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Background:According to 2010 Annual Parasite Incidence (API) report mortality rate caused by malaria in Indonesia was 1.3% in the ratio of 24/1000 population. Of these figures the 2011 Annual API report showed that Papua Province had the malaria-caused mortality rate 181.85/1000 population, Jayapura Municipality 57.29/1000, and Hamadi Public Health Center 315/1000 population.This research aimed to find out the correlation of physical, chemical and biological factors to Anopheles vector density and to find out the vector densities of Anopheles, Anopheles species, and the presence of sporozoit. Method: It was an observational research using case control design. There were 102 respondents used, consisting of 51 malaria casse and 51 controls. They were selected by a simple random sampling method. Statistical analysis used Pearson and Spearman tests, followed by Linear Regression test. Result: The results showed that there was a correlation of water pH (r = 0.799; 0.836), air temperature, wind speed (r = -0.68; 0.754) to vector density. Multivariate analysis showed that variables that became risk factor of the vector density were water body, air humidity (p = 0.009; 0.004). The research recorded that koliensis dominated the proportion of the Anopheles species (96.6% of the species found), whereas the smallest number by species was farauti (0.5%), with the density average of 2.1 individual/responden/hour. Conclusion:The largest number of sporozoit found was Plasmodium falciparum (25%). It was recommended to do environmental modification and manipulation and comprehensive and longitudinal studies of to reduse risk factors of the Anopheles density. Keywords: physical, chemical, biological environments; Anopheles density.