We developed an Ecopath model in the Estuary of Sirinhaém River (SIR), a small-sized system surrounded by mangroves, subject to high impact, mainly by sugar cane industry and other farming industries in order to describe the food web structure and trophic interactions. In addition, we compared our findings with those of 20 available Ecopath estuarine models for tropical, subtropical and temperate regions, aiming to synthesize the knowledge on trophic dynamics and provide a comprehensive analysis of the structures and functioning of estuaries. Our model consisted of 25 compartments and its indicators were within the expected range for estuarine areas around the world. The average trophic transfer efficiency for the entire system was 11.8%, similar to the theoretical value of 10%. The Keystone Index and MTI (Mixed Trophic Impact) analysis indicated that the snook (Centropomus undecimalis and Centropomus parallelus) and jack (Caranx latus and Caranx hippos) are considered as key resources in the system, revealing its high impact in the food web. Both the species have a high ecological and commercial relevance, despite the unregulated fisheries. As result of the comparison of ecosystem model indicators in estuaries, differences in the ecosystem structure from the low latitude zones (tropical estuaries) to the high latitude zones (temperate system) were noticed. The structure of temperate and sub-tropical estuaries were based on high flows of detritus and export, while tropical systems have high biomass, respiration and consumption rates. Higher values of System Omnivory Index (SOI) and Overhead (SO) were observed in the tropical and subtropical estuaries, denoting a more complex food chain. Globally, none of the estuarine models were classified as fully mature ecosystems, although the tropical ecosystems were considered more mature than the subtropical and temperate ecosystems. This study is an important contribution to the trophic modeling of estuaries, Highlights ► Sirinhaém estuary, Northeast Brazil, is an immature and resilient ecosystem. ► The jack and, mainly, snook were key species in the Estuary of Sirinhaém River. ► Tropical estuaries were based in high biomass, respiration and consumption rates. ► The System Overhead Index was higher in tropical estuaries than in the other systems. ► TPP/TR was lower in tropical estuaries than in the other systems.