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On [[January 29]], 1996, during the First Chechen war, he, together with archpriest Sergius Zhigulin (now Igumen Archimandrite Phillip) from External Church Relations Department, was going to meet with Brigadier General Akhmed Zakayev to negotiate the release of a soldier of the Federal Forces from Chechen captivity. However, on the way to the Chechen capital from Urus-Martan, they were captured by an armed group under Doku Makhayev's command and were placed in a concentration camp of the so-called Department of State Security of the Chechen Republic Ichkeria.

During In the end of the first days day of the captivity the prisoners, under the offer of Fr. Anatoly partook of the Eucharist with bread that was available for them, consecrating it with their prayers to Body of Christ making it possible to partake further<ref>[http://www.stavropol-eparhia.ru/personae/clergy/chistousov/02.html Witness of Arch. Phillip (Zhigulin)]</ref>.

From the memoirs of Fr. Sergius, "When we shared the Sacrament, Father Anatoly looked at me with an extraordinary expression. What I saw occur with him was a [[Transfiguration|transfiguration]]. The face of Fr. Anatoly became surprisingly light, his widely opened eyes were full unprecedented light. He said, "Listen, brother, for this the happiness is to suffer for the Christ, to die with His name on ones lips"<ref name="p">[http://www.pobeda.ru/content/view/1315/10/ Life of the priest Anatoly Chistousov]</ref>.