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Magnesium in PDB 4iqj: Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome

Enzymatic activity of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome

All present enzymatic activity of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome:
2.7.7.7;

Protein crystallography data

The structure of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome, PDB code: 4iqj was solved by B.Liu, J.Lin, T.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 188.530, 94.970, 204.080, 90.00, 89.97, 90.00
R / Rfree (%) 26.4 / 30.5

Other elements in 4iqj:

The structure of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome also contains other interesting chemical elements:

Zinc (Zn) 12 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome (pdb code 4iqj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome, PDB code: 4iqj:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 4iqj

Go back to Magnesium Binding Sites List in 4iqj
Magnesium binding site 1 out of 4 in the Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1304

b:0.4
occ:1.00
 OD1 A:ASP463 1.8 0.5 1.0
OD2 A:ASP618 1.8 0.8 1.0
OD1 A:ASP465 2.4 0.4 1.0
CG A:ASP463 2.6 0.3 1.0
OD2 A:ASP463 2.7 0.9 1.0
CG A:ASP618 2.7 0.5 1.0
NZ A:LYS616 3.3 0.7 1.0
CB A:ASP618 3.4 0.7 1.0
CG A:ASP465 3.5 0.8 1.0
OD1 A:ASP618 3.6 0.5 1.0
O A:LYS616 3.7 0.3 1.0
N A:ASP618 3.8 0.7 1.0
C A:MET617 4.0 0.9 1.0
CB A:ASP463 4.1 0.3 1.0
OD2 A:ASP465 4.1 0.7 1.0
CE A:LYS616 4.2 0.5 1.0
CA A:ASP618 4.3 0.5 1.0
CA A:MET617 4.4 0.9 1.0
O A:MET617 4.5 0.1 1.0
O A:ILE464 4.5 0.1 1.0
C A:LYS616 4.5 1.0 1.0
CA A:ASP463 4.6 0.5 1.0
C A:ASP463 4.6 0.9 1.0
C A:ILE464 4.7 0.2 1.0
CB A:ASP465 4.7 0.8 1.0
CA A:ASP465 4.7 0.4 1.0
N A:ILE464 4.7 0.3 1.0
N A:ASP465 4.7 0.0 1.0
N A:MET617 4.8 0.9 1.0

Magnesium binding site 2 out of 4 in 4iqj

Go back to Magnesium Binding Sites List in 4iqj
Magnesium binding site 2 out of 4 in the Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1304

b:0.9
occ:1.00
 OD1 B:ASP465 2.4 0.3 1.0
OD2 B:ASP618 2.6 0.3 1.0
OD1 B:ASP463 2.6 0.7 1.0
OD2 B:ASP463 2.6 0.8 1.0
CG B:ASP463 2.8 1.0 1.0
CG B:ASP618 3.1 0.8 1.0
CE B:LYS616 3.5 0.4 1.0
N B:ASP618 3.5 0.5 1.0
CG B:ASP465 3.5 0.7 1.0
O B:ILE464 3.6 0.9 1.0
CB B:ASP618 3.6 0.2 1.0
OD1 B:ASP618 3.8 0.8 1.0
O B:LYS616 3.9 0.8 1.0
C B:MET617 4.0 0.8 1.0
CA B:MET617 4.0 0.3 1.0
C B:ILE464 4.0 1.0 1.0
CB B:ASP463 4.1 0.4 1.0
CA B:ASP618 4.1 0.6 1.0
OD2 B:ASP465 4.1 0.9 1.0
NZ B:LYS616 4.2 0.3 1.0
C B:ASP463 4.2 0.2 1.0
N B:ILE464 4.3 0.2 1.0
C B:LYS616 4.3 0.2 1.0
N B:MET617 4.4 0.1 1.0
CA B:ASP463 4.4 0.6 1.0
N B:ASP465 4.5 0.1 1.0
CA B:ASP465 4.6 0.5 1.0
O B:ASP463 4.6 0.7 1.0
CB B:ASP465 4.6 0.9 1.0
CD B:LYS616 4.7 0.6 1.0
CG B:LYS616 4.8 0.9 1.0
O B:MET617 4.8 0.8 1.0
CA B:ILE464 4.8 0.6 1.0

Magnesium binding site 3 out of 4 in 4iqj

Go back to Magnesium Binding Sites List in 4iqj
Magnesium binding site 3 out of 4 in the Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1304

b:0.7
occ:1.00
 OD2 C:ASP618 1.5 0.9 1.0
OD1 C:ASP465 1.8 0.1 1.0
OD2 C:ASP463 2.0 0.8 1.0
CG C:ASP465 2.6 0.1 1.0
CG C:ASP618 2.7 0.3 1.0
NZ C:LYS616 2.7 0.8 1.0
OD2 C:ASP465 2.8 1.0 1.0
CG C:ASP463 2.9 0.9 1.0
OD1 C:ASP463 3.4 0.1 1.0
CB C:ASP618 3.5 0.5 1.0
OD1 C:ASP618 3.7 0.9 1.0
CB C:ASP465 4.1 0.6 1.0
CE C:LYS616 4.1 0.1 1.0
CB C:ASP463 4.2 0.0 1.0
CA C:ASP465 4.6 0.5 1.0
N C:ASP618 4.7 0.1 1.0
CA C:ASP618 4.7 1.0 1.0
N C:ASP465 4.7 0.2 1.0
C C:ASP463 4.9 0.4 1.0
C C:ILE464 4.9 0.5 1.0
O C:ILE464 4.9 0.8 1.0
O C:ASP463 5.0 0.2 1.0

Magnesium binding site 4 out of 4 in 4iqj

Go back to Magnesium Binding Sites List in 4iqj
Magnesium binding site 4 out of 4 in the Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1304

b:0.3
occ:1.00
 OD1 D:ASP465 2.1 0.3 1.0
OD2 D:ASP618 3.0 1.0 1.0
OD1 D:ASP463 3.0 0.5 1.0
O D:ILE464 3.0 0.3 1.0
N D:ASP618 3.1 0.9 1.0
CG D:ASP618 3.2 0.4 1.0
CG D:ASP465 3.4 0.9 1.0
CG D:ASP463 3.4 0.8 1.0
OD2 D:ASP463 3.4 0.9 1.0
CB D:ASP618 3.5 0.3 1.0
C D:ILE464 3.5 0.4 1.0
C D:MET617 3.6 0.6 1.0
O D:LYS616 3.6 0.6 1.0
CA D:MET617 3.7 0.5 1.0
OD1 D:ASP618 3.9 0.9 1.0
CA D:ASP618 3.9 0.7 1.0
N D:ASP465 4.0 0.0 1.0
N D:ILE464 4.0 0.5 1.0
CA D:ASP465 4.1 0.8 1.0
CE D:LYS616 4.2 0.7 1.0
OD2 D:ASP465 4.2 0.3 1.0
CB D:ASP465 4.3 0.9 1.0
C D:LYS616 4.3 0.3 1.0
C D:ASP463 4.4 0.0 1.0
N D:MET617 4.4 0.6 1.0
CA D:ILE464 4.4 0.9 1.0
O D:MET617 4.5 0.7 1.0
NZ D:LYS616 4.6 0.4 1.0
CB D:ASP463 4.6 0.8 1.0
CA D:ASP463 4.7 0.6 1.0
O D:ASP618 4.8 0.7 1.0
CD D:LYS616 4.8 0.2 1.0
CB D:MET617 4.9 0.1 1.0
C D:ASP618 4.9 0.7 1.0
CG D:LYS616 4.9 0.0 1.0
CE D:MET617 4.9 0.7 1.0
O D:ASP463 5.0 1.0 1.0

Reference:

B.Liu, J.Lin, T.A.Steitz. Structure of Poliiialpha-Tauc-Dna Complex Suggests An Atomic Model of the Replisome Structure V. 21 658 2013.
ISSN: ISSN 0969-2126
PubMed: 23478062
DOI: 10.1016/J.STR.2013.02.002
Page generated: Fri Aug 16 16:58:53 2024

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