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Entity relation (ERA) diagrams are use in the stage of conceptual design of database. Geographic information systems are often based on a geodatabase where the spatial data and attribute data are stored together. Software ArcGIS Diagrammer is used for the design of ArcGIS geodatabase. A set of graphical symbol is used for geodatabase design. The symbols are boxes with color fill. Arrow connectors join some elements. The aesthetic, cognitive and perceptual quality of geodatabase diagram is important for comprehension by user. The perception depends on several aspects. A scientific method called the Physics of Notation was suggested by Daniel Moody. The theory of visual notation design is focused on the physical (perceptual) properties of notations rather than their logical (semantic) properties [1]. Some of the nine principles from the Physics of Notations will be applied for ArcGIS Diagrammer. The main aim of this article is an evaluation of visual notation in ArcGIS Diagrammer. [ABSTRACT FROM AUTHOR]