42-year-old Richard Castrillo is facing several felony charges including assault with a firearm and a felon possessing a firearm.
Castrillo remains in the hospital in critical condition.
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The shooting happened at about 8 p.m. in the area of First Street and Brown Avenue.
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Police say a fight between two family members led to the initial shooting.
Officers responded to the scene and say Castrillo, still armed with a gun, refused to drop it and did not obey officer commands.
Suspect shot by Fresno police officer after shooting in alleyway, officials say
The situation escalated and a veteran officer fired at Castrillo. He was hit at least once.
Officials say they do not believe Castrillo fired his gun toward officers.
No officers were injured during the incident.
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The victim is also hospitalized in critical condition with gunshot wounds to the upper body.
The officer has been placed on administrative leave.