Iron in PDB 7s0t: Structure of Dna Polymerase Zeta with Mismatched Dna

All present enzymatic activity of Structure of Dna Polymerase Zeta with Mismatched Dna:
2.7.7.7;

The structure of Structure of Dna Polymerase Zeta with Mismatched Dna also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Iron atom in the Structure of Dna Polymerase Zeta with Mismatched Dna (pdb code 7s0t). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Structure of Dna Polymerase Zeta with Mismatched Dna, PDB code: 7s0t:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Structure of Dna Polymerase Zeta with Mismatched Dna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Dna Polymerase Zeta with Mismatched Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1601 b:69.6 occ:1.00 FE1 A:SF41601 0.0 69.6 1.0 S4 A:SF41601 2.1 69.6 1.0 S2 A:SF41601 2.1 69.6 1.0 S3 A:SF41601 2.1 69.6 1.0 SG A:CYS1473 2.9 64.9 1.0 FE3 A:SF41601 3.0 69.6 1.0 FE2 A:SF41601 3.0 69.6 1.0 FE4 A:SF41601 3.0 69.6 1.0 CB A:CYS1473 3.2 64.9 1.0 S1 A:SF41601 3.7 69.6 1.0 CB A:VAL1475 3.7 62.8 1.0 N A:PHE1476 4.0 62.5 1.0 CG1 A:VAL1475 4.4 62.8 1.0 CG2 A:VAL1475 4.5 62.8 1.0 CA A:VAL1475 4.5 62.8 1.0 C A:VAL1475 4.6 62.8 1.0 CD A:ARG852 4.6 63.7 1.0 CA A:CYS1473 4.7 64.9 1.0 CB A:PHE1476 4.7 62.5 1.0 N A:VAL1475 4.7 62.8 1.0 CG A:ARG852 4.8 63.7 1.0 CA A:PHE1476 4.8 62.5 1.0 O A:CYS1473 4.9 64.9 1.0 C A:CYS1473 4.9 64.9 1.0

Iron binding site 2 out of 4 in the Structure of Dna Polymerase Zeta with Mismatched Dna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Dna Polymerase Zeta with Mismatched Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1601 b:69.6 occ:1.00 FE2 A:SF41601 0.0 69.6 1.0 S4 A:SF41601 2.1 69.6 1.0 S3 A:SF41601 2.1 69.6 1.0 S1 A:SF41601 2.1 69.6 1.0 SG A:CYS1449 3.0 68.5 1.0 FE4 A:SF41601 3.0 69.6 1.0 FE3 A:SF41601 3.0 69.6 1.0 FE1 A:SF41601 3.0 69.6 1.0 CB A:CYS1449 3.7 68.5 1.0 S2 A:SF41601 3.7 69.6 1.0 CG A:PRO854 3.8 62.6 1.0 CG A:ARG852 4.0 63.7 1.0 CA A:PRO854 4.1 62.6 1.0 CB A:PRO854 4.1 62.6 1.0 N A:PRO854 4.2 62.6 1.0 CD A:PRO854 4.4 62.6 1.0 CD A:ARG852 4.6 63.7 1.0 SG A:CYS1468 4.6 62.7 1.0 C A:LEU853 4.7 62.0 1.0 O A:LEU853 4.9 62.0 1.0

Iron binding site 3 out of 4 in the Structure of Dna Polymerase Zeta with Mismatched Dna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of Dna Polymerase Zeta with Mismatched Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1601 b:69.6 occ:1.00 FE3 A:SF41601 0.0 69.6 1.0 S1 A:SF41601 2.1 69.6 1.0 S4 A:SF41601 2.1 69.6 1.0 S2 A:SF41601 2.1 69.6 1.0 SG A:CYS1468 3.0 62.7 1.0 FE2 A:SF41601 3.0 69.6 1.0 FE1 A:SF41601 3.0 69.6 1.0 FE4 A:SF41601 3.0 69.6 1.0 NH2 A:ARG1479 3.5 66.5 1.0 CB A:CYS1468 3.6 62.7 1.0 S3 A:SF41601 3.7 69.6 1.0 O A:CYS1468 4.6 62.7 1.0 SG A:CYS1446 4.6 68.2 1.0 CZ A:ARG1479 4.7 66.5 1.0 CB A:PHE1476 4.7 62.5 1.0 C A:CYS1468 4.8 62.7 1.0 CA A:CYS1468 4.9 62.7 1.0 CB A:PRO854 4.9 62.6 1.0 CB A:SER1470 5.0 61.9 1.0 O A:ALA1465 5.0 64.0 1.0 CA A:PRO854 5.0 62.6 1.0 NE A:ARG1479 5.0 66.5 1.0

Iron binding site 4 out of 4 in the Structure of Dna Polymerase Zeta with Mismatched Dna


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of Dna Polymerase Zeta with Mismatched Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1601 b:69.6 occ:1.00 FE4 A:SF41601 0.0 69.6 1.0 S1 A:SF41601 2.1 69.6 1.0 S2 A:SF41601 2.1 69.6 1.0 S3 A:SF41601 2.1 69.6 1.0 FE2 A:SF41601 3.0 69.6 1.0 FE3 A:SF41601 3.0 69.6 1.0 FE1 A:SF41601 3.0 69.6 1.0 SG A:CYS1446 3.1 68.2 1.0 CA A:CYS1446 3.3 68.2 1.0 CB A:CYS1446 3.5 68.2 1.0 S4 A:SF41601 3.7 69.6 1.0 CG1 A:VAL1475 3.9 62.8 1.0 N A:CYS1446 4.0 68.2 1.0 CB A:CYS1449 4.2 68.5 1.0 C A:CYS1446 4.4 68.2 1.0 O A:CYS1446 4.4 68.2 1.0 CB A:VAL1475 4.4 62.8 1.0 O A:VAL1445 4.4 65.4 1.0 C A:VAL1445 4.5 65.4 1.0 SG A:CYS1449 4.7 68.5 1.0 CG1 A:VAL1445 4.9 65.4 1.0

R.Malik, R.E.Johnson, L.Prakash, S.Prakash, I.Ubarretxena-Belandia, A.K.Aggarwal. Cryo-Em Structure of Translesion Dna Synthesis Polymerase Zeta with A Base Pair Mismatch. Nat Commun V. 13 1050 2022.
ISSN: ESSN 2041-1723
PubMed: 35217661
DOI: 10.1038/S41467-022-28644-7