Iron in PDB 8d96: Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template

All present enzymatic activity of Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template:
2.7.7.7;

The structure of Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Iron atom in the Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template (pdb code 8d96). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template, PDB code: 8d96:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:223.0 occ:1.00 FE1 B:SF4601 0.0 223.0 1.0 SG B:CYS367 2.3 166.9 1.0 S4 B:SF4601 2.3 229.7 1.0 S3 B:SF4601 2.3 223.6 1.0 S2 B:SF4601 2.3 223.1 1.0 FE3 B:SF4601 2.7 228.2 1.0 FE2 B:SF4601 2.7 229.5 1.0 FE4 B:SF4601 2.7 226.8 1.0 CB B:CYS367 3.9 163.6 1.0 S1 B:SF4601 3.9 227.1 1.0 CD1 B:ILE371 4.2 210.1 1.0 CD2 B:LEU441 4.2 248.8 1.0 CG1 B:ILE371 4.3 208.7 1.0 CA B:CYS367 4.5 161.0 1.0 O B:CYS367 4.7 164.8 1.0 SG B:CYS384 4.7 238.6 1.0 SG B:CYS424 4.7 264.1 1.0 SG B:CYS287 4.9 209.8 1.0 CG B:LEU441 4.9 247.1 1.0 CG B:PRO444 5.0 198.8 1.0 CB B:CYS384 5.0 235.6 1.0 C B:CYS367 5.0 163.2 1.0

Iron binding site 2 out of 4 in the Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:229.5 occ:1.00 FE2 B:SF4601 0.0 229.5 1.0 SG B:CYS384 2.3 238.6 1.0 S4 B:SF4601 2.3 229.7 1.0 S1 B:SF4601 2.3 227.1 1.0 S3 B:SF4601 2.3 223.6 1.0 FE4 B:SF4601 2.7 226.8 1.0 FE1 B:SF4601 2.7 223.0 1.0 FE3 B:SF4601 2.7 228.2 1.0 CB B:CYS384 3.0 235.6 1.0 CA B:CYS384 3.6 236.7 1.0 S2 B:SF4601 3.9 223.1 1.0 CG1 B:ILE371 4.3 208.7 1.0 CD B:PRO385 4.3 256.9 1.0 CD2 B:PHE386 4.3 271.2 1.0 C B:CYS384 4.4 239.2 1.0 CD1 B:ILE371 4.5 210.1 1.0 N B:PRO385 4.6 258.0 1.0 SG B:CYS287 4.7 209.8 1.0 SG B:CYS367 4.7 166.9 1.0 N B:CYS384 4.8 235.5 1.0 SG B:CYS424 4.8 264.1 1.0 CB B:PHE386 4.9 271.7 1.0 N B:PHE386 4.9 269.6 1.0 CB B:CYS424 5.0 265.9 1.0 CG B:PHE386 5.0 271.9 1.0

Iron binding site 3 out of 4 in the Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:228.2 occ:1.00 FE3 B:SF4601 0.0 228.2 1.0 SG B:CYS424 2.3 264.1 1.0 S4 B:SF4601 2.3 229.7 1.0 S1 B:SF4601 2.3 227.1 1.0 S2 B:SF4601 2.3 223.1 1.0 FE1 B:SF4601 2.7 223.0 1.0 FE4 B:SF4601 2.7 226.8 1.0 FE2 B:SF4601 2.7 229.5 1.0 CB B:CYS424 3.1 265.9 1.0 S3 B:SF4601 3.9 223.6 1.0 CD2 B:LEU441 4.3 248.8 1.0 CE2 B:PHE386 4.4 271.6 1.0 CD2 B:PHE386 4.4 271.2 1.0 CB B:PRO285 4.4 184.3 1.0 CA B:CYS424 4.4 266.9 1.0 SG B:CYS367 4.7 166.9 1.0 SG B:CYS287 4.7 209.8 1.0 SG B:CYS384 4.8 238.6 1.0 CD B:PRO286 4.9 214.1 1.0

Iron binding site 4 out of 4 in the Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Human Dna Polymerase Alpha/Primase Elongation Complex I Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:226.8 occ:1.00 FE4 B:SF4601 0.0 226.8 1.0 SG B:CYS287 2.3 209.8 1.0 S2 B:SF4601 2.3 223.1 1.0 S1 B:SF4601 2.3 227.1 1.0 S3 B:SF4601 2.3 223.6 1.0 FE2 B:SF4601 2.7 229.5 1.0 FE3 B:SF4601 2.7 228.2 1.0 FE1 B:SF4601 2.7 223.0 1.0 CB B:CYS287 3.5 209.1 1.0 S4 B:SF4601 3.9 229.7 1.0 CB B:PRO285 4.1 184.3 1.0 N B:CYS287 4.4 208.4 1.0 CG B:PRO285 4.5 183.7 1.0 CA B:CYS287 4.6 208.0 1.0 CD B:PRO385 4.6 256.9 1.0 CA B:CYS384 4.7 236.7 1.0 SG B:CYS424 4.8 264.1 1.0 SG B:CYS384 4.8 238.6 1.0 CB B:CYS384 4.8 235.6 1.0 SG B:CYS367 4.9 166.9 1.0

Q.He, A.G.Baranovskiy, L.M.Morstadt, A.E.Lisova, N.D.Babayeva, B.L.Lusk, C.Lim, T.H.Tahirov. Structures of Human Primosome Elongation Complexes Nat.Struct.Mol.Biol. 2023.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-023-00971-3