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Cobalt in PDB 4k8z: Kod Polymerase in Binary Complex with Dsdna

Enzymatic activity of Kod Polymerase in Binary Complex with Dsdna

All present enzymatic activity of Kod Polymerase in Binary Complex with Dsdna:
2.7.7.7;

Protein crystallography data

The structure of Kod Polymerase in Binary Complex with Dsdna, PDB code: 4k8z was solved by K.Bergen, K.Betz, W.Welte, K.Diederichs, A.Marx, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.05 / 2.29
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 144.870, 111.780, 67.100, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 21.8

Other elements in 4k8z:

The structure of Kod Polymerase in Binary Complex with Dsdna also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Kod Polymerase in Binary Complex with Dsdna (pdb code 4k8z). 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 Kod Polymerase in Binary Complex with Dsdna, PDB code: 4k8z:

Cobalt binding site 1 out of 1 in 4k8z

Go back to Cobalt Binding Sites List in 4k8z
Cobalt binding site 1 out of 1 in the Kod Polymerase in Binary Complex with Dsdna


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Kod Polymerase in Binary Complex with Dsdna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co801

b:44.6
occ:1.00
CO A:NCO801 0.0 44.6 1.0
N2 A:NCO801 2.0 45.8 1.0
N1 A:NCO801 2.0 38.9 1.0
N4 A:NCO801 2.0 50.6 1.0
N6 A:NCO801 2.0 33.2 1.0
N3 A:NCO801 2.0 38.0 1.0
N5 A:NCO801 2.0 37.0 1.0
O A:GLY573 3.8 47.0 1.0
OE1 A:GLU576 3.8 67.1 1.0
O A:LEU575 4.0 39.3 1.0
O A:ASN568 4.0 40.9 1.0
O A:LEU571 4.4 42.1 1.0
C A:GLY573 4.9 48.1 1.0

Reference:

K.Bergen, K.Betz, W.Welte, K.Diederichs, A.Marx. Structures of Kod and 9N Dna Polymerases Complexed with Primer Template Duplex Chembiochem V. 14 1058 2013.
ISSN: ISSN 1439-4227
PubMed: 23733496
DOI: 10.1002/CBIC.201300175
Page generated: Sun Dec 13 10:44:58 2020

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