity |
| A | 0004623 | molecular_function | phospholipase A2 activity |
| A | 0005102 | molecular_function | signaling receptor binding |
| A | 0005509 | molecular_function | calcium ion binding |
| A | 0005543 | molecular_function | phospholipid binding |
| A | 0005576 | cellular_component | extracellular region |
| A | 0006629 | biological_process | lipid metabolic process |
| A | 0006633 | biological_process | fatty acid biosynthetic process |
| A | 0006644 | biological_process | phospholipid metabolic process |
| A | 0008284 | biological_process | positive regulation of cell population proliferation |
| A | 0009986 | cellular_component | cell surface |
| A | 0010524 | biological_process | positive regulation of calcium ion transport into cytosol |
| A | 0016042 | biological_process | lipid catabolic process |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0019370 | biological_process | leukotriene biosynthetic process |
| A | 0030593 | biological_process | neutrophil chemotaxis |
| A | 0032052 | molecular_function | bile acid binding |
| A | 0032652 | biological_process | regulation of interleukin-1 production |
| A | 0032757 | biological_process | positive regulation of interleukin-8 production |
| A | 0032869 | biological_process | cellular response to insulin stimulus |
| A | 0035556 | biological_process | intracellular signal transduction |
| A | 0043410 | biological_process | positive regulation of MAPK cascade |
| A | 0045944 | biological_process | positive regulation of transcription by RNA polymerase II |
| A | 0046324 | biological_process | regulation of D-glucose import |
| A | 0046470 | biological_process | phosphatidylcholine metabolic process |
| A | 0046471 | biological_process | phosphatidylglycerol metabolic process |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0047498 | molecular_function | calcium-dependent phospholipase A2 activity |
| A | 0048146 | biological_process | positive regulation of fibroblast proliferation |
| A | 0050482 | biological_process | arachidonate secretion |
| A | 0050778 | biological_process | positive regulation of immune response |
| A | 1904635 | biological_process | positive regulation of podocyte apoptotic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CA A 125 |
| Chain | Residue |
| A | TYR28 |
| A | GLY30 |
| A | GLY32 |
| A | ASP49 |
| A | HOH208 |
| A | HOH215 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CL A 126 |
| Chain | Residue |
| A | ALA90 |
| A | CYS124 |
| A | HOH186 |
| A | SER34 |
| A | ASN88 |
| A | ASN89 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CL A 127 |
| Chain | Residue |
| A | GLU71 |
| A | GLU71 |
| A | SER72 |
| A | SER72 |
| A | GLU92 |
| A | GLU92 |
| site_id | AC4 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE DBW A 128 |
| Chain | Residue |
| A | ASN23 |
| A | GLY30 |
| A | LEU31 |
| A | VAL38 |
| A | ASP39 |
| A | ASN67 |
| A | TYR69 |
| A | HOH213 |
| A | HOH214 |
| A | HOH215 |
| A | HOH216 |
| A | HOH222 |
Functional Information from PROSITE/UniProt
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | Active site: {"evidences":[{"source":"PubMed","id":"6876174","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Binding site: {"evidences":[{"source":"UniProtKB","id":"P00593","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 1 |
| Details | Lipidation: {"description":"N6-palmitoyl lysine","evidences":[{"source":"PubMed","id":"2498336","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | MCSA1 |
| Number of Residues | 8 |
| Details | M-CSA 83 |
| Chain | Residue | Details |
| A | TYR28 | metal ligand |
| A | GLY30 | metal ligand |
| A | GLY32 | metal ligand |
| A | HIS48 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
| A | ASP49 | metal ligand |
| A | TYR52 | electrostatic stabiliser, hydrogen bond donor |
| A | TYR73 | electrostatic stabiliser, hydrogen bond donor |
| A | ASP99 | electrostatic stabiliser, hydrogen bond acceptor |
