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Cobalt in PDB 3si8: Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2)

Enzymatic activity of Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2)

All present enzymatic activity of Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2):
2.7.7.7;

Protein crystallography data

The structure of Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2), PDB code: 3si8 was solved by C.Biertumpfel, Y.Zhao, Y.Kondo, S.Ramon-Maiques, M.Gregory, J.Y.Lee, C.Masutani, A.R.Lehmann, F.Hanaoka, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.28 / 2.15
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 61.236, 80.259, 139.759, 90.00, 90.00, 90.00
R / Rfree (%) 24.1 / 25.8

Other elements in 3si8:

The structure of Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2) also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2) (pdb code 3si8). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2), PDB code: 3si8:

Cobalt binding site 1 out of 1 in 3si8

Go back to Cobalt Binding Sites List in 3si8
Cobalt binding site 1 out of 1 in the Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2)


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Human Dna Polymerase Eta - Dna Ternary Complex with the 5'T of A Cpd in the Active Site (TT2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co452

b:43.7
occ:1.00
 NE2 A:HIS397 1.9 47.4 1.0
NE2 A:HIS393 1.9 45.1 1.0
CE1 A:HIS397 2.8 43.8 1.0
CE1 A:HIS393 2.8 47.7 1.0
CD2 A:HIS397 2.9 42.8 1.0
CD2 A:HIS393 2.9 45.7 1.0
ND1 A:HIS397 3.9 44.6 1.0
ND1 A:HIS393 4.0 46.3 1.0
CG A:HIS397 4.0 46.6 1.0
CG A:HIS393 4.0 48.8 1.0
OE1 A:GLN338 4.5 62.6 1.0
CD A:GLN338 4.9 60.4 1.0

Reference:

C.Biertumpfel, Y.Zhao, Y.Kondo, S.Ramon-Maiques, M.Gregory, J.Y.Lee, C.Masutani, A.R.Lehmann, F.Hanaoka, W.Yang. Structure and Mechanism of Human Dna Polymerase Eta. Nature V. 465 1044 2010.
ISSN: ISSN 0028-0836
PubMed: 20577208
DOI: 10.1038/NATURE09196
Page generated: Sun Jul 13 19:20:28 2025

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