HSP90 is one of the most abundant proteins in the cytosol of eukaryotic cells. HSP90 forms transient or stable complexes with several key proteins involved in signal transduction including protooncogenic protein kinases and nuclear receptors, it interacts with cellular structural elements such as actin-microfilament, tubulin-microtubule and intermediate filaments, and also exhibits conventional chaperone functions. This protein exists in two isoforms a-HSP90 and b-HSP90, and it forms dimers which are crucial species for its biological activity. PAGE, ESI-MS and MALDI-MS were used to study HSP90 purified from pig brain. The two protein isoforms were clearly distinguished by ESI-MS, the a isoform being < six times more abundant than the b isoform. ESI-MS in combination with l phosphatase treatment provided direct evidence of the existence of four phosphorylated forms of native pig brain a-HSP90, with the diphosphorylated form being the most abundant. For the b isoform, the di-phosphorylated was also the most abundant. MALDI mass spectra of HSP90 samples after chemical cross-linking showed a high percentage of a±a homodimers. In addition, evidence for the existence of higher HSP90 oligomers was obtained.Keywords: HSP90; mass spectrometry; phosphorylation; cross-linking.Heat shock proteins (HSP) are abundant eukaryotic proteins constituting < 1 or 2% of the cellular proteins under physiological conditions, with an increased expression in response to stress [1]. These ubiquitous proteins, classified according to their apparent molecular mass, i.e. HSP27, 60, 70 or 90, work in close association with cytosolic cofactors to help the correct folding of several cytosolic proteins (reviewed in [2]).The target of this study is HSP90, a dimeric phosphoprotein involved in many cell processes such as cell cycle control, transcriptional regulation or signal transduction (reviewed in [3]). Mammalian HSP90 exists in two isoforms a-and b-HSP90 [4], differing in mass by < 2 kDa. Although dimers appear to be the functional form of HSP90, oligomeric forms exist in solution under physiological conditions [5] and their amount tends to increase under hyperthermal exposure [6±9]. HSP90 possesses an ATP binding site [10,11] and undergoes conformational changes in presence of ATP [12,13]. This protein also possesses ATPase activity [14]. The functions of HSP90 are in part regulated by phosphorylation, e.g. phosphorylated HSP90 stimulates eIF-2a kinase activity [15] and phosphorylation regulates the interaction between HSP90 and pp60v-src [16]. HSP phosphorylation may be mediated by various kinases [17,18] but this protein can also autophosphorylate and act as a kinase for other protein substrates [19].ESI-MS and MALDI-MS are the most suitable mass spectrometric techniques for the analysis of macromolecules [20,21]. The increase in resolution achieved by the latest generation of mass spectrometers allows a detailed investigation of post-translational modifications of large proteins and protein complexes [22]. This is particularly important ...