Fig 3. 5′-P of downstream oligo facilitates the productive complex assembly.

(A) Sequence of 1nt-gap DNA4 and the overall structure of AsfvPolX:1nt-gap DNA4 complex. AsfvPolX is shown as a cartoon with the palm and finger domains colored in cyan and white, respectively. The template strand, primer, and downstream oligo are shown as stick with the C atoms colored in green, yellow, and yellow, respectively. The template residue (G8) is indicated with arrow. (B) Sequences of 2nt-gap(P) DNA5 and 1nt-gap(P) DNA5. (C) Overall structure of AsfvPolX:1nt-gap(P) DNA5:dGTP. AsfvPolX is shown as cartoon with palm and finger domains colored in cyan and white, respectively. DNA is shown as sticks with the C atoms colored in yellow, green, and green, for the template strand, primer, and downstream oligo, respectively. dGTP is also shown as sticks, Mn²⁺ ions are shown as red spheres.