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Magnesium in PDB 1q3b: Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution.

Protein crystallography data

The structure of Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution., PDB code: 1q3b was solved by G.Golan, D.O.Zharkov, H.Feinberg, A.S.Fernandes, E.I.Zaika, J.H.Kycia, A.P.Grollman, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.21 / 2.05
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 57.722, 80.051, 169.311, 90.00, 90.00, 90.00
R / Rfree (%) 22.8 / 26

Other elements in 1q3b:

The structure of Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution. also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution. (pdb code 1q3b). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution., PDB code: 1q3b:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1q3b

Go back to Magnesium Binding Sites List in 1q3b
Magnesium binding site 1 out of 2 in the Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:29.5
occ:1.00
O A:HIS262 1.9 41.7 1.0
O A:HOH530 2.3 40.0 1.0
CE1 A:HIS184 2.3 49.8 1.0
NE2 A:HIS184 2.4 49.0 1.0
C A:HIS262 2.7 41.2 1.0
OXT A:HIS262 2.9 41.2 1.0
ND1 A:HIS184 3.6 48.6 1.0
CD2 A:HIS262 3.6 43.0 1.0
CD2 A:HIS184 3.7 48.0 1.0
CG A:HIS262 4.1 41.0 1.0
CA A:HIS262 4.1 40.4 1.0
NE2 A:HIS262 4.2 43.3 1.0
CG A:HIS184 4.3 47.8 1.0
CB A:HIS262 4.4 39.7 1.0
CD2 A:LEU180 4.5 40.1 1.0
ND1 A:HIS262 4.8 42.0 1.0
CE1 A:HIS262 4.9 42.7 1.0

Magnesium binding site 2 out of 2 in 1q3b

Go back to Magnesium Binding Sites List in 1q3b
Magnesium binding site 2 out of 2 in the Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Dna Repair Enzyme Endonuclease-VIII (Nei) From E. Coli: the R252A Mutant at 2.05 Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg303

b:20.9
occ:1.00
NE2 A:HIS220 2.0 56.5 1.0
O A:HOH468 2.3 29.9 1.0
CD2 A:HIS220 2.9 56.2 1.0
CE1 A:HIS220 3.1 56.2 1.0
CG A:HIS220 4.1 55.6 1.0
ND1 A:HIS220 4.1 55.5 1.0
CB A:HIS221 4.5 47.4 1.0

Reference:

G.Golan, D.O.Zharkov, H.Feinberg, A.S.Fernandes, E.I.Zaika, J.H.Kycia, A.P.Grollman, G.Shoham. Structure of the Uncomplexed Dna Repair Enzyme Endonuclease VIII Indicates Significant Interdomain Flexibility. Nucleic Acids Res. V. 33 5006 2005.
ISSN: ISSN 0305-1048
PubMed: 16145054
DOI: 10.1093/NAR/GKI796
Page generated: Mon Dec 14 06:36:53 2020

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