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Magnesium in PDB 2kfz: Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only

Enzymatic activity of Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only

All present enzymatic activity of Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only:
2.7.7.7;

Protein crystallography data

The structure of Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only, PDB code: 2kfz was solved by C.A.Brautigam, S.Sun, J.A.Piccirilli, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.03
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 102.900, 102.900, 86.400, 90.00, 90.00, 90.00
R / Rfree (%) 21.5 / 25.5

Other elements in 2kfz:

The structure of Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only (pdb code 2kfz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only, PDB code: 2kfz:

Magnesium binding site 1 out of 1 in 2kfz

Go back to Magnesium Binding Sites List in 2kfz
Magnesium binding site 1 out of 1 in the Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Klenow Fragment with Bridging-Sulfur Substrate and Zinc Only within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg321

b:64.0
occ:1.00
OH A:TYR791 1.9 47.1 1.0
OD1 A:ASN761 2.3 39.5 1.0
CZ A:TYR791 2.9 44.4 1.0
CD2 A:LEU723 3.2 31.6 1.0
CG A:ASN761 3.2 40.2 1.0
CE2 A:TYR791 3.3 44.0 1.0
OG1 A:THR737 3.8 39.9 1.0
ND2 A:ASN761 3.8 33.0 1.0
CD1 A:LEU723 3.9 29.5 1.0
CE A:MET714 3.9 47.9 1.0
CE1 A:TYR791 4.1 44.1 1.0
CG A:LEU723 4.2 33.3 1.0
CG2 A:THR737 4.4 31.5 1.0
CB A:ASN761 4.4 38.9 1.0
CD2 A:TYR791 4.7 41.0 1.0
CB A:THR737 4.7 32.3 1.0
CA A:ASN761 4.7 43.5 1.0
CD2 A:TYR795 4.8 34.8 1.0
CD1 A:LEU764 4.8 48.5 1.0
CE2 A:TYR795 5.0 35.1 1.0

Reference:

C.A.Brautigam, S.Sun, J.A.Piccirilli, T.A.Steitz. Structures of Normal Single-Stranded Dna and Deoxyribo-3'-S-Phosphorothiolates Bound to the 3'-5' Exonucleolytic Active Site of Dna Polymerase I From Escherichia Coli. Biochemistry V. 38 696 1999.
ISSN: ISSN 0006-2960
PubMed: 9888810
DOI: 10.1021/BI981537G
Page generated: Mon Dec 14 07:30:00 2020

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