The data provides information in support of the research article, Proteomics 2014, 14, 2545–2557 [1]. Raw data is available from the ProteomeXchange Consortium via the PRIDE partnerRepository [2] with the dataset identifier PXD000837. Plasma membrane and tonoplast proteins from the leaves of Avicennia officinalis were identified using gel electrophoresis (one and two dimensional) combined with LC–MS analysis. Based on GO annotation, identified proteins were predicted to be involved in various biological processes.