Iron in PDB 8d9d: Human Dna Polymerase-Alpha/Primase Elongation Complex II Bound to Primer/Template

All present enzymatic activity of Human Dna Polymerase-Alpha/Primase Elongation Complex II Bound to Primer/Template:
2.7.7.102; 2.7.7.7;

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

Magnesium	(Mg)	2 atoms
Zinc	(Zn)	3 atoms

The binding sites of Iron atom in the Human Dna Polymerase-Alpha/Primase Elongation Complex II Bound to Primer/Template (pdb code 8d9d). 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 II Bound to Primer/Template, PDB code: 8d9d:
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 II 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 II Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:79.4 occ:1.00 FE1 B:SF4601 0.0 79.4 1.0 SG B:CYS367 2.3 98.2 1.0 S4 B:SF4601 2.3 79.4 1.0 S3 B:SF4601 2.3 79.4 1.0 S2 B:SF4601 2.3 79.4 1.0 FE2 B:SF4601 2.7 79.4 1.0 FE3 B:SF4601 2.7 79.4 1.0 FE4 B:SF4601 2.7 79.4 1.0 CB B:CYS367 3.6 98.2 1.0 S1 B:SF4601 3.9 79.4 1.0 CA B:CYS367 4.4 98.2 1.0 SG B:CYS384 4.5 92.4 1.0 CG B:PRO444 4.7 96.0 1.0 SG B:CYS424 4.7 116.9 1.0 SG B:CYS287 4.9 83.0 1.0 O B:CYS367 4.9 98.2 1.0

Iron binding site 2 out of 4 in the Human Dna Polymerase-Alpha/Primase Elongation Complex II 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 II Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:79.4 occ:1.00 FE2 B:SF4601 0.0 79.4 1.0 SG B:CYS384 2.3 92.4 1.0 S3 B:SF4601 2.3 79.4 1.0 S1 B:SF4601 2.3 79.4 1.0 S4 B:SF4601 2.3 79.4 1.0 FE1 B:SF4601 2.7 79.4 1.0 FE4 B:SF4601 2.7 79.4 1.0 FE3 B:SF4601 2.7 79.4 1.0 CB B:CYS384 3.7 92.4 1.0 S2 B:SF4601 3.9 79.4 1.0 CA B:CYS384 4.3 92.4 1.0 SG B:CYS367 4.4 98.2 1.0 SG B:CYS287 4.5 83.0 1.0 CD2 B:PHE386 4.5 101.9 1.0 CD B:PRO385 4.6 97.7 1.0 SG B:CYS424 4.8 116.9 1.0 CB B:PHE386 4.9 101.9 1.0 CB B:CYS287 4.9 83.0 1.0 C B:CYS384 5.0 92.4 1.0 N B:PRO385 5.0 97.7 1.0

Iron binding site 3 out of 4 in the Human Dna Polymerase-Alpha/Primase Elongation Complex II 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 II Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:79.4 occ:1.00 FE3 B:SF4601 0.0 79.4 1.0 S4 B:SF4601 2.3 79.4 1.0 S2 B:SF4601 2.3 79.4 1.0 S1 B:SF4601 2.3 79.4 1.0 SG B:CYS424 2.3 116.9 1.0 FE1 B:SF4601 2.7 79.4 1.0 FE4 B:SF4601 2.7 79.4 1.0 FE2 B:SF4601 2.7 79.4 1.0 CB B:CYS424 3.3 116.9 1.0 S3 B:SF4601 3.9 79.4 1.0 CB B:PRO285 4.5 72.1 1.0 CD2 B:LEU441 4.6 112.6 1.0 CA B:CYS424 4.6 116.9 1.0 SG B:CYS367 4.8 98.2 1.0 CD2 B:PHE386 4.8 101.9 1.0 CE2 B:PHE386 4.8 101.9 1.0 SG B:CYS287 4.8 83.0 1.0 CD B:PRO286 4.8 79.0 1.0 CG B:PRO286 4.9 79.0 1.0 SG B:CYS384 4.9 92.4 1.0

Iron binding site 4 out of 4 in the Human Dna Polymerase-Alpha/Primase Elongation Complex II 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 II Bound to Primer/Template within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:79.4 occ:1.00 FE4 B:SF4601 0.0 79.4 1.0 S3 B:SF4601 2.3 79.4 1.0 S1 B:SF4601 2.3 79.4 1.0 SG B:CYS287 2.3 83.0 1.0 S2 B:SF4601 2.3 79.4 1.0 FE2 B:SF4601 2.7 79.4 1.0 FE1 B:SF4601 2.7 79.4 1.0 FE3 B:SF4601 2.7 79.4 1.0 CB B:CYS287 3.6 83.0 1.0 S4 B:SF4601 3.9 79.4 1.0 CB B:PRO285 4.0 72.1 1.0 N B:CYS287 4.4 83.0 1.0 CG B:PRO285 4.4 72.1 1.0 CG B:PRO444 4.6 96.0 1.0 CA B:CYS287 4.6 83.0 1.0 SG B:CYS384 4.6 92.4 1.0 SG B:CYS424 4.8 116.9 1.0 SG B:CYS367 4.9 98.2 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