Iron in PDB 8foh: Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State

The binding sites of Iron atom in the Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State (pdb code 8foh). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State, PDB code: 8foh:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:15.8 occ:1.00 FE1 B:SF4601 0.0 15.8 1.0 SG B:CYS336 2.3 16.4 1.0 S2 B:SF4601 2.3 16.4 1.0 S3 B:SF4601 2.4 17.0 1.0 S4 B:SF4601 2.4 17.9 1.0 FE3 B:SF4601 2.7 16.1 1.0 FE4 B:SF4601 2.7 15.8 1.0 FE2 B:SF4601 2.7 16.8 1.0 CB B:CYS336 3.2 14.9 1.0 S1 B:SF4601 4.0 17.2 1.0 N B:CYS336 4.0 15.5 1.0 CA B:CYS336 4.2 14.7 1.0 CG B:PRO500 4.3 21.0 1.0 CB B:PRO334 4.3 14.5 1.0 CG B:PRO334 4.4 16.9 1.0 CB B:PRO500 4.7 15.2 1.0 SG B:CYS417 4.7 17.9 1.0 SG B:CYS434 4.8 18.7 1.0 CD1 B:ILE420 4.9 15.7 1.0 SG B:CYS474 4.9 16.5 1.0

Iron binding site 2 out of 4 in the Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:16.8 occ:1.00 FE2 B:SF4601 0.0 16.8 1.0 S1 B:SF4601 2.3 17.2 1.0 SG B:CYS434 2.3 18.7 1.0 S4 B:SF4601 2.3 17.9 1.0 S3 B:SF4601 2.4 17.0 1.0 FE3 B:SF4601 2.7 16.1 1.0 FE4 B:SF4601 2.7 15.8 1.0 FE1 B:SF4601 2.7 15.8 1.0 CB B:CYS434 3.2 16.4 1.0 CA B:CYS434 3.9 16.5 1.0 S2 B:SF4601 4.0 16.4 1.0 CD2 B:PHE436 4.1 17.1 1.0 C B:CYS434 4.6 18.3 1.0 CD B:PRO435 4.6 18.2 1.0 CE2 B:PHE436 4.7 18.5 1.0 SG B:CYS336 4.7 16.4 1.0 SG B:CYS474 4.7 16.5 1.0 CB B:CYS336 4.8 14.9 1.0 N B:PRO435 4.8 17.2 1.0 CB B:CYS474 4.8 15.0 1.0 SG B:CYS417 4.8 17.9 1.0

Iron binding site 3 out of 4 in the Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:16.1 occ:1.00 FE3 B:SF4601 0.0 16.1 1.0 SG B:CYS417 2.2 17.9 1.0 S4 B:SF4601 2.3 17.9 1.0 S1 B:SF4601 2.3 17.2 1.0 S2 B:SF4601 2.3 16.4 1.0 FE4 B:SF4601 2.7 15.8 1.0 FE2 B:SF4601 2.7 16.8 1.0 FE1 B:SF4601 2.7 15.8 1.0 CB B:CYS417 3.2 16.2 1.0 S3 B:SF4601 3.9 17.0 1.0 CA B:CYS417 4.1 16.1 1.0 CD B:PRO500 4.5 16.6 1.0 CG2 B:THR471 4.6 17.7 1.0 CG B:PRO500 4.6 21.0 1.0 SG B:CYS474 4.7 16.5 1.0 SG B:CYS434 4.8 18.7 1.0 N B:CYS417 4.8 16.8 1.0 SG B:CYS336 4.8 16.4 1.0 N B:PRO500 4.8 14.7 1.0

Iron binding site 4 out of 4 in the Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of S. Cerevisiae Dna Polymerase Alpha-Primase Complex in the Rna Synthesis State within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe601 b:15.8 occ:1.00 FE4 B:SF4601 0.0 15.8 1.0 SG B:CYS474 2.3 16.5 1.0 S2 B:SF4601 2.3 16.4 1.0 S3 B:SF4601 2.3 17.0 1.0 S1 B:SF4601 2.3 17.2 1.0 FE3 B:SF4601 2.7 16.1 1.0 FE2 B:SF4601 2.7 16.8 1.0 FE1 B:SF4601 2.7 15.8 1.0 CB B:CYS474 3.1 15.0 1.0 S4 B:SF4601 3.9 17.9 1.0 CE2 B:PHE436 4.2 18.5 1.0 CB B:PRO334 4.2 14.5 1.0 CD2 B:PHE436 4.4 17.1 1.0 CA B:CYS474 4.5 14.9 1.0 SG B:CYS417 4.6 17.9 1.0 SG B:CYS434 4.8 18.7 1.0 SG B:CYS336 4.8 16.4 1.0

Z.Yuan, R.Georgescu, H.Li, M.E.O'donnell. Molecular Choreography of Primer Synthesis By the Eukaryotic Pol Alpha-Primase. Biorxiv 2023.
ISSN: ISSN 2692-8205
PubMed: 37205351
DOI: 10.1101/2023.05.03.539257