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Calcium in PDB 3e0d: Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit

Enzymatic activity of Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit

All present enzymatic activity of Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit:
2.7.7.7;

Protein crystallography data

The structure of Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit, PDB code: 3e0d was solved by R.A.Wing, S.Bailey, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 4.60
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 149.546, 149.546, 163.338, 90.00, 90.00, 90.00
R / Rfree (%) 28.7 / 27.1

Calcium Binding Sites:

The binding sites of Calcium atom in the Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit (pdb code 3e0d). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit, PDB code: 3e0d:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 3e0d

Go back to Calcium Binding Sites List in 3e0d
Calcium binding site 1 out of 2 in the Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1221

b:47.8
occ:1.00
 O1G A:DTP1222 2.1 0.5 1.0
O2B A:DTP1222 2.2 0.5 1.0
O1A A:DTP1222 2.7 0.5 1.0
PG A:DTP1222 3.2 0.5 1.0
CB A:ASP463 3.3 0.3 1.0
PB A:DTP1222 3.4 0.5 1.0
O A:ASP463 3.5 0.3 1.0
O3B A:DTP1222 3.7 0.5 1.0
O2G A:DTP1222 3.7 0.5 1.0
PA A:DTP1222 3.9 0.5 1.0
O3A A:DTP1222 3.9 0.5 1.0
OD2 A:ASP465 4.0 1.0 1.0
C A:ASP463 4.1 0.1 1.0
CA A:ASP463 4.2 0.8 1.0
CG A:ASP463 4.4 0.5 1.0
OD2 A:ASP463 4.5 0.4 1.0
N A:ASP463 4.6 0.0 1.0
O3G A:DTP1222 4.6 0.5 1.0
C5' A:DTP1222 4.6 0.5 1.0
OG A:SER426 4.8 0.5 1.0
O1B A:DTP1222 4.8 0.5 1.0
O5' A:DTP1222 4.8 0.5 1.0
CG A:ASP465 4.8 0.2 1.0

Calcium binding site 2 out of 2 in 3e0d

Go back to Calcium Binding Sites List in 3e0d
Calcium binding site 2 out of 2 in the Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Insights Into the Replisome From the Crystral Structure of the Ternary Complex of the Eubacterial Dna Polymerase III Alpha-Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1221

b:47.8
occ:1.00
 O1G B:DTP1222 2.1 0.5 1.0
O2B B:DTP1222 2.2 0.5 1.0
O1A B:DTP1222 2.7 0.5 1.0
PG B:DTP1222 3.2 0.5 1.0
O B:ASP463 3.2 0.3 1.0
OD2 B:ASP465 3.3 1.0 1.0
PB B:DTP1222 3.4 0.5 1.0
CB B:ASP463 3.6 0.3 1.0
O3B B:DTP1222 3.7 0.5 1.0
O2G B:DTP1222 3.7 0.5 1.0
PA B:DTP1222 3.9 0.5 1.0
O3A B:DTP1222 3.9 0.5 1.0
C B:ASP463 4.0 0.1 1.0
CG B:ASP465 4.2 0.2 1.0
CA B:ASP463 4.3 0.8 1.0
OD1 B:ASP465 4.6 0.0 1.0
O3G B:DTP1222 4.6 0.5 1.0
C5' B:DTP1222 4.6 0.5 1.0
OD2 B:ASP463 4.7 0.4 1.0
CG B:ASP463 4.7 0.5 1.0
O1B B:DTP1222 4.8 0.5 1.0
O5' B:DTP1222 4.8 0.5 1.0
OG B:SER426 4.8 0.5 1.0
N B:ASP463 4.9 0.0 1.0
N B:SER426 4.9 0.6 1.0
CA B:GLY425 4.9 0.4 1.0
N B:ILE464 4.9 0.2 1.0
N B:ASP465 5.0 0.8 1.0

Reference:

R.A.Wing, S.Bailey, T.A.Steitz. Insights Into the Replisome From the Structure of A Ternary Complex of the Dna Polymerase III Alpha-Subunit. J.Mol.Biol. V. 382 859 2008.
ISSN: ISSN 0022-2836
PubMed: 18691598
DOI: 10.1016/J.JMB.2008.07.058
Page generated: Sat Jul 13 09:14:53 2024

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