I run DESeq2 in R program. However, I got p-value is 0 and padj is 0. I already remove NA data. How can I solve this problem? Do I need to re-calculate the count from the raw data or not?

It is quite possible for a very small p-value to remain very small after multiplicity adjustment. I don't know the cutoff for DESeq2 to report a p-value as zero, but apparently that gene has both an adjusted and unadjusted p below that cutoff.