Application | Comment | Organism |
---|---|---|
pharmacology | enzyme structure is an excellent template for the rational design of drugs with a potential to cure and prevent periodontitis | Porphyromonas gingivalis |
Crystallization (Comment) | Organism |
---|---|
purified RgpB free or in complex with fast acting, irreversible inhibitor D-Phe-Phe-Arg-chloromethylketone, activated by incubation for 30 min in 0.1 M HEPES, pH 8.0, 10 mM L-cysteine, 2.5 mM CaCl2, at 37°C, alkylation of the active site cysteine by addition of inhibitor, crystallization of dialysed sample by vapour diffusion method, 8 mg/ml protein in 3 mM MOPS, pH 7.2 0.02% NaN3, plus equal volume of reservoir solution: 3.4 M 1,6-hexandiol, 0.2 M MgCl2, 0.1 M Tris-HCl, pH 8.5, at 21°C, several weeks, X-ray diffraction structure determination at 1.5-2.16 A resolution and analysis, structure modeling | Porphyromonas gingivalis |
Inhibitors | Comment | Organism | Structure |
---|---|---|---|
D-Phe-Phe-Arg-chloromethylketone | fast acting, irreversible alkylating inhibitor | Porphyromonas gingivalis |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
protein + H2O | Porphyromonas gingivalis | - |
peptides | - |
? | |
protein + H2O | Porphyromonas gingivalis HG66 | - |
peptides | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Porphyromonas gingivalis | - |
gingipain R2, i.e. RgpB, isozyme II | - |
Porphyromonas gingivalis HG66 | - |
gingipain R2, i.e. RgpB, isozyme II | - |
Reaction | Comment | Organism | Reaction ID |
---|---|---|---|
hydrolysis of proteins and small molecule substrates, with a preference for Arg in P1 | Cys244-His211 catalytic diad and a nearby Glu arranged around the S1 specificity pocket, which carries an Asp residue to enforce preference for Arg-P1 residues, mechanism and binding mode at the active site | Porphyromonas gingivalis |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
protein + H2O | - |
Porphyromonas gingivalis | peptides | - |
? | |
protein + H2O | - |
Porphyromonas gingivalis HG66 | peptides | - |
? |
Synonyms | Comment | Organism |
---|---|---|
Arg-specific cysteine protease | - |
Porphyromonas gingivalis |
HRgpA | - |
Porphyromonas gingivalis |
RgB | - |
Porphyromonas gingivalis |
Organism | Comment | pI Value Maximum | pI Value |
---|---|---|---|
Porphyromonas gingivalis | RgpB isozyme II, isoelectric focusing | - |
5.1 |