remove uncommon string words in two files

Question

I have two files, file 1 contains 2 columns, file 2 contains 5 columns. I want to remove the lines from file 2 that dont contain common strings with file 1:

-file 1, if this is a list, each line contains [0] and [1]

gene-3  +
gene-2  -
gene-1  -

-file 2, compare [0] and [1] from file 1, against [0] and [4] of this file. If noline from file1 matches in any line of file2, must be removed.

gene-1  mga CDF 1   +  # this line contains + instead - although gane-1 is the same. rm
gene-2  mga CDS 1   -  # [0][1] from file 1 = [0][4] from file 2: (gene-2, - ) keep it!
gene-3  mga CDH 1   +  # ""                 ""              ""
gene-4  mga CDS 1   +  # no gene-4 in file 1, remove.

-Desired output:

gene-3  mga CDH 1   +
gene-2  mga CDS 1   -

any ideas?

Answer 1

with open("file1.txt") as f, open("file2.txt") as f1:
    items  = set(line.rstrip() for line in f)
    filtered = [line for line in f1 if "  ".join(line.split()[::4]) in items]
    with open("file2.txt","w") as f3:
        f3.writelines(filtered)

Answer 2

with open('file1', 'r') as f:
    keepers = set(tuple(line.split()) for line in f)
with open('file2', 'r') as f_in, open('file3', 'w') as f_out:
    for line in f_in:
        parts = line.split()
        if (parts[0], parts[-1]) in keepers:
            f_out.write(line)