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Magnesium in PDB 4zg5: Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus

Enzymatic activity of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus

All present enzymatic activity of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus:
3.1.3.5;

Protein crystallography data

The structure of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus, PDB code: 4zg5 was solved by K.F.Tarique, S.A.Abdul Rehman, S.Devi, S.Gourinath, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 50.181, 121.068, 82.431, 90.00, 93.58, 90.00
R / Rfree (%) 19.8 / 22.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus (pdb code 4zg5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus, PDB code: 4zg5:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 4zg5

Go back to Magnesium Binding Sites List in 4zg5
Magnesium binding site 1 out of 4 in the Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg301

b:28.5
occ:1.00
 OD1 D:ASP9 1.9 28.6 1.0
OD1 D:ASN92 2.0 27.1 1.0
OD2 D:ASP8 2.0 27.6 1.0
O D:HOH425 2.1 26.2 1.0
O D:HOH438 2.1 30.7 1.0
O D:HOH424 2.1 25.8 1.0
CG D:ASP8 3.0 31.6 1.0
CG D:ASP9 3.0 27.1 1.0
CG D:ASN92 3.1 27.3 1.0
OD1 D:ASP8 3.3 41.4 1.0
ND2 D:ASN92 3.6 27.6 1.0
OD2 D:ASP9 3.7 27.9 1.0
O D:HOH440 4.0 29.6 1.0
N D:ASP9 4.1 25.1 1.0
C D:ASP8 4.2 25.6 1.0
CB D:ASP9 4.2 25.4 1.0
OD1 D:ASP38 4.2 34.0 1.0
CA D:ASP9 4.3 25.1 1.0
O D:HOH447 4.3 21.6 1.0
CB D:ASP8 4.3 27.3 1.0
CB D:ASN92 4.4 26.5 1.0
O D:ASP8 4.5 24.4 1.0
O D:SER93 4.5 27.6 1.0
N D:SER93 4.6 27.9 1.0
OG1 D:THR106 4.6 26.6 1.0
CA D:ASP8 4.8 24.6 1.0
CA D:ASN92 4.9 26.9 1.0

Magnesium binding site 2 out of 4 in 4zg5

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Magnesium binding site 2 out of 4 in the Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:31.4
occ:1.00
 OD1 A:ASP9 1.9 32.6 1.0
O A:HOH402 2.0 26.0 1.0
OD2 A:ASP8 2.0 28.6 1.0
O A:HOH407 2.0 34.0 1.0
OD1 A:ASN92 2.0 33.8 1.0
O A:HOH415 2.1 37.9 1.0
OD1 A:ASP8 2.2 38.3 1.0
CG A:ASP8 2.6 30.9 1.0
CG A:ASP9 3.1 28.9 1.0
CG A:ASN92 3.1 31.4 1.0
ND2 A:ASN92 3.6 34.2 1.0
OD2 A:ASP9 3.8 29.5 1.0
O A:HOH414 4.0 33.0 1.0
N A:ASP9 4.0 28.6 1.0
CB A:ASP8 4.1 28.8 1.0
C A:ASP8 4.1 27.7 1.0
O A:HOH440 4.2 18.4 1.0
CA A:ASP9 4.2 28.4 1.0
CB A:ASP9 4.2 31.7 1.0
OD1 A:ASP38 4.2 34.3 1.0
O A:ASP8 4.3 28.6 1.0
CB A:ASN92 4.5 30.4 1.0
OG1 A:THR106 4.5 28.3 1.0
CA A:ASP8 4.7 28.4 1.0
O A:SER93 4.7 40.4 1.0
N A:SER93 4.7 33.3 1.0
O A:HOH441 4.8 43.1 1.0
OG A:SER40 4.9 42.4 1.0
CA A:ASN92 5.0 31.9 1.0

Magnesium binding site 3 out of 4 in 4zg5

Go back to Magnesium Binding Sites List in 4zg5
Magnesium binding site 3 out of 4 in the Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg301

b:26.6
occ:1.00
 OD1 C:ASP9 1.9 25.3 1.0
OD2 C:ASP8 2.0 27.6 1.0
OD1 C:ASN92 2.0 26.0 1.0
O C:HOH428 2.0 25.4 1.0
O C:HOH423 2.1 27.1 1.0
O C:HOH418 2.1 29.6 1.0
CG C:ASP8 3.0 29.1 1.0
CG C:ASP9 3.0 26.8 1.0
CG C:ASN92 3.1 28.0 1.0
OD1 C:ASP8 3.3 44.6 1.0
ND2 C:ASN92 3.6 22.3 1.0
OD2 C:ASP9 3.7 28.9 1.0
O C:HOH436 4.0 25.7 1.0
N C:ASP9 4.2 25.6 1.0
CB C:ASP9 4.3 28.7 1.0
OD1 C:ASP38 4.3 40.8 1.0
C C:ASP8 4.3 27.1 1.0
O C:HOH441 4.3 20.6 1.0
CA C:ASP9 4.3 24.8 1.0
CB C:ASP8 4.4 32.2 1.0
O C:SER93 4.4 29.5 1.0
CB C:ASN92 4.4 29.7 1.0
O C:ASP8 4.5 23.0 1.0
N C:SER93 4.6 28.6 1.0
OG C:SER40 4.6 46.4 1.0
OG1 C:THR106 4.7 26.1 1.0
CA C:ASP8 4.8 28.2 1.0
CA C:ASN92 4.9 28.3 1.0

Magnesium binding site 4 out of 4 in 4zg5

Go back to Magnesium Binding Sites List in 4zg5
Magnesium binding site 4 out of 4 in the Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg301

b:31.5
occ:1.00
 OD1 G:ASP9 1.8 32.1 1.0
OD1 G:ASN92 1.9 32.1 1.0
O G:HOH403 2.0 33.5 1.0
OD2 G:ASP8 2.0 30.9 1.0
O G:HOH422 2.0 30.3 1.0
O G:HOH414 2.0 33.1 1.0
CG G:ASP9 3.0 33.6 1.0
CG G:ASP8 3.0 33.1 1.0
CG G:ASN92 3.0 32.8 1.0
OD1 G:ASP8 3.4 39.9 1.0
ND2 G:ASN92 3.6 30.7 1.0
OD2 G:ASP9 3.6 34.8 1.0
OD1 G:ASP38 3.8 53.0 1.0
O G:HOH427 4.0 28.7 1.0
N G:ASP9 4.1 30.2 1.0
CB G:ASP9 4.2 34.3 1.0
C G:ASP8 4.2 31.8 1.0
CA G:ASP9 4.3 31.5 1.0
CB G:ASN92 4.3 32.2 1.0
CB G:ASP8 4.3 31.9 1.0
O G:SER93 4.3 35.3 1.0
N G:SER93 4.4 36.7 1.0
O G:HOH432 4.5 24.0 1.0
O G:ASP8 4.5 30.8 1.0
OG G:SER40 4.5 46.2 1.0
OG1 G:THR106 4.6 31.7 1.0
CA G:ASP8 4.7 33.7 1.0
CA G:ASN92 4.7 33.9 1.0
CG G:ASP38 4.9 54.5 1.0

Reference:

K.F.Tarique, S.A.Abdul Rehman, S.Devi, S.Gourinath. Structural and Functional Insights Into Survival Endonuclease, An Important Virulence Factor of Brucella Abortus To Be Published.
Page generated: Sun Sep 29 00:00:43 2024

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