Magnesium in PDB 6mxo: Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg

Enzymatic activity of Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg

All present enzymatic activity of Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg:
2.7.7.7;

Protein crystallography data

The structure of Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg, PDB code: 6mxo was solved by H.Ouzon-Shubeita, S.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.86 / 2.04
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 98.560, 98.560, 81.713, 90.00, 90.00, 120.00
R / Rfree (%) 17.5 / 23

Other elements in 6mxo:

The structure of Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg also contains other interesting chemical elements:

Platinum (Pt) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg (pdb code 6mxo). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg, PDB code: 6mxo:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6mxo

Go back to Magnesium Binding Sites List in 6mxo
Magnesium binding site 1 out of 2 in the Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:10.1
occ:1.00
OD1 A:ASP13 2.0 12.3 1.0
O1B A:0KX501 2.1 11.3 1.0
OD2 A:ASP115 2.1 11.0 1.0
O2A A:0KX501 2.1 14.3 1.0
O1G A:0KX501 2.1 10.9 1.0
O A:MET14 2.2 10.3 1.0
CG A:ASP13 3.0 13.3 1.0
PB A:0KX501 3.1 13.0 1.0
CG A:ASP115 3.2 13.2 1.0
PG A:0KX501 3.3 12.9 1.0
PA A:0KX501 3.3 13.6 1.0
C A:MET14 3.4 11.0 1.0
OD2 A:ASP13 3.4 17.5 1.0
N3A A:0KX501 3.5 12.2 1.0
O3B A:0KX501 3.5 11.2 1.0
MG A:MG503 3.5 12.4 1.0
O A:HOH620 3.7 15.2 1.0
OD1 A:ASP115 3.7 13.5 1.0
N A:MET14 3.9 10.8 1.0
NZ A:LYS231 3.9 19.2 1.0
O3G A:0KX501 4.0 12.3 1.0
C5' A:0KX501 4.0 12.5 1.0
O5' A:0KX501 4.2 12.7 1.0
CA A:MET14 4.2 11.1 1.0
C A:ASP13 4.2 11.4 1.0
CB A:ASP13 4.3 12.9 1.0
O A:HOH674 4.4 14.9 1.0
N A:ASP15 4.4 10.9 1.0
O2G A:0KX501 4.5 11.8 1.0
CB A:ASP115 4.5 12.7 1.0
O2B A:0KX501 4.5 12.7 1.0
N A:CYS16 4.5 10.2 1.0
O A:ASP13 4.5 10.6 1.0
CE A:LYS231 4.6 21.5 1.0
CA A:ASP15 4.6 11.0 1.0
O1A A:0KX501 4.6 11.9 1.0
CB A:MET14 4.6 12.4 1.0
N A:PHE17 4.7 11.6 1.0
C A:ASP15 4.7 11.6 1.0
CA A:ASP13 4.8 11.5 1.0
CB A:PHE17 4.8 10.8 1.0
O A:ASP115 4.9 14.6 1.0

Magnesium binding site 2 out of 2 in 6mxo

Go back to Magnesium Binding Sites List in 6mxo
Magnesium binding site 2 out of 2 in the Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Hpoleta Incorporating Dctp Opposite the 3-Prime Pt(Dach)- Gg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg503

b:12.4
occ:1.00
OD2 A:ASP13 2.1 17.5 1.0
OE2 A:GLU116 2.1 15.0 1.0
OD1 A:ASP115 2.2 13.5 1.0
O3' P:DG9 2.2 18.4 1.0
O A:HOH674 2.3 14.9 1.0
O2A A:0KX501 2.3 14.3 1.0
CG A:ASP115 3.1 13.2 1.0
CG A:ASP13 3.1 13.3 1.0
CD A:GLU116 3.1 16.6 1.0
PA A:0KX501 3.3 13.6 1.0
C3' P:DG9 3.3 18.9 1.0
OD2 A:ASP115 3.4 11.0 1.0
OD1 A:ASP13 3.5 12.3 1.0
MG A:MG502 3.5 10.1 1.0
O1A A:0KX501 3.7 11.9 1.0
O5' A:0KX501 3.7 12.7 1.0
OG A:SER113 3.7 16.4 1.0
OE1 A:GLU116 3.8 17.1 1.0
O A:HOH620 3.9 15.2 1.0
C5' A:0KX501 4.0 12.5 1.0
CG A:GLU116 4.1 14.6 1.0
NZ A:LYS224 4.2 20.7 1.0
C4' P:DG9 4.2 19.0 1.0
CB A:GLU116 4.2 14.4 1.0
CB A:ASP13 4.4 12.9 1.0
C2' P:DG9 4.5 18.6 1.0
CB A:ASP115 4.5 12.7 1.0
C A:ASP115 4.6 14.3 1.0
O A:ASP115 4.6 14.6 1.0
O1G A:0KX501 4.7 10.9 1.0
N3A A:0KX501 4.8 12.2 1.0
C5' P:DG9 4.8 19.9 1.0
N A:GLU116 4.8 12.8 1.0
CB A:SER113 4.8 17.7 1.0
O A:HOH612 4.9 25.0 1.0
O1B A:0KX501 4.9 11.3 1.0
CA A:ASP115 4.9 13.7 1.0

Reference:

H.Ouzon-Shubeita, M.Baker, M.C.Koag, S.Lee. Structural Basis For the Bypass of the Major Oxaliplatin-Dna Adducts By Human Dna Polymerase Eta. Biochem. J. V. 476 747 2019.
ISSN: ESSN 1470-8728
PubMed: 30709915
DOI: 10.1042/BCJ20180848
Page generated: Mon Dec 14 23:38:38 2020

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