Zinc in PDB 9ekb: Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta

All present enzymatic activity of Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta:
2.7.7.7;

The structure of Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta also contains other interesting chemical elements:

Iron

(Fe)

4 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta (pdb code 9ekb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta, PDB code: 9ekb:

Zinc binding site 1 out of 1 in the Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1201 b:204.9 occ:1.00 SG A:CYS1015 2.3 181.1 1.0 SG A:CYS1029 2.3 175.5 1.0 SG A:CYS1012 2.3 174.6 1.0 SG A:CYS1026 2.3 180.8 1.0 CB A:CYS1029 3.0 175.5 1.0 CB A:CYS1015 3.3 181.1 1.0 CB A:CYS1012 3.3 174.6 1.0 N A:CYS1015 3.6 181.1 1.0 N A:CYS1026 3.6 180.8 1.0 CB A:CYS1026 3.7 180.8 1.0 N A:CYS1029 3.8 175.5 1.0 CA A:CYS1015 4.0 181.1 1.0 CA A:CYS1029 4.0 175.5 1.0 CA A:CYS1026 4.1 180.8 1.0 CB A:VAL1025 4.5 170.9 1.0 C A:VAL1025 4.6 170.9 1.0 C A:GLY1014 4.6 170.7 1.0 CA A:VAL1025 4.6 170.9 1.0 C A:CYS1026 4.6 180.8 1.0 CA A:CYS1012 4.7 174.6 1.0 O A:CYS1026 4.7 180.8 1.0 C A:PHE1028 4.8 178.9 1.0 OG1 A:THR1017 4.8 176.6 1.0 CA A:GLY1014 4.8 170.7 1.0 CB A:PHE1028 4.8 178.9 1.0 N A:GLY1014 4.9 170.7 1.0

K.S.Murakami, Y.Shin, M.Hedglin. Cryo-Em Structure of Apo-Form Human Dna Polymerase Delta Elucidates Its Minimal Dna Synthesis Activity Without Pcna To Be Published.