Cloned (Comment) | Organism |
---|---|
gene pdeB, gene expression profiling and quantitative PCR in wild-type and mutant cells, expression of GFP-tagged mutant enzymes, expression of N-terminally maltose-binding protein tagged and C-terminally His6 tagged truncated wild-type enzyme and mutant E364A in Escherichia coli strain Tuner(DE3)pLysS | Shewanella oneidensis |
Protein Variants | Comment | Organism |
---|---|---|
E634A | site-directed mutagenesis | Shewanella oneidensis |
additional information | generation of GFP-tagged or untagged markerless in-frame deletion mutants and chromosomal gene replacement | Shewanella oneidensis |
Localization | Comment | Organism | GeneOntology No. | Textmining |
---|---|---|---|---|
membrane | the transmembrane protein contains two transmembrane segments, positions 7 to 29 and 230 to 252 | Shewanella oneidensis | 16020 | - |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
cyclic di-3',5'-guanylate + H2O | Shewanella oneidensis | - |
5'-phosphoguanylyl(3'->5')guanosine | - |
? | |
cyclic di-3',5'-guanylate + H2O | Shewanella oneidensis MR-1 / ATCC 700550 | - |
5'-phosphoguanylyl(3'->5')guanosine | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Shewanella oneidensis | Q8EJM6 | PNNL strain, gene pdeB | - |
Shewanella oneidensis MR-1 / ATCC 700550 | Q8EJM6 | PNNL strain, gene pdeB | - |
Purification (Comment) | Organism |
---|---|
recombinant N-terminally maltose-binding protein tagged and C-terminally His6 tagged truncated wild-type enzyme and mutant E364A from Escherichia coli strain Tuner(DE3)pLysS by nicel affinity and amylose affinity chromatography | Shewanella oneidensis |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
cyclic di-3',5'-guanylate + H2O | - |
Shewanella oneidensis | 5'-phosphoguanylyl(3'->5')guanosine | - |
? | |
cyclic di-3',5'-guanylate + H2O | - |
Shewanella oneidensis MR-1 / ATCC 700550 | 5'-phosphoguanylyl(3'->5')guanosine | - |
? |
Subunits | Comment | Organism |
---|---|---|
More | enzyme domain structure analysis, overview | Shewanella oneidensis |
Synonyms | Comment | Organism |
---|---|---|
c-di-GMP-hydrolyzing-phosphodiesterase | - |
Shewanella oneidensis |
PAS-GGDEF-EAL domain-containing protein | - |
Shewanella oneidensis |
PDE | - |
Shewanella oneidensis |
PdeB | - |
Shewanella oneidensis |
SO0437 | - |
Shewanella oneidensis |
Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
---|---|---|---|
30 | - |
assay at | Shewanella oneidensis |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
7.6 | - |
assay at | Shewanella oneidensis |
General Information | Comment | Organism |
---|---|---|
malfunction | a pdeB deletion mutant exhibits decreased swimming motility and increased biofilm formation under rich growth medium conditions, which is consistent with an increase in intracellular c-di-GMP. A mutation inactivating the EAL domain also produces similar swimming and biofilm phenotypes, indicating that the increase in c-di-GMP is likely due to a loss in phosphodiesterase activity. Transcriptional profiling by DNA microarray analysis of biofilms of pdeB (in-frame deletion and EAL) mutant cells reveals that expression of genes involved in sulfate uptake and assimilation are repressed. Addition of sulfate recovers cell mobility of the mutants | Shewanella oneidensis |
physiological function | the organism forms biofilms on mineral surfaces through a process controlled by the cyclic dinucleotide messenger c-di-GMP. Cellular concentrations of c-di-GMP are maintained by proteins containing GGDEF and EAL domains, which encode diguanylate cyclases for c-di-GMP synthesis and phosphodiesterases for c-di-GMP hydrolysis, respectively. The enzyme PdeB contains a GGDEF-EAL multidomain and an additional Per-Arnt-Sim (PAS) sensor domain. The purified enzyme PdeB exhibits phosphodiesterase activity via the EAL domain, but no diguanylate cyclase activity | Shewanella oneidensis |