Hypoxia-inducible factors (HIFs) are heterodimeric transcription factors that play a key role in cellular adaptation to hypoxia. HIF proteins are composed of an ␣ subunit regulated by oxygen pressure (essentially HIF1␣ or HIF2␣) and a constitutively expressed  subunit. These proteins are often overexpressed in cancer cells, and HIF overexpression frequently correlates with poor prognosis, making HIF proteins promising therapeutic targets. HIF proteins are involved in melanoma initiation and progression; however, the specific function of HIF2 in melanoma has not yet been studied comprehensively. Identifying protein complexes is a valuable way to uncover protein function, and affinity purification coupled with mass spectrometry and label-free quantification is a reliable method for this approach. We therefore applied quantitative interaction proteomics to identify exhaustively the nuclear complexes containing HIF2␣ in a human melanoma cell line, 501mel. We report, for the first time, a high-throughput analysis of the interactome of an HIF subunit. Seventy proteins were identified that interact with HIF2␣, including some well-known HIF partners and some new interactors. The new HIF2␣ partners microphthalmia-associated transcription factor, SOX10, and AP2␣, which are master actors of melanoma development, were confirmed via coimmunoprecipitation experiments. Their ability to bind to HIF1␣ was also tested: microphthalmia-associated transcription factor and SOX10 were confirmed as HIF1␣ partners, but the transcription factor AP2␣ was not. AP2␣ expression correlates with low invasive capacities. Interestingly, we demonstrated that when HIF2␣ was overexpressed, only cells expressing large amounts of AP2␣ exhibited decreased invasive capacities in hypoxia relative to normoxia.
Hypoxia-inducible transcription factors (HIFs)1 are central mediators of cellular adaptation to hypoxia that control the expression of genes involved in anaerobic metabolism, intracellular pH, angiogenesis, and cell growth and survival (1). HIF proteins are heterodimers consisting of an oxygen-regulated ␣ subunit and a constitutively expressed  subunit (also referred to as the arylhydrocarbon receptor nuclear translocator, or ARNT). Three isoforms have been described for each subunit; most HIF function, however, has been attributed to HIF1␣, HIF2␣, and HIF1 (2). HIF1␣ is detected in almost all tissues, whereas HIF2␣ (also known as EPAS1, for endothelial PAS protein 1) is restricted to certain tissues. HIF2 is expressed notably in hypoxic endothelium but also in distinct cell populations in the brain, liver, kidney, lung, and intestine (3). HIF␣ proteins are regulated post-translationally as a function of the partial pressure of oxygen. In normoxic conditions, the protein is rapidly hydroxylated by prolyl hydroxylases and then recognized by the von Hippel-Lindau protein, a component of an E3-ubiquitin ligase complex that targets the ␣ subunit for degradation by the proteasome. When the partial pressure of oxygen is low, prolyl hydroxylase activi...